Nrxn3 (neurexin 3) - Rat Genome Database

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Gene: Nrxn3 (neurexin 3) Rattus norvegicus
Analyze
Symbol: Nrxn3
Name: neurexin 3
RGD ID: 620212
Description: Predicted to enable calcium channel regulator activity. Predicted to be involved in several processes, including regulation of synaptic vesicle exocytosis; social behavior; and vocalization behavior. Predicted to act upstream of or within neurotransmitter secretion and synapse assembly. Predicted to be located in extracellular region; plasma membrane; and presynapse. Predicted to be integral component of membrane. Predicted to be part of protein-containing complex. Predicted to be active in GABA-ergic synapse. Orthologous to human NRXN3 (neurexin 3); INTERACTS WITH (S)-nicotine; 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC108351353; neurexin III; neurexin III-alpha; neurexin-3; neurexin-3-alpha; uncharacterized LOC108351353
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26107,641,760 - 109,272,849 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl6107,641,780 - 109,272,044 (+)Ensembl
Rnor_6.06112,133,204 - 114,069,589 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6112,133,204 - 114,067,564 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06121,410,790 - 122,710,220 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.06123,170,189 - 123,337,131 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46112,273,955 - 113,905,437 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16112,277,485 - 113,908,968 (+)NCBI
Celera6105,447,534 - 107,042,695 (+)NCBICelera
Cytogenetic Map6q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP,ISO)
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
butanal  (ISO)
carbamazepine  (ISO)
cerium trichloride  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
DDT  (EXP)
decabromodiphenyl ether  (EXP)
diarsenic trioxide  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
folic acid  (ISO)
genistein  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
mercury dibromide  (ISO)
methylmercury chloride  (ISO)
morphine  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N-nitrosourea  (EXP)
nickel atom  (ISO)
nicotine  (EXP,ISO)
O-methyleugenol  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
PCB138  (ISO)
permethrin  (EXP)
potassium chloride  (EXP)
potassium chromate  (ISO)
progesterone  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
theophylline  (ISO)
toluene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:7695896   PMID:9707552   PMID:9856994   PMID:11470830   PMID:12827191   PMID:18755801   PMID:19816407   PMID:22209245   PMID:24613359   PMID:25931508   PMID:26030848  


Genomics

Comparative Map Data
Nrxn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26107,641,760 - 109,272,849 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl6107,641,780 - 109,272,044 (+)Ensembl
Rnor_6.06112,133,204 - 114,069,589 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6112,133,204 - 114,067,564 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06121,410,790 - 122,710,220 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.06123,170,189 - 123,337,131 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46112,273,955 - 113,905,437 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16112,277,485 - 113,908,968 (+)NCBI
Celera6105,447,534 - 107,042,695 (+)NCBICelera
Cytogenetic Map6q31NCBI
NRXN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1478,170,373 - 79,868,291 (+)EnsemblGRCh38hg38GRCh38
GRCh381477,979,904 - 79,868,291 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371478,636,716 - 80,334,634 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361477,939,846 - 79,400,515 (+)NCBINCBI36hg18NCBI36
Build 341478,815,434 - 79,400,511NCBI
Celera1458,907,852 - 60,368,826 (+)NCBI
Cytogenetic Map14q24.3-q31.1NCBI
HuRef1458,802,637 - 60,499,988 (+)NCBIHuRef
CHM1_11478,576,541 - 80,274,856 (+)NCBICHM1_1
Nrxn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391288,689,454 - 90,301,709 (+)NCBIGRCm39mm39
GRCm39 Ensembl1288,689,646 - 90,301,709 (+)Ensembl
GRCm381288,722,701 - 90,334,935 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1288,722,876 - 90,334,935 (+)EnsemblGRCm38mm10GRCm38
MGSCv371290,191,834 - 91,573,375 (+)NCBIGRCm37mm9NCBIm37
MGSCv361289,466,878 - 90,738,084 (+)NCBImm8
Celera1290,282,588 - 91,666,317 (+)NCBICelera
Cytogenetic Map12D3NCBI
cM Map1242.94NCBI
Nrxn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554382,097,229 - 3,583,937 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554382,023,863 - 3,583,671 (+)NCBIChiLan1.0ChiLan1.0
NRXN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11477,929,795 - 79,625,895 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1478,002,036 - 79,619,696 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01458,729,335 - 60,444,769 (+)NCBIMhudiblu_PPA_v0panPan3
NRXN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1850,848,045 - 51,609,368 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl850,850,582 - 52,383,717 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha850,534,741 - 51,071,073 (+)NCBI
Dog10K_Boxer_Tasha851,427,552 - 51,944,545 (+)NCBI
ROS_Cfam_1.0851,081,918 - 52,615,277 (+)NCBI
UMICH_Zoey_3.1850,762,857 - 52,304,660 (+)NCBI
UNSW_CanFamBas_1.0850,774,523 - 52,306,862 (+)NCBI
UU_Cfam_GSD_1.0851,166,938 - 52,699,333 (+)NCBI
Nrxn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864023,602,657 - 25,148,845 (-)NCBI
SpeTri2.0NW_0049364886,920,133 - 8,466,316 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NRXN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7101,132,830 - 102,777,822 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17101,132,780 - 102,779,809 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27107,155,365 - 107,960,174 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NRXN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12455,443,640 - 57,184,356 (+)NCBI
Vero_WHO_p1.0NW_02366605343,631,911 - 44,942,614 (+)NCBI
Nrxn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473422,161,837 - 23,757,367 (-)NCBI

Position Markers
D6Rat48  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,150,645 - 109,150,773 (+)MAPPERmRatBN7.2
Rnor_6.06113,946,009 - 113,946,136NCBIRnor6.0
Rnor_5.06123,218,000 - 123,218,127UniSTSRnor5.0
RGSC_v3.46113,762,878 - 113,763,006RGDRGSC3.4
RGSC_v3.46113,762,879 - 113,763,006UniSTSRGSC3.4
RGSC_v3.16113,766,410 - 113,766,537RGD
Celera6106,922,615 - 106,922,740UniSTS
RH 3.4 Map6752.4RGD
RH 3.4 Map6752.4UniSTS
RH 2.0 Map6960.9RGD
FHH x ACI Map672.48RGD
Cytogenetic Map6q31UniSTS
D6Rat66  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,640,035 - 107,640,241 (+)MAPPERmRatBN7.2
Rnor_6.06112,131,256 - 112,131,461NCBIRnor6.0
Rnor_5.06121,408,842 - 121,409,047UniSTSRnor5.0
RGSC_v3.46112,272,006 - 112,272,212RGDRGSC3.4
RGSC_v3.46112,272,007 - 112,272,212UniSTSRGSC3.4
RGSC_v3.16112,275,537 - 112,275,743RGD
Celera6105,445,586 - 105,445,791UniSTS
SHRSP x BN Map665.7398UniSTS
SHRSP x BN Map665.7398RGD
FHH x ACI Map669.11RGD
Cytogenetic Map6q31UniSTS
D6Rat216  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.06112,151,249 - 112,151,615NCBIRnor6.0
Rnor_5.06121,428,835 - 121,429,201UniSTSRnor5.0
RGSC_v3.46112,291,999 - 112,292,399RGDRGSC3.4
RGSC_v3.46112,292,000 - 112,292,399UniSTSRGSC3.4
RGSC_v3.16112,295,389 - 112,296,009RGD
Celera6105,465,566 - 105,465,965UniSTS
FHH x ACI Map669.11UniSTS
FHH x ACI Map669.11RGD
Cytogenetic Map6q31UniSTS
D6Rat191  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,657,913 - 107,658,155 (+)MAPPERmRatBN7.2
Rnor_6.06112,149,132 - 112,149,373NCBIRnor6.0
Rnor_5.06121,426,718 - 121,426,959UniSTSRnor5.0
RGSC_v3.46112,289,882 - 112,290,123RGDRGSC3.4
RGSC_v3.46112,289,883 - 112,290,124UniSTSRGSC3.4
RGSC_v3.16112,293,406 - 112,293,969RGD
Celera6105,463,449 - 105,463,690UniSTS
RH 3.4 Map6746.1RGD
RH 3.4 Map6746.1UniSTS
RH 2.0 Map6969.8RGD
SHRSP x BN Map663.6898RGD
Cytogenetic Map6q31UniSTS
D6Got149  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,711,301 - 107,711,416 (+)MAPPERmRatBN7.2
Rnor_6.06112,202,159 - 112,202,273NCBIRnor6.0
Rnor_5.06121,479,427 - 121,479,541UniSTSRnor5.0
RGSC_v3.46112,344,521 - 112,344,636RGDRGSC3.4
RGSC_v3.46112,344,522 - 112,344,636UniSTSRGSC3.4
RGSC_v3.16112,348,053 - 112,348,167RGD
Celera6105,516,290 - 105,516,404UniSTS
RH 3.4 Map6748.7UniSTS
RH 3.4 Map6748.7RGD
RH 2.0 Map6963.5RGD
Cytogenetic Map6q31UniSTS
D6Got144  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,945,157 - 107,945,332 (+)MAPPERmRatBN7.2
Rnor_6.06112,436,538 - 112,436,712NCBIRnor6.0
Rnor_5.06121,713,495 - 121,713,669UniSTSRnor5.0
RGSC_v3.46112,584,059 - 112,584,234RGDRGSC3.4
RGSC_v3.46112,584,060 - 112,584,234UniSTSRGSC3.4
RGSC_v3.16112,587,591 - 112,587,765RGD
Celera6105,743,357 - 105,743,531UniSTS
RH 3.4 Map6750.0UniSTS
RH 3.4 Map6750.0RGD
RH 2.0 Map6966.3RGD
Cytogenetic Map6q31UniSTS
D6Got150  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,387,206 - 108,387,444 (+)MAPPERmRatBN7.2
Rnor_6.06112,901,446 - 112,901,683NCBIRnor6.0
Rnor_5.06122,177,896 - 122,178,133UniSTSRnor5.0
RGSC_v3.46113,041,259 - 113,041,497RGDRGSC3.4
RGSC_v3.46113,041,260 - 113,041,497UniSTSRGSC3.4
RGSC_v3.16113,044,791 - 113,045,028RGD
Celera6106,177,209 - 106,177,446UniSTS
RH 3.4 Map6757.1RGD
RH 3.4 Map6757.1UniSTS
RH 2.0 Map6973.8RGD
Cytogenetic Map6q31UniSTS
D6Got145  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,997,522 - 107,997,747 (+)MAPPERmRatBN7.2
Rnor_6.06112,489,132 - 112,489,356NCBIRnor6.0
Rnor_5.06121,766,089 - 121,766,313UniSTSRnor5.0
RGSC_v3.46112,637,621 - 112,637,846RGDRGSC3.4
RGSC_v3.46112,637,622 - 112,637,846UniSTSRGSC3.4
RGSC_v3.16112,641,153 - 112,641,377RGD
Celera6105,795,647 - 105,795,871UniSTS
RH 3.4 Map6748.3UniSTS
RH 3.4 Map6748.3RGD
RH 2.0 Map6973.9RGD
Cytogenetic Map6q31UniSTS
D6Got147  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,925,741 - 108,926,011 (+)MAPPERmRatBN7.2
Rnor_6.06113,442,075 - 113,442,342NCBIRnor6.0
Rnor_5.06122,716,586 - 122,716,853UniSTSRnor5.0
RGSC_v3.46113,524,672 - 113,524,940RGDRGSC3.4
RGSC_v3.46113,524,673 - 113,524,940UniSTSRGSC3.4
RGSC_v3.16113,528,203 - 113,528,471RGD
Celera6106,700,816 - 106,701,063UniSTS
RH 3.4 Map6749.0UniSTS
RH 3.4 Map6749.0RGD
RH 2.0 Map6989.8RGD
Cytogenetic Map6q31UniSTS
D6Got155  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,578,828 - 108,579,117 (+)MAPPERmRatBN7.2
Rnor_6.06113,095,432 - 113,095,720NCBIRnor6.0
Rnor_5.06122,370,089 - 122,370,377UniSTSRnor5.0
RGSC_v3.46113,175,945 - 113,176,234RGDRGSC3.4
RGSC_v3.46113,175,946 - 113,176,234UniSTSRGSC3.4
RGSC_v3.16113,179,477 - 113,179,765RGD
Celera6106,366,765 - 106,367,053UniSTS
RH 3.4 Map6748.9RGD
RH 3.4 Map6748.9UniSTS
Cytogenetic Map6q31UniSTS
D6Got200  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,268,391 - 108,268,465 (+)MAPPERmRatBN7.2
Rnor_6.06112,783,391 - 112,783,464NCBIRnor6.0
Rnor_6.0664,671,168 - 64,671,241NCBIRnor6.0
Rnor_5.0674,252,249 - 74,252,322UniSTSRnor5.0
Rnor_5.06122,059,841 - 122,059,914UniSTSRnor5.0
RGSC_v3.46112,921,266 - 112,921,339UniSTSRGSC3.4
RGSC_v3.16112,924,796 - 112,924,869RGD
Celera6106,058,422 - 106,058,495UniSTS
Cytogenetic Map6q31UniSTS
BE108622  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,925,489 - 108,925,641 (+)MAPPERmRatBN7.2
Rnor_6.06113,441,823 - 113,441,974NCBIRnor6.0
Rnor_5.06122,716,334 - 122,716,485UniSTSRnor5.0
RGSC_v3.46113,524,421 - 113,524,572UniSTSRGSC3.4
Celera6106,700,564 - 106,700,715UniSTS
RH 3.4 Map6750.8UniSTS
Cytogenetic Map6q31UniSTS
RH128451  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,775,236 - 107,775,441 (+)MAPPERmRatBN7.2
Rnor_6.06112,266,679 - 112,266,883NCBIRnor6.0
Rnor_5.06121,543,947 - 121,544,151UniSTSRnor5.0
RGSC_v3.46112,409,413 - 112,409,617UniSTSRGSC3.4
Celera6105,580,175 - 105,580,379UniSTS
RH 3.4 Map6746.2UniSTS
Cytogenetic Map6q31UniSTS
RH144490  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,478,474 - 108,478,601 (+)MAPPERmRatBN7.2
Rnor_6.06112,993,092 - 112,993,218NCBIRnor6.0
Rnor_5.06122,269,307 - 122,269,433UniSTSRnor5.0
Celera6106,268,272 - 106,268,398UniSTS
RH 3.4 Map6750.1UniSTS
Cytogenetic Map6q31UniSTS
RH144567  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,229,574 - 109,229,741 (+)MAPPERmRatBN7.2
Rnor_6.06114,026,198 - 114,026,364NCBIRnor6.0
Rnor_5.06123,295,954 - 123,296,120UniSTSRnor5.0
RGSC_v3.46113,845,559 - 113,845,725UniSTSRGSC3.4
Celera6107,001,452 - 107,001,618UniSTS
RH 3.4 Map6752.4UniSTS
Cytogenetic Map6q31UniSTS
BE101757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,345,124 - 108,345,318 (+)MAPPERmRatBN7.2
Rnor_6.06112,859,619 - 112,859,812NCBIRnor6.0
Rnor_5.06122,136,069 - 122,136,262UniSTSRnor5.0
RGSC_v3.46112,998,661 - 112,998,854UniSTSRGSC3.4
Celera6106,135,153 - 106,135,346UniSTS
RH 3.4 Map6748.1UniSTS
Cytogenetic Map6q31UniSTS
BF386965  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,168,072 - 109,168,257 (+)MAPPERmRatBN7.2
Rnor_6.06113,963,436 - 113,963,620NCBIRnor6.0
Rnor_5.06123,235,427 - 123,235,611UniSTSRnor5.0
RGSC_v3.46113,780,506 - 113,780,690UniSTSRGSC3.4
Celera6106,940,040 - 106,940,224UniSTS
RH 3.4 Map6752.4UniSTS
Cytogenetic Map6q31UniSTS
BE102650  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,547,097 - 108,547,275 (+)MAPPERmRatBN7.2
Rnor_6.06113,061,307 - 113,061,484NCBIRnor6.0
Rnor_5.06122,337,332 - 122,337,509UniSTSRnor5.0
Celera6106,336,888 - 106,337,065UniSTS
RH 3.4 Map6752.6UniSTS
Cytogenetic Map6q31UniSTS
AW530543  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,244,326 - 109,244,516 (+)MAPPERmRatBN7.2
Rnor_6.06114,041,160 - 114,041,349NCBIRnor6.0
Rnor_5.06123,310,916 - 123,311,105UniSTSRnor5.0
RGSC_v3.46113,860,311 - 113,860,500UniSTSRGSC3.4
Celera6107,016,073 - 107,016,262UniSTS
RH 3.4 Map6752.4UniSTS
Cytogenetic Map6q31UniSTS
BE108105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,866,824 - 108,867,000 (+)MAPPERmRatBN7.2
Rnor_6.06113,383,329 - 113,383,504NCBIRnor6.0
Rnor_5.06122,657,529 - 122,657,704UniSTSRnor5.0
RGSC_v3.46113,465,394 - 113,465,569UniSTSRGSC3.4
Celera6106,648,100 - 106,648,275UniSTS
RH 3.4 Map6750.8UniSTS
Cytogenetic Map6q31UniSTS
BE115916  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,901,441 - 107,901,591 (+)MAPPERmRatBN7.2
Rnor_6.06112,392,762 - 112,392,911NCBIRnor6.0
Rnor_5.06121,669,719 - 121,669,868UniSTSRnor5.0
RGSC_v3.46112,540,349 - 112,540,498UniSTSRGSC3.4
Celera6105,706,457 - 105,706,606UniSTS
RH 3.4 Map6748.1UniSTS
Cytogenetic Map6q31UniSTS
AU048299  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,068,548 - 109,068,698 (+)MAPPERmRatBN7.2
Rnor_6.06113,869,476 - 113,869,625NCBIRnor6.0
Rnor_5.06123,143,046 - 123,143,195UniSTSRnor5.0
RGSC_v3.46113,669,334 - 113,669,483UniSTSRGSC3.4
Celera6106,841,094 - 106,841,243UniSTS
Cytogenetic Map6q31UniSTS
AU047113  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,422,726 - 108,422,884 (+)MAPPERmRatBN7.2
Rnor_6.06112,937,393 - 112,937,548NCBIRnor6.0
Rnor_5.06122,213,953 - 122,214,108UniSTSRnor5.0
RGSC_v3.46113,077,085 - 113,077,240UniSTSRGSC3.4
Celera6106,212,551 - 106,212,706UniSTS
Cytogenetic Map6q31UniSTS
RH138907  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,524,163 - 108,524,292 (+)MAPPERmRatBN7.2
Rnor_6.06113,038,506 - 113,038,634NCBIRnor6.0
Rnor_5.06122,314,531 - 122,314,659UniSTSRnor5.0
Celera6106,313,996 - 106,314,124UniSTS
RH 3.4 Map6756.1UniSTS
Cytogenetic Map6q31UniSTS
BE117867  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,922,460 - 108,922,615 (+)MAPPERmRatBN7.2
Rnor_6.06113,438,960 - 113,439,114NCBIRnor6.0
Rnor_5.06122,713,471 - 122,713,625UniSTSRnor5.0
RGSC_v3.46113,521,558 - 113,521,712UniSTSRGSC3.4
Celera6106,697,813 - 106,697,967UniSTS
RH 3.4 Map6750.8UniSTS
Cytogenetic Map6q31UniSTS
BF416388  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26109,137,350 - 109,137,588 (+)MAPPERmRatBN7.2
Rnor_6.06113,933,232 - 113,933,481NCBIRnor6.0
Rnor_5.06123,205,001 - 123,205,250UniSTSRnor5.0
RGSC_v3.46113,744,314 - 113,744,551UniSTSRGSC3.4
Celera6106,909,260 - 106,909,497UniSTS
RH 3.4 Map6755.1UniSTS
Cytogenetic Map6q31UniSTS
BF391590  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26107,768,698 - 107,768,820 (+)MAPPERmRatBN7.2
Rnor_6.06112,259,679 - 112,259,800NCBIRnor6.0
Rnor_5.06121,536,947 - 121,537,068UniSTSRnor5.0
RGSC_v3.46112,402,370 - 112,402,491UniSTSRGSC3.4
Celera6105,573,699 - 105,573,820UniSTS
RH 3.4 Map6748.7UniSTS
Cytogenetic Map6q31UniSTS
BE115279  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26108,657,946 - 108,658,106 (+)MAPPERmRatBN7.2
Rnor_6.06113,174,537 - 113,174,696NCBIRnor6.0
Rnor_5.06122,449,170 - 122,449,329UniSTSRnor5.0
RGSC_v3.46113,254,939 - 113,255,098UniSTSRGSC3.4
Celera6106,438,812 - 106,438,971UniSTS
RH 3.4 Map6752.3UniSTS
Cytogenetic Map6q31UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)671201409116201409Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)672202632117202632Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)673463459109394713Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)682523650110548006Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6104085867128713626Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6106752656132339866Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:316
Count of miRNA genes:178
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000064872, ENSRNOT00000073666
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 64
Low 12 8 7 7 6 10 2
Below cutoff 2 11 47 33 15 33 8 10 2 31 29 5 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111648 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111649 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111651 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039111663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001838159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L14851 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000031205   ⟹   ENSRNOP00000030966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,641,780 - 107,771,635 (+)Ensembl
Rnor_6.0 Ensembl6112,203,679 - 112,204,386 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000064872   ⟹   ENSRNOP00000060600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,712,822 - 109,270,725 (+)Ensembl
Rnor_6.0 Ensembl6113,898,420 - 114,067,055 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,641,780 - 109,272,044 (+)Ensembl
Rnor_6.0 Ensembl6112,133,204 - 114,067,564 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097486   ⟹   ENSRNOP00000087097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,641,780 - 109,260,405 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103009   ⟹   ENSRNOP00000085895
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6108,751,174 - 109,272,044 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113245   ⟹   ENSRNOP00000094179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,641,781 - 109,272,044 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119992   ⟹   ENSRNOP00000092783
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6107,641,780 - 109,270,725 (+)Ensembl
RefSeq Acc Id: NM_053817   ⟹   NP_446269
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,984 - 109,271,234 (+)NCBI
Rnor_6.06112,133,204 - 114,067,564 (+)NCBI
Rnor_5.06121,410,790 - 122,710,220 (+)NCBI
Rnor_5.06123,170,189 - 123,337,131 (+)NCBI
RGSC_v3.46112,273,955 - 113,905,437 (+)RGD
Celera6105,447,534 - 107,042,695 (+)RGD
Sequence:
RefSeq Acc Id: XM_008764732   ⟹   XP_008762954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26108,750,288 - 109,272,849 (+)NCBI
Rnor_6.06113,265,204 - 114,069,589 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764733   ⟹   XP_008762955
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26108,750,282 - 109,272,849 (+)NCBI
Rnor_6.06113,265,203 - 114,069,589 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593986   ⟹   XP_017449475
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26108,750,267 - 109,272,849 (+)NCBI
Rnor_6.06113,265,202 - 114,069,589 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039111624   ⟹   XP_038967552
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111625   ⟹   XP_038967553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,643,586 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111626   ⟹   XP_038967554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111627   ⟹   XP_038967555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111628   ⟹   XP_038967556
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111629   ⟹   XP_038967557
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111630   ⟹   XP_038967558
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111631   ⟹   XP_038967559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111632   ⟹   XP_038967560
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111633   ⟹   XP_038967561
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111634   ⟹   XP_038967562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111635   ⟹   XP_038967563
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111636   ⟹   XP_038967564
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111637   ⟹   XP_038967565
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111638   ⟹   XP_038967566
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111639   ⟹   XP_038967567
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111640   ⟹   XP_038967568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111641   ⟹   XP_038967569
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111642   ⟹   XP_038967570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111643   ⟹   XP_038967571
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111644   ⟹   XP_038967572
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111645   ⟹   XP_038967573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111646   ⟹   XP_038967574
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,270,725 (+)NCBI
RefSeq Acc Id: XM_039111647   ⟹   XP_038967575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,270,725 (+)NCBI
RefSeq Acc Id: XM_039111648   ⟹   XP_038967576
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,867,214 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111649   ⟹   XP_038967577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,868,451 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111650   ⟹   XP_038967578
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111651   ⟹   XP_038967579
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,260,651 (+)NCBI
RefSeq Acc Id: XM_039111652   ⟹   XP_038967580
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,712,822 - 109,260,651 (+)NCBI
RefSeq Acc Id: XM_039111653   ⟹   XP_038967581
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,260,651 (+)NCBI
RefSeq Acc Id: XM_039111654   ⟹   XP_038967582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,868,280 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111655   ⟹   XP_038967583
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26108,750,280 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111656   ⟹   XP_038967584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111657   ⟹   XP_038967585
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111658   ⟹   XP_038967586
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111659   ⟹   XP_038967587
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111660   ⟹   XP_038967588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111661   ⟹   XP_038967589
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,760 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111662   ⟹   XP_038967590
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,761 - 109,272,849 (+)NCBI
RefSeq Acc Id: XM_039111663   ⟹   XP_038967591
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26108,750,271 - 109,272,849 (+)NCBI
RefSeq Acc Id: XR_001838159
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26107,641,984 - 109,271,178 (+)NCBI
Rnor_6.06112,133,204 - 114,066,534 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_446269 (Get FASTA)   NCBI Sequence Viewer  
  XP_008762954 (Get FASTA)   NCBI Sequence Viewer  
  XP_008762955 (Get FASTA)   NCBI Sequence Viewer  
  XP_017449475 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967552 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967553 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967554 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967555 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967556 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967557 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967558 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967559 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967560 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967561 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967562 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967563 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967564 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967565 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967566 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967567 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967568 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967569 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967570 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967571 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967572 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967573 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967574 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967575 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967576 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967577 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967578 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967579 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967580 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967581 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967582 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967583 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967584 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967585 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967586 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967587 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967588 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967589 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967590 (Get FASTA)   NCBI Sequence Viewer  
  XP_038967591 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA02853 (Get FASTA)   NCBI Sequence Viewer  
  AAA02854 (Get FASTA)   NCBI Sequence Viewer  
  AAA02855 (Get FASTA)   NCBI Sequence Viewer  
  AAA02856 (Get FASTA)   NCBI Sequence Viewer  
  AAA02857 (Get FASTA)   NCBI Sequence Viewer  
  AAA02858 (Get FASTA)   NCBI Sequence Viewer  
  Q07310 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446269   ⟸   NM_053817
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_008762955   ⟸   XM_008764733
- Peptide Label: isoform X32
- Sequence:
RefSeq Acc Id: XP_008762954   ⟸   XM_008764732
- Peptide Label: isoform X30
- Sequence:
RefSeq Acc Id: XP_017449475   ⟸   XM_017593986
- Peptide Label: isoform X33
- Sequence:
RefSeq Acc Id: ENSRNOP00000030966   ⟸   ENSRNOT00000031205
RefSeq Acc Id: ENSRNOP00000060600   ⟸   ENSRNOT00000064872
RefSeq Acc Id: XP_038967589   ⟸   XM_039111661
- Peptide Label: isoform X39
RefSeq Acc Id: XP_038967552   ⟸   XM_039111624
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038967556   ⟸   XM_039111628
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038967555   ⟸   XM_039111627
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038967584   ⟸   XM_039111656
- Peptide Label: isoform X34
RefSeq Acc Id: XP_038967559   ⟸   XM_039111631
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038967585   ⟸   XM_039111657
- Peptide Label: isoform X35
RefSeq Acc Id: XP_038967570   ⟸   XM_039111642
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038967566   ⟸   XM_039111638
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038967571   ⟸   XM_039111643
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038967562   ⟸   XM_039111634
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038967590   ⟸   XM_039111662
- Peptide Label: isoform X40
RefSeq Acc Id: XP_038967561   ⟸   XM_039111633
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038967586   ⟸   XM_039111658
- Peptide Label: isoform X36
RefSeq Acc Id: XP_038967564   ⟸   XM_039111636
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038967587   ⟸   XM_039111659
- Peptide Label: isoform X37
RefSeq Acc Id: XP_038967588   ⟸   XM_039111660
- Peptide Label: isoform X38
RefSeq Acc Id: XP_038967581   ⟸   XM_039111653
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038967553   ⟸   XM_039111625
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038967567   ⟸   XM_039111639
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038967572   ⟸   XM_039111644
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038967554   ⟸   XM_039111626
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038967568   ⟸   XM_039111640
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038967573   ⟸   XM_039111645
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038967563   ⟸   XM_039111635
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038967557   ⟸   XM_039111629
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038967565   ⟸   XM_039111637
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038967578   ⟸   XM_039111650
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038967558   ⟸   XM_039111630
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038967560   ⟸   XM_039111632
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038967569   ⟸   XM_039111641
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038967574   ⟸   XM_039111646
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038967575   ⟸   XM_039111647
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038967579   ⟸   XM_039111651
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038967580   ⟸   XM_039111652
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038967576   ⟸   XM_039111648
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038967582   ⟸   XM_039111654
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038967577   ⟸   XM_039111649
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038967591   ⟸   XM_039111663
- Peptide Label: isoform X41
RefSeq Acc Id: XP_038967583   ⟸   XM_039111655
- Peptide Label: isoform X31
RefSeq Acc Id: ENSRNOP00000092783   ⟸   ENSRNOT00000119992
RefSeq Acc Id: ENSRNOP00000087097   ⟸   ENSRNOT00000097486
RefSeq Acc Id: ENSRNOP00000094179   ⟸   ENSRNOT00000113245
RefSeq Acc Id: ENSRNOP00000085895   ⟸   ENSRNOT00000103009
Protein Domains
EGF-like   LAM_G_DOMAIN   Laminin G-like

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620212 AgrOrtholog
Ensembl Genes ENSRNOG00000047574 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000030966 UniProtKB/TrEMBL
  ENSRNOP00000060600 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031205 UniProtKB/TrEMBL
  ENSRNOT00000064872 UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot
  Laminin_G UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurexin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan/Neurexin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116508 UniProtKB/Swiss-Prot
NCBI Gene 116508 ENTREZGENE
Pfam EGF UniProtKB/Swiss-Prot
  Laminin_G_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nrxn3 PhenoGen
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LAM_G_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART 4.1m UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF UniProtKB/Swiss-Prot
  LamG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZKS5_RAT UniProtKB/TrEMBL
  D3ZSD9_RAT UniProtKB/TrEMBL
  NRX3A_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q07280 UniProtKB/Swiss-Prot
  Q07311 UniProtKB/Swiss-Prot
  Q07312 UniProtKB/Swiss-Prot
  Q07313 UniProtKB/Swiss-Prot
  Q07314 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Nrxn3  neurexin 3  LOC108351353  uncharacterized LOC108351353  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108351353  uncharacterized LOC108351353      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Nrxn3  neurexin 3      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Nrxn3  neurexin 3      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization may be secreted into extracellular space 729037
gene_expression expressed in brain, cerebellum and spinal cord 729037