Nrxn1 (neurexin 1) - Rat Genome Database

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Gene: Nrxn1 (neurexin 1) Rattus norvegicus
Analyze
Symbol: Nrxn1
Name: neurexin 1
RGD ID: 628659
Description: Enables several functions, including calcium ion binding activity; cell adhesion molecule binding activity; and neuroligin family protein binding activity. Involved in several processes, including cellular response to calcium ion; circadian rhythm; and presynapse assembly. Acts upstream of or within vesicle docking involved in exocytosis. Located in cell surface; endocytic vesicle; and plasma membrane. Colocalizes with slit diaphragm. Used to study autism spectrum disorder. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in Pitt-Hopkins-like syndrome 2. Orthologous to human NRXN1 (neurexin 1); INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 60S ribosomal protein L10a pseudogene; LOC103692560; neurexin I-alpha; neurexin I-beta; neurexin-1; neurexin-1-alpha; neurexin-1-beta; non-processed neurexin I-alpha; Nrxn1b
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Nrxn1em1  
Genetic Models: SD-Nrxn1em1Sage
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
NCBI Annotation Information: Note: There is an assembly problem in the Rnor_6.0 reference genome assembly, and therefore, annotation of this gene is split across NW_007905831.1, NW_007905830.1, and NW_007905829.1 in NCBI's Rattus norvegicus Annotation Release 105. [17 Jun 2015]
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.263,177,788 - 4,323,848 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl63,177,897 - 4,322,710 (+)Ensembl
Rnor_6.0613,886,757 - 15,191,660 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl613,886,740 - 15,191,660 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0624,704,937 - 25,145,167 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0623,843,153 - 24,482,073 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4614,050,929 - 15,354,069 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1615,245,705 - 15,354,069 (-)NCBI
Celera62,975,004 - 4,118,378 (+)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
aflatoxin B1  (ISO)
aldicarb  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
antimycin A  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Butylparaben  (EXP)
cadmium dichloride  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
chloroprene  (EXP)
Cuprizon  (EXP)
DDE  (EXP)
DDT  (EXP)
Deguelin  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzacamene  (EXP)
epoxiconazole  (EXP)
ethanol  (ISO)
fenpyroximate  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (EXP,ISO)
glutathione  (ISO)
glyphosate  (EXP)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
L-ascorbic acid  (EXP)
lead tetraacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
linuron  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (ISO)
nickel atom  (ISO)
orphenadrine  (EXP)
ozone  (EXP)
paracetamol  (EXP,ISO)
pentetrazol  (ISO)
permethrin  (EXP)
phenylmercury acetate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
Ptaquiloside  (ISO)
pyrimidifen  (ISO)
rotenone  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
tebufenpyrad  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thifluzamide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adult behavior  (ISO,ISS)
angiogenesis  (ISS)
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules  (ISO,ISS)
cellular response to calcium ion  (IDA)
cerebellar granule cell differentiation  (ISO,ISS)
chemical synaptic transmission  (ISO,ISS)
circadian rhythm  (IEP)
establishment of protein localization  (ISO,ISS)
filopodium assembly  (ISO)
gamma-aminobutyric acid receptor clustering  (ISO,ISS)
gephyrin clustering involved in postsynaptic density assembly  (ISO,ISS)
guanylate kinase-associated protein clustering  (ISO,ISS)
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  (ISO,ISS)
learning  (ISO,ISS)
negative regulation of filopodium assembly  (ISO,ISS)
negative regulation of gene expression  (ISO)
neuroligin clustering involved in postsynaptic membrane assembly  (ISO,ISS)
neuromuscular process controlling balance  (ISO,ISS)
neuron cell-cell adhesion  (ISO,ISS,TAS)
neuron maturation  (ISO)
neuron projection development  (ISO)
neurotransmitter secretion  (ISO,ISS)
NMDA glutamate receptor clustering  (ISO,ISS)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of excitatory postsynaptic potential  (ISO,ISS)
positive regulation of fibroblast growth factor receptor signaling pathway  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of presynaptic active zone assembly  (TAS)
positive regulation of protein kinase A signaling  (ISO)
positive regulation of protein kinase B signaling  (ISO)
positive regulation of protein kinase C activity  (ISO)
positive regulation of protein localization to plasma membrane  (ISO,ISS)
positive regulation of synapse assembly  (ISO,ISS,TAS)
positive regulation of synapse maturation  (ISO,ISS)
positive regulation of synaptic transmission, glutamatergic  (ISO,ISS)
postsynaptic density protein 95 clustering  (ISO,ISS)
postsynaptic membrane assembly  (ISO,ISS)
prepulse inhibition  (ISO,ISS)
presynapse assembly  (EXP,IDA,IMP)
presynaptic membrane assembly  (ISO,ISS)
protein localization to synapse  (ISO,ISS)
protein-containing complex assembly involved in synapse maturation  (ISO,ISS)
receptor localization to synapse  (ISO,ISS)
regulation of AMPA receptor activity  (ISO,ISS)
regulation of grooming behavior  (ISO,ISS)
regulation of insulin secretion involved in cellular response to glucose stimulus  (ISO)
regulation of NMDA receptor activity  (ISO,ISS)
regulation of postsynaptic density assembly  (ISO)
regulation of postsynaptic specialization assembly  (ISO)
regulation of presynapse assembly  (ISO)
regulation of synaptic vesicle cycle  (ISO)
signal transduction  (IDA,ISO)
social behavior  (ISO)
synapse assembly  (ISO,ISS)
synaptic membrane adhesion  (ISO)
synaptic vesicle clustering  (ISO,ISS)
trans-synaptic signaling by endocannabinoid  (ISO)
vesicle docking involved in exocytosis  (IMP)
vocal learning  (ISO)
vocalization behavior  (ISO)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Arac D, etal., Neuron. 2007 Dec 20;56(6):992-1003.
2. Chubykin AA, etal., J Biol Chem. 2005 Jun 10;280(23):22365-74. Epub 2005 Mar 29.
3. Comoletti D, etal., J Biol Chem. 2003 Dec 12;278(50):50497-505. Epub 2003 Sep 30.
4. Comoletti D, etal., J Neurosci. 2004 May 19;24(20):4889-93.
5. Dean C, etal., Nat Neurosci. 2003 Jul;6(7):708-16. doi: 10.1038/nn1074.
6. Esclassan F, etal., Behav Neurosci. 2015 Feb;129(1):74-85. doi: 10.1037/bne0000024. Epub 2014 Nov 24.
7. Fabrichny IP, etal., Neuron. 2007 Dec 20;56(6):979-91.
8. GOA data from the GO Consortium
9. Hata Y, etal., J Neurosci 1996 Apr 15;16(8):2488-94.
10. Ichtchenko K, etal., J Biol Chem 1996 Feb 2;271(5):2676-82.
11. Ko J, etal., EMBO J. 2009 Oct 21;28(20):3244-55. doi: 10.1038/emboj.2009.249. Epub 2009 Sep 3.
12. Koehnke J, etal., Structure. 2008 Mar;16(3):410-21.
13. Leone P, etal., EMBO J. 2010 Jul 21;29(14):2461-71. doi: 10.1038/emboj.2010.123. Epub 2010 Jun 11.
14. Liu W, etal., Cell. 2011 Jun 24;145(7):1088-101. doi: 10.1016/j.cell.2011.05.015.
15. MGD data from the GO Consortium
16. Mosedale M, etal., J Biol Chem. 2012 Feb 24;287(9):6350-61. doi: 10.1074/jbc.M111.299081. Epub 2012 Jan 10.
17. Mukherjee K, etal., Cell. 2008 Apr 18;133(2):328-39. doi: 10.1016/j.cell.2008.02.036.
18. OMIM Disease Annotation Pipeline
19. Raghavendra Rao VL, etal., J Neurochem 2002 Dec;83(5):1072-86.
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. Saito A, etal., Am J Physiol Regul Integr Comp Physiol. 2011 Feb;300(2):R340-8. doi: 10.1152/ajpregu.00640.2009. Epub 2010 Nov 3.
23. Shapiro-Reznik M, etal., PLoS One. 2012;7(5):e37894. doi: 10.1371/journal.pone.0037894. Epub 2012 May 25.
24. Suckow AT, etal., Endocrinology. 2008 Dec;149(12):6006-17. Epub 2008 Aug 28.
25. Ushkaryov YA, etal., Science 1992 Jul 3;257(5066):50-6.
Additional References at PubMed
PMID:7695896   PMID:8132583   PMID:8163501   PMID:9325340   PMID:9707552   PMID:9856994   PMID:10197529   PMID:10520997   PMID:11036064   PMID:11470830   PMID:12040031   PMID:12827191  
PMID:15620359   PMID:15723836   PMID:16624946   PMID:17034946   PMID:17042500   PMID:17360903   PMID:17868325   PMID:18057082   PMID:18334217   PMID:19036990   PMID:19098102   PMID:19567877  
PMID:19816407   PMID:19822762   PMID:19896112   PMID:20537373   PMID:20869594   PMID:20945070   PMID:21356198   PMID:21410790   PMID:21424692   PMID:21559374   PMID:22262843   PMID:22750515  
PMID:22840401   PMID:23426688   PMID:24594013   PMID:24613359   PMID:25157101   PMID:25352602   PMID:25931508   PMID:26078884   PMID:26213384   PMID:26335821   PMID:26771491   PMID:27033232  
PMID:27872870   PMID:27926833   PMID:31658245  


Genomics

Comparative Map Data
Nrxn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.263,177,788 - 4,323,848 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl63,177,897 - 4,322,710 (+)Ensembl
Rnor_6.0613,886,757 - 15,191,660 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl613,886,740 - 15,191,660 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0624,704,937 - 25,145,167 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0623,843,153 - 24,482,073 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4614,050,929 - 15,354,069 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1615,245,705 - 15,354,069 (-)NCBI
Celera62,975,004 - 4,118,378 (+)NCBICelera
Cytogenetic Map6q12NCBI
NRXN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl249,918,503 - 51,225,575 (-)EnsemblGRCh38hg38GRCh38
GRCh38249,918,503 - 51,032,132 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37250,145,641 - 51,259,270 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36250,000,992 - 51,113,178 (-)NCBINCBI36hg18NCBI36
Build 34250,059,138 - 50,486,545NCBI
Celera249,985,850 - 51,099,841 (-)NCBI
Cytogenetic Map2p16.3NCBI
HuRef249,879,094 - 50,994,141 (-)NCBIHuRef
CHM1_1250,076,199 - 51,190,490 (-)NCBICHM1_1
Nrxn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391790,341,072 - 91,400,587 (-)NCBIGRCm39mm39
GRCm39 Ensembl1790,341,059 - 91,400,499 (-)Ensembl
GRCm381790,033,644 - 91,093,159 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1790,033,631 - 91,093,071 (-)EnsemblGRCm38mm10GRCm38
MGSCv371790,432,984 - 91,492,142 (-)NCBIGRCm37mm9NCBIm37
MGSCv361790,433,296 - 91,492,142 (-)NCBImm8
Celera1794,417,402 - 95,489,954 (-)NCBICelera
Cytogenetic Map17E5NCBI
Nrxn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544116,234,070 - 17,178,005 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544116,230,977 - 17,178,003 (-)NCBIChiLan1.0ChiLan1.0
NRXN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A50,981,997 - 52,095,538 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A50,985,067 - 52,091,277 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A50,063,398 - 51,178,659 (-)NCBIMhudiblu_PPA_v0panPan3
NRXN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11051,555,660 - 52,666,774 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1051,558,452 - 52,667,569 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1051,401,804 - 52,511,290 (-)NCBI
ROS_Cfam_1.01052,431,369 - 53,560,787 (-)NCBI
UMICH_Zoey_3.11052,126,286 - 53,234,452 (-)NCBI
UNSW_CanFamBas_1.01052,413,764 - 53,524,238 (-)NCBI
UU_Cfam_GSD_1.01052,609,896 - 53,719,985 (-)NCBI
Nrxn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629230,455,821 - 31,526,486 (+)NCBI
SpeTri2.0NW_0049365081,889,640 - 2,954,039 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NRXN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl389,799,543 - 90,914,205 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1389,799,426 - 90,914,205 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2395,543,189 - 96,298,412 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NRXN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11456,051,849 - 57,202,334 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604554,638,899 - 55,766,868 (-)NCBIVero_WHO_p1.0
Nrxn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473831,134,551 - 32,273,596 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D6Rat47  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.263,892,904 - 3,893,050 (-)MAPPERmRatBN7.2
Rnor_6.0614,349,141 - 14,349,286NCBIRnor6.0
Rnor_5.0624,307,085 - 24,307,230UniSTSRnor5.0
RGSC_v3.4614,627,483 - 14,627,629RGDRGSC3.4
RGSC_v3.4614,627,484 - 14,627,629UniSTSRGSC3.4
RGSC_v3.1614,627,483 - 14,627,629RGD
Celera63,685,160 - 3,685,305UniSTS
SHRSP x BN Map61.1899RGD
SHRSP x BN Map61.1899UniSTS
Cytogenetic Map6q12UniSTS
D6Rat151  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.263,757,019 - 3,757,174 (-)MAPPERmRatBN7.2
Rnor_6.0614,485,525 - 14,485,679NCBIRnor6.0
Rnor_5.0624,443,637 - 24,443,791UniSTSRnor5.0
RGSC_v3.4614,767,135 - 14,767,290RGDRGSC3.4
RGSC_v3.4614,767,136 - 14,767,290UniSTSRGSC3.4
RGSC_v3.1614,767,135 - 14,767,290RGD
Celera63,549,423 - 3,549,577UniSTS
Cytogenetic Map6q12UniSTS
D6Rat212  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.263,651,191 - 3,651,425 (-)MAPPERmRatBN7.2
Rnor_6.0614,738,315 - 14,738,548NCBIRnor6.0
Rnor_5.0624,694,841 - 24,695,074UniSTSRnor5.0
RGSC_v3.4614,872,865 - 14,873,099RGDRGSC3.4
RGSC_v3.4614,872,866 - 14,873,099UniSTSRGSC3.4
RGSC_v3.1614,872,865 - 14,873,099RGD
Celera63,443,612 - 3,443,845UniSTS
SHRSP x BN Map61.1899UniSTS
SHRSP x BN Map61.1899RGD
FHH x ACI Map60.0RGD
Cytogenetic Map6q12UniSTS
RH143359  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.264,189,440 - 4,189,589 (-)MAPPERmRatBN7.2
Rnor_6.0614,055,204 - 14,055,352NCBIRnor6.0
Rnor_5.0624,013,169 - 24,013,317UniSTSRnor5.0
Celera63,981,056 - 3,981,204UniSTS
Cytogenetic Map6q12UniSTS
RH142000  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.263,205,490 - 3,205,680 (-)MAPPERmRatBN7.2
Rnor_6.0615,166,827 - 15,167,016NCBIRnor6.0
Rnor_5.0625,119,969 - 25,120,158UniSTSRnor5.0
RGSC_v3.4615,329,006 - 15,329,195UniSTSRGSC3.4
Celera62,999,207 - 2,999,396UniSTS
Cytogenetic Map6q12UniSTS
STS-F02322  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera63,648,003 - 3,649,629UniSTS
Cytogenetic Map6q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat


Genetic Models
This gene Nrxn1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:421
Count of miRNA genes:171
Interacting mature miRNAs:202
Transcripts:ENSRNOT00000035388, ENSRNOT00000040745, ENSRNOT00000041278, ENSRNOT00000050128, ENSRNOT00000061624, ENSRNOT00000071402
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 1 64 8
Low 3 15 18 2 18 2 7 9 10 16 29 3 7
Below cutoff 28 23 23 23 1 2 17 12 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_021767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112818 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112832 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112851 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112861 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112862 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M96374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M96375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000071402   ⟹   ENSRNOP00000066979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,177,982 - 4,322,710 (+)Ensembl
Rnor_6.0 Ensembl613,886,745 - 14,523,961 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,891,199 - 4,321,050 (+)Ensembl
Rnor_6.0 Ensembl613,886,740 - 14,350,999 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092654   ⟹   ENSRNOP00000075781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,178,028 - 4,322,710 (+)Ensembl
Rnor_6.0 Ensembl614,755,038 - 15,191,660 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095577   ⟹   ENSRNOP00000093237
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,177,897 - 4,322,710 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096505   ⟹   ENSRNOP00000093870
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,178,038 - 4,322,710 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098756   ⟹   ENSRNOP00000081961
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl64,269,860 - 4,322,710 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105104   ⟹   ENSRNOP00000084025
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl63,177,897 - 4,322,710 (+)Ensembl
RefSeq Acc Id: NM_021767   ⟹   NP_068535
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,181,290 - 4,321,031 (+)NCBI
Rnor_6.0613,886,757 - 15,191,660 (-)NCBI
Rnor_5.0623,843,153 - 24,482,073 (-)NCBI
Rnor_5.0624,704,937 - 25,145,167 (-)NCBI
RGSC_v3.4614,050,929 - 15,354,069 (-)RGD
Celera62,975,004 - 4,118,378 (+)RGD
Sequence:
RefSeq Acc Id: XM_039112815   ⟹   XP_038968743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,323,848 (+)NCBI
RefSeq Acc Id: XM_039112816   ⟹   XP_038968744
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112817   ⟹   XP_038968745
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,323,848 (+)NCBI
RefSeq Acc Id: XM_039112818   ⟹   XP_038968746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112819   ⟹   XP_038968747
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112820   ⟹   XP_038968748
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112821   ⟹   XP_038968749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112822   ⟹   XP_038968750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112823   ⟹   XP_038968751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112824   ⟹   XP_038968752
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112826   ⟹   XP_038968754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112827   ⟹   XP_038968755
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112828   ⟹   XP_038968756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112829   ⟹   XP_038968757
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112830   ⟹   XP_038968758
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112832   ⟹   XP_038968760
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112833   ⟹   XP_038968761
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112834   ⟹   XP_038968762
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112835   ⟹   XP_038968763
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112836   ⟹   XP_038968764
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112838   ⟹   XP_038968766
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112839   ⟹   XP_038968767
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,801 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112840   ⟹   XP_038968768
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,182,144 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112841   ⟹   XP_038968769
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112842   ⟹   XP_038968770
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112843   ⟹   XP_038968771
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112844   ⟹   XP_038968772
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,800 - 4,159,723 (+)NCBI
RefSeq Acc Id: XM_039112845   ⟹   XP_038968773
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,891,192 - 4,321,004 (+)NCBI
RefSeq Acc Id: XM_039112846   ⟹   XP_038968774
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,892,011 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112847   ⟹   XP_038968775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,892,011 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112849   ⟹   XP_038968777
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,892,011 - 4,320,817 (+)NCBI
RefSeq Acc Id: XM_039112850   ⟹   XP_038968778
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,788 - 3,301,290 (+)NCBI
RefSeq Acc Id: XM_039112851   ⟹   XP_038968779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112852   ⟹   XP_038968780
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112853   ⟹   XP_038968781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112854   ⟹   XP_038968782
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112855   ⟹   XP_038968783
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112856   ⟹   XP_038968784
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112857   ⟹   XP_038968785
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,464 (+)NCBI
RefSeq Acc Id: XM_039112858   ⟹   XP_038968786
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,296,751 (+)NCBI
RefSeq Acc Id: XM_039112860   ⟹   XP_038968788
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,297,464 (+)NCBI
RefSeq Acc Id: XM_039112861   ⟹   XP_038968789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,296,745 (+)NCBI
RefSeq Acc Id: XM_039112862   ⟹   XP_038968790
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,789 - 3,359,109 (+)NCBI
RefSeq Acc Id: XM_039112863   ⟹   XP_038968791
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,790 - 3,297,469 (+)NCBI
RefSeq Acc Id: XM_039112864   ⟹   XP_038968792
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.264,269,972 - 4,323,848 (+)NCBI
RefSeq Acc Id: XM_039112865   ⟹   XP_038968793
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.264,269,972 - 4,323,848 (+)NCBI
RefSeq Acc Id: XM_039112866   ⟹   XP_038968794
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,323,848 (+)NCBI
RefSeq Acc Id: XM_039112867   ⟹   XP_038968795
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.263,177,802 - 4,323,848 (+)NCBI
Protein Sequences
Protein RefSeqs NP_068535 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968743 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968744 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968745 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968746 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968747 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968748 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968749 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968750 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968751 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968752 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968754 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968755 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968756 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968757 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968758 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968760 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968761 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968762 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968763 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968764 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968766 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968767 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968768 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968769 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968770 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968771 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968772 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968773 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968774 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968775 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968777 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968778 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968779 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968780 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968781 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968782 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968783 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968784 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968785 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968786 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968788 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968789 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968790 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968791 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968792 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968793 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968794 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968795 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41704 (Get FASTA)   NCBI Sequence Viewer  
  AAA41705 (Get FASTA)   NCBI Sequence Viewer  
  Q63372 (Get FASTA)   NCBI Sequence Viewer  
  Q63373 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_068535   ⟸   NM_021767
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000075781   ⟸   ENSRNOT00000092654
RefSeq Acc Id: ENSRNOP00000066979   ⟸   ENSRNOT00000071402
RefSeq Acc Id: XP_038968778   ⟸   XM_039112850
- Peptide Label: isoform X32
RefSeq Acc Id: XP_038968790   ⟸   XM_039112862
- Peptide Label: isoform X43
RefSeq Acc Id: XP_038968780   ⟸   XM_039112852
- Peptide Label: isoform X34
RefSeq Acc Id: XP_038968779   ⟸   XM_039112851
- Peptide Label: isoform X33
RefSeq Acc Id: XP_038968782   ⟸   XM_039112854
- Peptide Label: isoform X36
RefSeq Acc Id: XP_038968781   ⟸   XM_039112853
- Peptide Label: isoform X35
RefSeq Acc Id: XP_038968783   ⟸   XM_039112855
- Peptide Label: isoform X37
RefSeq Acc Id: XP_038968784   ⟸   XM_039112856
- Peptide Label: isoform X38
RefSeq Acc Id: XP_038968785   ⟸   XM_039112857
- Peptide Label: isoform X39
RefSeq Acc Id: XP_038968788   ⟸   XM_039112860
- Peptide Label: isoform X41
RefSeq Acc Id: XP_038968786   ⟸   XM_039112858
- Peptide Label: isoform X40
RefSeq Acc Id: XP_038968789   ⟸   XM_039112861
- Peptide Label: isoform X42
RefSeq Acc Id: XP_038968791   ⟸   XM_039112863
- Peptide Label: isoform X44
RefSeq Acc Id: XP_038968751   ⟸   XM_039112823
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038968746   ⟸   XM_039112818
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038968744   ⟸   XM_039112816
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038968747   ⟸   XM_039112819
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038968748   ⟸   XM_039112820
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038968754   ⟸   XM_039112826
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038968772   ⟸   XM_039112844
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038968743   ⟸   XM_039112815
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038968745   ⟸   XM_039112817
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038968763   ⟸   XM_039112835
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038968750   ⟸   XM_039112822
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038968767   ⟸   XM_039112839
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038968749   ⟸   XM_039112821
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038968756   ⟸   XM_039112828
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038968761   ⟸   XM_039112833
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038968794   ⟸   XM_039112866
- Peptide Label: isoform X47
RefSeq Acc Id: XP_038968795   ⟸   XM_039112867
- Peptide Label: isoform X48
RefSeq Acc Id: XP_038968757   ⟸   XM_039112829
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038968762   ⟸   XM_039112834
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038968766   ⟸   XM_039112838
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038968769   ⟸   XM_039112841
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038968770   ⟸   XM_039112842
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038968771   ⟸   XM_039112843
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038968755   ⟸   XM_039112827
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038968764   ⟸   XM_039112836
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038968758   ⟸   XM_039112830
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038968760   ⟸   XM_039112832
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038968768   ⟸   XM_039112840
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038968752   ⟸   XM_039112824
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038968773   ⟸   XM_039112845
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038968774   ⟸   XM_039112846
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038968775   ⟸   XM_039112847
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038968777   ⟸   XM_039112849
- Peptide Label: isoform X31
RefSeq Acc Id: XP_038968792   ⟸   XM_039112864
- Peptide Label: isoform X45
RefSeq Acc Id: XP_038968793   ⟸   XM_039112865
- Peptide Label: isoform X46
RefSeq Acc Id: ENSRNOP00000084025   ⟸   ENSRNOT00000105104
RefSeq Acc Id: ENSRNOP00000093870   ⟸   ENSRNOT00000096505
RefSeq Acc Id: ENSRNOP00000081961   ⟸   ENSRNOT00000098756
RefSeq Acc Id: ENSRNOP00000093237   ⟸   ENSRNOT00000095577
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)
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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)
ACI/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
ACI/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
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)
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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
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)
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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
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)
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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
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)
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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
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)
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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
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)
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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (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: 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)
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
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)
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
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)
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
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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628659 AgrOrtholog
Ensembl Genes ENSRNOG00000050220 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000066979 UniProtKB/TrEMBL
  ENSRNOP00000075781 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071402 UniProtKB/TrEMBL
  ENSRNOT00000092654 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, UniProtKB/TrEMBL
  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:60391 UniProtKB/Swiss-Prot
NCBI Gene 60391 ENTREZGENE
Pfam EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nrxn1 PhenoGen
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  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, UniProtKB/TrEMBL
  LamG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0U1RRR4_RAT UniProtKB/TrEMBL
  M0RBN6_RAT UniProtKB/TrEMBL
  NRX1A_RAT UniProtKB/Swiss-Prot
  NRX1B_RAT UniProtKB/Swiss-Prot
  Q63372 ENTREZGENE
  Q63373 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Nrxn1  neurexin 1  LOC103692560  60S ribosomal protein L10a pseudogene  Data Merged 737654 PROVISIONAL
2014-08-25 LOC103692560  60S ribosomal protein L10a pseudogene      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Nrxn1  neurexin 1      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Nrxn1  neurexin 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to neuronal synapse 728919