Erc2 (ELKS/RAB6-interacting/CAST family member 2) - Rat Genome Database

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Gene: Erc2 (ELKS/RAB6-interacting/CAST family member 2) Rattus norvegicus
Analyze
Symbol: Erc2
Name: ELKS/RAB6-interacting/CAST family member 2
RGD ID: 708372
Description: Enables PDZ domain binding activity. Involved in synapse organization. Located in several cellular components, including distal axon; postsynaptic density; and presynaptic membrane. Part of protein-containing complex. Is active in presynaptic active zone cytoplasmic component. Orthologous to human ERC2 (ELKS/RAB6-interacting/CAST family member 2); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Cast; CAST1; CAZ-associated structural protein; CAZ-associated structural protein 1; Cmbp; cytomatrix protein p110; ERC protein 2
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
mRatBN7.2162,812,712 - 3,673,624 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl162,848,620 - 3,670,776 (+)Ensembl
Rnor_6.0163,258,580 - 4,283,592 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,293,599 - 3,679,222 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0163,260,419 - 4,388,774 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4162,932,781 - 3,596,299 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1162,932,780 - 3,596,297 (+)NCBI
Celera162,811,369 - 3,459,316 (+)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

Additional References at PubMed
PMID:14723704   PMID:14734538   PMID:16421316   PMID:19874790   PMID:21700703   PMID:23791195   PMID:27537483   PMID:28264913   PMID:29439199  


Genomics

Comparative Map Data
Erc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2162,812,712 - 3,673,624 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl162,848,620 - 3,670,776 (+)Ensembl
Rnor_6.0163,258,580 - 4,283,592 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,293,599 - 3,679,222 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0163,260,419 - 4,388,774 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4162,932,781 - 3,596,299 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1162,932,780 - 3,596,297 (+)NCBI
Celera162,811,369 - 3,459,316 (+)NCBICelera
Cytogenetic Map16p16NCBI
ERC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl355,508,311 - 56,468,467 (-)EnsemblGRCh38hg38GRCh38
GRCh38355,508,311 - 56,468,473 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37355,542,339 - 56,502,495 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36355,517,376 - 56,477,431 (-)NCBINCBI36hg18NCBI36
Celera355,509,269 - 56,468,649 (-)NCBI
Cytogenetic Map3p14.3NCBI
HuRef355,591,133 - 56,551,243 (-)NCBIHuRef
CHM1_1355,493,671 - 56,453,566 (-)NCBICHM1_1
Erc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391427,344,232 - 28,200,494 (+)NCBIGRCm39mm39
GRCm39 Ensembl1427,344,385 - 28,200,494 (+)Ensembl
GRCm381427,622,275 - 28,478,537 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1427,622,428 - 28,478,537 (+)EnsemblGRCm38mm10GRCm38
MGSCv371428,435,628 - 29,291,723 (+)NCBIGRCm37mm9NCBIm37
MGSCv361426,449,326 - 27,305,403 (+)NCBImm8
Celera1423,854,528 - 24,727,160 (+)NCBICelera
Cytogenetic Map14A3NCBI
cM Map1416.51NCBI
Erc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554305,513,662 - 6,308,882 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554305,345,191 - 6,308,909 (-)NCBIChiLan1.0ChiLan1.0
ERC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1356,659,377 - 57,599,384 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl356,836,941 - 57,599,248 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0355,438,875 - 56,417,072 (-)NCBIMhudiblu_PPA_v0panPan3
ERC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12033,842,753 - 34,748,038 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2033,842,753 - 34,746,491 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2033,769,262 - 34,672,553 (+)NCBI
ROS_Cfam_1.02034,114,565 - 35,020,292 (+)NCBI
UMICH_Zoey_3.12033,558,663 - 34,463,362 (+)NCBI
UNSW_CanFamBas_1.02033,918,155 - 34,823,551 (+)NCBI
UU_Cfam_GSD_1.02034,092,812 - 35,039,347 (+)NCBI
Erc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118172,937,212 - 173,811,690 (-)NCBI
SpeTri2.0NW_0049364736,075,811 - 6,532,671 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ERC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1337,388,517 - 38,367,512 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11337,388,513 - 38,367,512 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21341,281,049 - 41,624,117 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ERC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12216,851,862 - 17,817,504 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2217,034,445 - 17,817,522 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041149,054,724 - 150,028,608 (+)NCBIVero_WHO_p1.0
Erc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624822756,532 - 1,806,129 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D16Rat22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,453,660 - 3,453,842 (+)MAPPERmRatBN7.2
Rnor_6.0164,209,654 - 4,209,831NCBIRnor6.0
Rnor_5.0164,155,704 - 4,155,881UniSTSRnor5.0
RGSC_v3.4163,537,908 - 3,538,086RGDRGSC3.4
RGSC_v3.4163,537,909 - 3,538,086UniSTSRGSC3.4
RGSC_v3.1163,537,906 - 3,538,084RGD
Celera163,401,210 - 3,401,387UniSTS
RH 3.4 Map1610.5RGD
RH 3.4 Map1610.5UniSTS
RH 2.0 Map17225.3RGD
FHH x ACI Map162.07RGD
Cytogenetic Map16p16UniSTS
D16Rat51  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,391,305 - 3,391,527 (+)MAPPERmRatBN7.2
Rnor_6.0164,147,508 - 4,147,729NCBIRnor6.0
Rnor_5.0164,093,805 - 4,094,026UniSTSRnor5.0
RGSC_v3.4163,476,195 - 3,476,417RGDRGSC3.4
RGSC_v3.4163,476,196 - 3,476,417UniSTSRGSC3.4
RGSC_v3.1163,476,194 - 3,476,415RGD
Celera163,338,671 - 3,338,892UniSTS
RH 3.4 Map168.6RGD
RH 3.4 Map168.6UniSTS
RH 2.0 Map160.0RGD
FHH x ACI Map161.9999RGD
Cytogenetic Map16p16UniSTS
D16Rat87  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,380,150 - 3,380,363 (+)MAPPERmRatBN7.2
Rnor_6.0164,136,355 - 4,136,567NCBIRnor6.0
Rnor_5.0164,082,652 - 4,082,864UniSTSRnor5.0
RGSC_v3.4163,464,719 - 3,465,256RGDRGSC3.4
RGSC_v3.4163,465,043 - 3,465,255UniSTSRGSC3.4
RGSC_v3.1163,465,041 - 3,465,253RGD
Celera163,327,539 - 3,327,727UniSTS
RH 3.4 Map168.8UniSTS
RH 3.4 Map168.8RGD
SHRSP x BN Map160.0UniSTS
SHRSP x BN Map160.0RGD
Cytogenetic Map16p16UniSTS
D16Got3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,447,063 - 3,447,332 (+)MAPPERmRatBN7.2
Rnor_6.0164,203,104 - 4,203,372NCBIRnor6.0
Rnor_5.0164,149,154 - 4,149,422UniSTSRnor5.0
RGSC_v3.4163,531,458 - 3,531,727RGDRGSC3.4
RGSC_v3.4163,531,459 - 3,531,727UniSTSRGSC3.4
RGSC_v3.1163,531,457 - 3,531,725RGD
Celera163,394,651 - 3,394,919UniSTS
RH 3.4 Map1613.6UniSTS
RH 3.4 Map1613.6RGD
RH 2.0 Map160.0RGD
Cytogenetic Map16p16UniSTS
D16Got6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,577,486 - 1,577,609 (-)MAPPERmRatBN7.2
Rnor_6.0163,747,405 - 3,747,527NCBIRnor6.0
Rnor_5.0163,713,387 - 3,713,509UniSTSRnor5.0
RGSC_v3.4161,615,852 - 1,615,975RGDRGSC3.4
RGSC_v3.4161,615,853 - 1,615,975UniSTSRGSC3.4
RGSC_v3.1161,615,852 - 1,615,975RGD
Celera161,553,215 - 1,553,337UniSTS
RH 2.0 Map160.0RGD
Cytogenetic Map16p16UniSTS
D16Chm61  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,309,721 - 3,309,913 (+)MAPPERmRatBN7.2
Rnor_6.0164,065,935 - 4,066,124NCBIRnor6.0
Rnor_5.0164,012,232 - 4,012,421UniSTSRnor5.0
RGSC_v3.4163,394,623 - 3,394,812UniSTSRGSC3.4
Celera163,257,094 - 3,257,287UniSTS
Cytogenetic Map16p16UniSTS
D16Chm49  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,436,714 - 3,436,931 (+)MAPPERmRatBN7.2
Rnor_6.0164,192,761 - 4,192,973NCBIRnor6.0
Rnor_5.0164,138,811 - 4,139,023UniSTSRnor5.0
RGSC_v3.4163,521,116 - 3,521,328UniSTSRGSC3.4
Celera163,383,805 - 3,384,017UniSTS
Cytogenetic Map16p16UniSTS
D16Chm63  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2162,851,471 - 2,851,709 (+)MAPPERmRatBN7.2
Rnor_6.0163,296,451 - 3,296,688NCBIRnor6.0
Rnor_5.0163,263,271 - 3,263,508UniSTSRnor5.0
RGSC_v3.4162,935,575 - 2,935,812UniSTSRGSC3.4
Celera162,814,163 - 2,814,400UniSTS
Cytogenetic Map16p16UniSTS
D16Chm60  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,080,416 - 3,080,679 (+)MAPPERmRatBN7.2
Rnor_6.0163,524,957 - 3,525,217NCBIRnor6.0
Rnor_5.0163,491,297 - 3,491,557UniSTSRnor5.0
RGSC_v3.4163,164,783 - 3,165,043UniSTSRGSC3.4
Celera163,029,112 - 3,029,372UniSTS
Cytogenetic Map16p16UniSTS
D16Chm66  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2162,995,225 - 2,995,463 (+)MAPPERmRatBN7.2
Rnor_6.0163,439,525 - 3,439,762NCBIRnor6.0
Rnor_5.0163,405,986 - 3,406,223UniSTSRnor5.0
RGSC_v3.4163,080,748 - 3,080,985UniSTSRGSC3.4
Celera162,957,693 - 2,957,930UniSTS
Cytogenetic Map16p16UniSTS
D16Got120  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,019,970 - 3,020,251 (+)MAPPERmRatBN7.2
Rnor_6.0163,464,262 - 3,464,540NCBIRnor6.0
Rnor_5.0163,431,153 - 3,431,431UniSTSRnor5.0
RGSC_v3.4163,107,162 - 3,107,440UniSTSRGSC3.4
Celera162,970,868 - 2,971,152UniSTS
Cytogenetic Map16p16UniSTS
D16Got116  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,457,688 - 3,457,796 (+)MAPPERmRatBN7.2
Rnor_6.0164,213,678 - 4,213,785NCBIRnor6.0
Rnor_5.0164,159,728 - 4,159,835UniSTSRnor5.0
RGSC_v3.4163,541,933 - 3,542,040UniSTSRGSC3.4
Celera163,405,234 - 3,405,341UniSTS
Cytogenetic Map16p16UniSTS
RH135217  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,190,738 - 3,190,919 (+)MAPPERmRatBN7.2
Rnor_6.0163,635,542 - 3,635,722NCBIRnor6.0
Rnor_5.0163,601,879 - 3,602,059UniSTSRnor5.0
RGSC_v3.4163,275,738 - 3,275,918UniSTSRGSC3.4
Celera163,138,335 - 3,138,515UniSTS
RH 3.4 Map168.9UniSTS
Cytogenetic Map16p16UniSTS
RH128674  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,457,565 - 1,457,750 (-)MAPPERmRatBN7.2
Rnor_6.0163,867,257 - 3,867,441NCBIRnor6.0
Rnor_5.0163,833,167 - 3,833,351UniSTSRnor5.0
RGSC_v3.4161,495,820 - 1,496,004UniSTSRGSC3.4
Celera161,433,731 - 1,433,915UniSTS
RH 3.4 Map1616.3UniSTS
Cytogenetic Map16p16UniSTS
RH133100  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,636,567 - 1,636,763 (-)MAPPERmRatBN7.2
Rnor_6.0163,692,452 - 3,692,647NCBIRnor6.0
Rnor_5.0163,658,434 - 3,658,629UniSTSRnor5.0
RGSC_v3.4161,656,619 - 1,656,814UniSTSRGSC3.4
Celera161,608,928 - 1,609,123UniSTS
RH 3.4 Map1616.3UniSTS
Cytogenetic Map16p16UniSTS
RH134489  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,504,078 - 1,504,283 (-)MAPPERmRatBN7.2
Rnor_6.0163,820,918 - 3,821,122NCBIRnor6.0
Rnor_5.0163,786,961 - 3,787,165UniSTSRnor5.0
RGSC_v3.4161,542,394 - 1,542,598UniSTSRGSC3.4
Celera161,479,882 - 1,480,086UniSTS
Cytogenetic Map16p16UniSTS
RH143467  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,436,542 - 1,436,651 (-)MAPPERmRatBN7.2
Rnor_6.0163,888,355 - 3,888,463NCBIRnor6.0
Rnor_5.0163,854,265 - 3,854,373UniSTSRnor5.0
RGSC_v3.4161,474,798 - 1,474,906UniSTSRGSC3.4
Celera161,412,709 - 1,412,817UniSTS
RH 3.4 Map1616.3UniSTS
Cytogenetic Map16p16UniSTS
RH143925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,412,515 - 1,412,632 (-)MAPPERmRatBN7.2
Rnor_6.0163,912,362 - 3,912,478NCBIRnor6.0
Rnor_5.0163,878,272 - 3,878,388UniSTSRnor5.0
RGSC_v3.4161,449,472 - 1,449,588UniSTSRGSC3.4
Celera161,390,205 - 1,390,321UniSTS
RH 3.4 Map1616.3UniSTS
Cytogenetic Map16p16UniSTS
RH144433  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,336,547 - 3,336,806 (+)MAPPERmRatBN7.2
Rnor_6.0164,092,761 - 4,093,019NCBIRnor6.0
Rnor_5.0164,039,058 - 4,039,316UniSTSRnor5.0
RGSC_v3.4163,421,449 - 3,421,707UniSTSRGSC3.4
Celera163,283,951 - 3,284,209UniSTS
RH 3.4 Map163.8UniSTS
Cytogenetic Map16p16UniSTS
RH137254  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,393,442 - 1,393,662 (-)MAPPERmRatBN7.2
Rnor_6.0163,935,806 - 3,936,025NCBIRnor6.0
Rnor_5.0163,900,421 - 3,900,640UniSTSRnor5.0
RGSC_v3.4161,429,601 - 1,429,820UniSTSRGSC3.4
Celera161,371,137 - 1,371,356UniSTS
Cytogenetic Map16p16UniSTS
Cytogenetic Map1q36UniSTS
RH141274  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,569,780 - 1,569,992 (-)MAPPERmRatBN7.2
Rnor_6.0163,755,021 - 3,755,232NCBIRnor6.0
Rnor_5.0163,721,003 - 3,721,214UniSTSRnor5.0
RGSC_v3.4161,608,148 - 1,608,359UniSTSRGSC3.4
Celera161,545,511 - 1,545,722UniSTS
RH 3.4 Map1616.3UniSTS
Cytogenetic Map16p16UniSTS
BE119195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,465,942 - 3,466,103 (+)MAPPERmRatBN7.2
Rnor_6.0164,221,932 - 4,222,092NCBIRnor6.0
Rnor_5.0164,167,982 - 4,168,142UniSTSRnor5.0
RGSC_v3.4163,550,187 - 3,550,347UniSTSRGSC3.4
Celera163,413,488 - 3,413,648UniSTS
RH 3.4 Map168.8UniSTS
Cytogenetic Map16p16UniSTS
RH124641  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,474,011 - 1,475,632 (-)MAPPERmRatBN7.2
Rnor_6.0163,849,941 - 3,851,561NCBIRnor6.0
Rnor_5.0163,815,984 - 3,817,604UniSTSRnor5.0
Cytogenetic Map16p16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2325838Bp347Blood pressure QTL 3470.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1613080679Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)163802452995463Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
12903278Am16Aortic mass QTL 160.019aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)168323802995225Rat
12903279Cm115Cardiac mass QTL 1150.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)168323802995225Rat
12903281Cm116Cardiac mass QTL 1160.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)168323802995225Rat
12903952Cm117Cardiac mass QTL 1170.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)168323802995225Rat
12903954Bw186Body weight QTL 1860.011body mass (VT:0001259)body weight (CMO:0000012)168323802995225Rat
2301404Bp321Blood pressure QTL 3210.05arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)168323802995225Rat
12903955Kidm69Kidney mass QTL 690.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)168323804227609Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:180
Count of miRNA genes:73
Interacting mature miRNAs:78
Transcripts:ENSRNOT00000020427, ENSRNOT00000047118
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 60
Low 20 25 17 3 17 14 30 39 8
Below cutoff 2 15 30 22 15 22 8 8 5 2 3 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_170787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC135197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF541925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY049038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000020427   ⟹   ENSRNOP00000020427
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl162,848,678 - 3,511,698 (+)Ensembl
Rnor_6.0 Ensembl163,293,657 - 3,679,222 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000047118   ⟹   ENSRNOP00000041403
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl162,848,678 - 3,511,698 (+)Ensembl
Rnor_6.0 Ensembl163,293,657 - 3,674,921 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000081999   ⟹   ENSRNOP00000071690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl162,848,620 - 3,498,551 (+)Ensembl
Rnor_6.0 Ensembl163,293,599 - 3,674,906 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095852   ⟹   ENSRNOP00000093564
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl163,092,693 - 3,511,698 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107815   ⟹   ENSRNOP00000096580
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl162,848,620 - 3,670,776 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108129   ⟹   ENSRNOP00000088845
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl163,092,693 - 3,096,146 (+)Ensembl
RefSeq Acc Id: NM_170787   ⟹   NP_740768
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,848,678 - 3,511,698 (+)NCBI
Rnor_6.0163,293,657 - 4,283,592 (+)NCBI
Rnor_5.0163,260,419 - 4,388,774 (+)NCBI
RGSC_v3.4162,932,781 - 3,596,299 (+)RGD
Celera162,811,369 - 3,459,316 (+)RGD
Sequence:
RefSeq Acc Id: XM_017600002   ⟹   XP_017455491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,715 - 3,673,624 (+)NCBI
Rnor_6.0163,258,580 - 3,679,784 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600003   ⟹   XP_017455492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,712 - 3,673,624 (+)NCBI
Rnor_6.0163,258,580 - 3,679,784 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600006   ⟹   XP_017455495
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,715 - 3,673,624 (+)NCBI
Rnor_6.0163,258,580 - 3,679,784 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600007   ⟹   XP_017455496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,716 - 3,673,624 (+)NCBI
Rnor_6.0163,258,580 - 3,677,152 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039094224   ⟹   XP_038950152
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,712 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094225   ⟹   XP_038950153
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,816,152 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094226   ⟹   XP_038950154
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,814,070 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094227   ⟹   XP_038950155
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,813,549 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094228   ⟹   XP_038950156
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,816,152 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094229   ⟹   XP_038950157
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,712 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094230   ⟹   XP_038950158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,714 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094231   ⟹   XP_038950159
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094232   ⟹   XP_038950160
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,712 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094233   ⟹   XP_038950161
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,714 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094234   ⟹   XP_038950162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094235   ⟹   XP_038950163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,714 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094236   ⟹   XP_038950164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,716 - 3,673,624 (+)NCBI
RefSeq Acc Id: XM_039094237   ⟹   XP_038950165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,670,840 (+)NCBI
RefSeq Acc Id: XM_039094238   ⟹   XP_038950166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2163,092,616 - 3,673,624 (+)NCBI
RefSeq Acc Id: XR_005494536
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,670,736 (+)NCBI
RefSeq Acc Id: XR_005494537
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,670,736 (+)NCBI
RefSeq Acc Id: XR_005494538
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,713 - 3,670,736 (+)NCBI
RefSeq Acc Id: XR_005494539
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,716 - 3,670,736 (+)NCBI
RefSeq Acc Id: XR_005494540
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2162,812,717 - 3,670,736 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_740768   ⟸   NM_170787
- UniProtKB: Q8K3M6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017455492   ⟸   XM_017600003
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017455491   ⟸   XM_017600002
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017455495   ⟸   XM_017600006
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017455496   ⟸   XM_017600007
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: ENSRNOP00000020427   ⟸   ENSRNOT00000020427
RefSeq Acc Id: ENSRNOP00000071690   ⟸   ENSRNOT00000081999
RefSeq Acc Id: ENSRNOP00000041403   ⟸   ENSRNOT00000047118
RefSeq Acc Id: XP_038950152   ⟸   XM_039094224
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950157   ⟸   XM_039094229
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038950160   ⟸   XM_039094232
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038950162   ⟸   XM_039094234
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038950159   ⟸   XM_039094231
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038950165   ⟸   XM_039094237
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038950158   ⟸   XM_039094230
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038950163   ⟸   XM_039094235
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038950161   ⟸   XM_039094233
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038950164   ⟸   XM_039094236
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038950155   ⟸   XM_039094227
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950154   ⟸   XM_039094226
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950153   ⟸   XM_039094225
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950156   ⟸   XM_039094228
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950166   ⟸   XM_039094238
- Peptide Label: isoform X14
RefSeq Acc Id: ENSRNOP00000088845   ⟸   ENSRNOT00000108129
RefSeq Acc Id: ENSRNOP00000093564   ⟸   ENSRNOT00000095852
RefSeq Acc Id: ENSRNOP00000096580   ⟸   ENSRNOT00000107815

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)
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
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)
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
BBDP/Wor (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
BN-Lx/CubMcwi (2019)
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
BN/NHsdMcwi (2019)
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
BN/NHsdMcwi (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
BN/SsN (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
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)
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
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)
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
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)
Visual CSV TAB Printer
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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/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
F344/NCrl (2019)
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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (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
F344/NRrrc (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
F344/Stm (2019)
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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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
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)
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
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)
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: 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)
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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)
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
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)
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)
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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)
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)
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
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)
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
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)
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
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)
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)
SS/JrHsdMcwi (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
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)
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
WKY/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
WKY/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
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)
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
WKY/NHsd (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
WN/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
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:708372 AgrOrtholog
Ensembl Genes ENSRNOG00000015148 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020427 UniProtKB/TrEMBL
  ENSRNOP00000041403 UniProtKB/TrEMBL
  ENSRNOP00000071690 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020427 UniProtKB/TrEMBL
  ENSRNOT00000047118 UniProtKB/TrEMBL
  ENSRNOT00000081999 UniProtKB/TrEMBL
InterPro ELKS/CAST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ERC2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:259269 UniProtKB/Swiss-Prot
NCBI Gene 259269 ENTREZGENE
PANTHER PTHR18861:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cast UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Erc2 PhenoGen
UniProt A0A0G2K140_RAT UniProtKB/TrEMBL
  D3ZMM4_RAT UniProtKB/TrEMBL
  ERC2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Z4YNN0_RAT UniProtKB/TrEMBL
UniProt Secondary Q8CIZ0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Erc2  ELKS/RAB6-interacting/CAST family member 2  LOC100360615  ELKS/RAB6-interacting/CAST family member 2  Data Merged 1643240 APPROVED
2010-05-06 LOC100360615  ELKS/RAB6-interacting/CAST family member 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-02-25 Erc2  ELKS/RAB6-interacting/CAST family member 2  Cmbp  cytomatrix protein p110  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-09-30 Cmbp        Symbol and Name status set to provisional 70820 PROVISIONAL