Itpr2 (inositol 1,4,5-trisphosphate receptor, type 2) - Rat Genome Database

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Gene: Itpr2 (inositol 1,4,5-trisphosphate receptor, type 2) Rattus norvegicus
Analyze
Symbol: Itpr2
Name: inositol 1,4,5-trisphosphate receptor, type 2
RGD ID: 69649
Description: Enables calcium ion binding activity; inositol 1,4,5 trisphosphate binding activity; and inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity. Involved in cellular response to hypoxia and release of sequestered calcium ion into cytosol. Located in axon; endoplasmic reticulum; and myelin sheath. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis and isolated anhidrosis with normal sweat glands. Orthologous to human ITPR2 (inositol 1,4,5-trisphosphate receptor type 2); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; Alzheimer's disease pathway; INTERACTS WITH 2,4,6-trinitrobenzenesulfonic acid; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: inositol 1,4,5-triphosphate receptor 2; inositol 1,4,5-triphosphate receptor type 2; inositol 1,4,5-triphosphate receptor, type 2; inositol 1,4,5-trisphosphate receptor type 2; inositol 145-triphosphate receptor type 2; inositol triphosphate receptor type 2; insP3R2; IP3 receptor; IP3R 2; LOC102553163; type 2 inositol 1,4,5-trisphosphate receptor; type 2 InsP3 receptor; uncharacterized LOC102553163
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
mRatBN7.24179,028,594 - 179,434,657 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4179,027,281 - 179,404,164 (-)Ensembl
Rnor_6.04180,423,452 - 180,800,088 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4180,538,389 - 180,722,358 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04244,585,711 - 244,960,429 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44183,677,606 - 184,066,130 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14183,922,730 - 184,311,254 (-)NCBI
Celera4167,526,971 - 167,901,481 (-)NCBICelera
RH 3.4 Map41070.3RGD
Cytogenetic Map4q44NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,6-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitrophenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetazolamide  (ISO)
Adenophostin A  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aflatoxin M1  (ISO)
all-trans-retinoic acid  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
butanal  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
deguelin  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dorsomorphin  (ISO)
ethanol  (ISO)
fenpyroximate  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
lead(0)  (EXP)
lead(2+)  (EXP)
mercury dibromide  (ISO)
metformin  (ISO)
methamphetamine  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
N-hexadecanoylsphingosine  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
phenethyl caffeate  (ISO)
phenylephrine  (ISO)
phenylmercury acetate  (ISO)
picoxystrobin  (ISO)
potassium chromate  (ISO)
propiconazole  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
rimonabant  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP,ISO)
sodium fluoride  (ISO)
succimer  (ISO)
tamibarotene  (ISO)
tauroursodeoxycholic acid  (ISO)
tebufenpyrad  (ISO)
thapsigargin  (ISO)
thifluzamide  (ISO)
thioacetamide  (EXP)
torcetrapib  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (ISO)
vorinostat  (ISO)
xestospongin C  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Cardenas C, etal., J Cell Sci. 2005 Jul 15;118(Pt 14):3131-40.
2. Drawnel FM, etal., J Cell Biol. 2012 Nov 26;199(5):783-98. doi: 10.1083/jcb.201111095. Epub 2012 Nov 19.
3. Endo Y, etal., J Physiol Sci. 2006 Dec;56(6):415-23. Epub 2006 Nov 3.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Hirata K, etal., Hepatology 2002 Aug;36(2):284-96.
7. Jurkovicova D, etal., Pflugers Arch. 2007 Jun;454(3):415-25. Epub 2007 Feb 7.
8. Kajimoto K, etal., Biochem Pharmacol 2003 Mar 15;65(6):995-8.
9. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
10. Lee B, etal., J Mol Endocrinol 1998 Aug;21(1):31-9.
11. Lencesova L, etal., FEBS Lett 2002 Nov 20;531(3):432-6.
12. MGD data from the GO Consortium
13. NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. Pipeline to import KEGG annotations from KEGG into RGD
15. Ramos-Franco J, etal., Biophys J. 2000 Sep;79(3):1388-99.
16. RGD automated data pipeline
17. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. RGD automated import pipeline for gene-chemical interactions
19. Schulman JJ, etal., J Biol Chem. 2013 Aug 30;288(35):25340-9. doi: 10.1074/jbc.M113.496570. Epub 2013 Jul 24.
20. Sudhof TC, etal., EMBO J 1991 Nov;10(11):3199-206.
21. Toews JC, etal., Glia. 2007 Jan 15;55(2):202-13.
22. Tu H, etal., Biophys J. 2005 Feb;88(2):1046-55. Epub 2004 Nov 8.
23. van Es MA, etal., Lancet Neurol. 2007 Oct;6(10):869-77.
24. Vanderheyden V, etal., Biochim Biophys Acta. 2009 Jun;1793(6):959-70. doi: 10.1016/j.bbamcr.2008.12.003. Epub 2008 Dec 16.
Additional References at PubMed
PMID:8063813   PMID:9858485   PMID:10191279   PMID:10828023   PMID:11163362   PMID:11285228   PMID:11587548   PMID:11722588   PMID:11782428   PMID:12112377   PMID:12820984   PMID:12893684  
PMID:17284437   PMID:17327232   PMID:17636122   PMID:18026983   PMID:18068335   PMID:19120137   PMID:19549843   PMID:19946888   PMID:20189985   PMID:21071436   PMID:21436055   PMID:21748767  
PMID:23137780   PMID:23382219   PMID:24415751   PMID:28327356  


Genomics

Comparative Map Data
Itpr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24179,028,594 - 179,434,657 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4179,027,281 - 179,404,164 (-)Ensembl
Rnor_6.04180,423,452 - 180,800,088 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4180,538,389 - 180,722,358 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04244,585,711 - 244,960,429 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44183,677,606 - 184,066,130 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14183,922,730 - 184,311,254 (-)NCBI
Celera4167,526,971 - 167,901,481 (-)NCBICelera
RH 3.4 Map41070.3RGD
Cytogenetic Map4q44NCBI
ITPR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1226,335,352 - 26,833,194 (-)EnsemblGRCh38hg38GRCh38
GRCh381226,335,352 - 26,833,197 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371226,488,285 - 26,986,127 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361226,379,552 - 26,877,398 (-)NCBINCBI36hg18NCBI36
Build 341226,381,611 - 26,877,398NCBI
Celera1231,634,797 - 32,132,275 (-)NCBI
Cytogenetic Map12p11.23NCBI
HuRef1226,258,420 - 26,756,231 (-)NCBIHuRef
CHM1_11226,453,424 - 26,951,168 (-)NCBICHM1_1
Itpr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396146,009,797 - 146,403,757 (-)NCBIGRCm39mm39
GRCm39 Ensembl6146,009,797 - 146,403,721 (-)Ensembl
GRCm386146,108,299 - 146,502,258 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6146,108,299 - 146,502,223 (-)EnsemblGRCm38mm10GRCm38
MGSCv376146,060,002 - 146,450,434 (-)NCBIGRCm37mm9NCBIm37
MGSCv366146,068,650 - 146,459,082 (-)NCBImm8
Celera6149,142,524 - 149,540,657 (-)NCBICelera
Cytogenetic Map6G3NCBI
cM Map677.7NCBI
Itpr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541321,291,110 - 21,719,303 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541321,289,673 - 21,719,610 (-)NCBIChiLan1.0ChiLan1.0
ITPR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11262,093,208 - 62,596,018 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1262,092,241 - 62,596,018 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01259,478,206 - 59,984,572 (+)NCBIMhudiblu_PPA_v0panPan3
ITPR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12720,806,670 - 21,278,638 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2720,805,842 - 21,350,083 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2725,103,914 - 25,581,983 (-)NCBI
ROS_Cfam_1.02721,001,355 - 21,474,042 (+)NCBI
ROS_Cfam_1.0 Ensembl2721,001,392 - 21,471,311 (+)Ensembl
UMICH_Zoey_3.12720,812,377 - 21,283,928 (+)NCBI
UNSW_CanFamBas_1.02720,834,447 - 21,306,590 (+)NCBI
UU_Cfam_GSD_1.02725,271,849 - 25,744,599 (-)NCBI
Itpr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494582,723,135 - 83,198,963 (+)NCBI
SpeTri2.0NW_004936548646,019 - 1,120,426 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITPR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl546,935,932 - 47,464,125 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1546,935,923 - 47,465,681 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2550,482,341 - 50,738,864 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ITPR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11126,089,480 - 26,574,621 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1126,089,484 - 26,574,950 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660698,498,077 - 8,981,050 (+)NCBIVero_WHO_p1.0
Itpr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475212,360,796 - 12,820,042 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D4Mgh12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,293,830 - 179,293,946 (+)MAPPERmRatBN7.2
Rnor_6.04180,689,009 - 180,689,124NCBIRnor6.0
Rnor_5.04244,849,397 - 244,849,512UniSTSRnor5.0
RGSC_v3.44183,954,704 - 183,954,820RGDRGSC3.4
RGSC_v3.44183,954,705 - 183,954,820UniSTSRGSC3.4
RGSC_v3.14184,199,829 - 184,199,944RGD
Celera4167,791,605 - 167,791,720UniSTS
RH 3.4 Map41076.3UniSTS
RH 3.4 Map41076.3RGD
Cytogenetic Map4q44UniSTS
D4Got297  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,306,094 - 179,306,252 (+)MAPPERmRatBN7.2
Rnor_6.04180,701,272 - 180,701,429NCBIRnor6.0
Rnor_5.04244,861,660 - 244,861,817UniSTSRnor5.0
RGSC_v3.44183,966,968 - 183,967,125UniSTSRGSC3.4
Celera4167,803,868 - 167,804,024UniSTS
Cytogenetic Map4q44UniSTS
RH133051  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,193,874 - 179,194,068 (+)MAPPERmRatBN7.2
Rnor_6.04180,588,969 - 180,589,162NCBIRnor6.0
Rnor_5.04244,750,238 - 244,750,431UniSTSRnor5.0
RGSC_v3.44183,851,398 - 183,851,591UniSTSRGSC3.4
Celera4167,693,028 - 167,693,221UniSTS
RH 3.4 Map41070.3UniSTS
Cytogenetic Map4q44UniSTS
BE110085  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,031,636 - 179,031,796 (+)MAPPERmRatBN7.2
Rnor_6.04180,425,378 - 180,425,537NCBIRnor6.0
Rnor_5.04244,587,637 - 244,587,796UniSTSRnor5.0
RGSC_v3.44183,679,532 - 183,679,691UniSTSRGSC3.4
Celera4167,528,897 - 167,529,056UniSTS
RH 3.4 Map41070.3UniSTS
Cytogenetic Map4q44UniSTS
AU046614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,122,021 - 179,122,202 (+)MAPPERmRatBN7.2
Rnor_6.04180,517,272 - 180,517,452NCBIRnor6.0
Rnor_5.04244,678,915 - 244,679,095UniSTSRnor5.0
RGSC_v3.44183,775,106 - 183,775,286UniSTSRGSC3.4
Celera4167,621,203 - 167,621,379UniSTS
Cytogenetic Map4q44UniSTS
BE100309  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,278,276 - 179,278,427 (+)MAPPERmRatBN7.2
Rnor_6.04180,673,476 - 180,673,626NCBIRnor6.0
Rnor_5.04244,833,770 - 244,833,920UniSTSRnor5.0
RGSC_v3.44183,938,620 - 183,938,770UniSTSRGSC3.4
Celera4167,776,080 - 167,776,230UniSTS
RH 3.4 Map41070.3UniSTS
Cytogenetic Map4q44UniSTS
Itpr2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,235,304 - 179,236,096 (+)MAPPERmRatBN7.2
Rnor_6.04180,630,279 - 180,631,070NCBIRnor6.0
Rnor_5.04244,791,039 - 244,791,830UniSTSRnor5.0
RGSC_v3.44183,893,167 - 183,893,958UniSTSRGSC3.4
Celera4167,734,499 - 167,735,290UniSTS
RH 3.4 Map41070.3UniSTS
Cytogenetic Map4q44UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:536
Count of miRNA genes:260
Interacting mature miRNAs:356
Transcripts:ENSRNOT00000040645
Prediction methods:Miranda, 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 4 23 8 19 8 1 1 6 15 10 9 1
Low 2 39 34 33 33 7 10 68 20 31 2 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040255   ⟹   ENSRNOP00000043615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,029,714 - 179,404,164 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000040645   ⟹   ENSRNOP00000047905
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,082,013 - 179,404,164 (-)Ensembl
Rnor_6.0 Ensembl4180,538,389 - 180,722,358 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086465   ⟹   ENSRNOP00000072117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,029,714 - 179,108,199 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103103   ⟹   ENSRNOP00000077641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,029,714 - 179,404,164 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109175   ⟹   ENSRNOP00000096862
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,027,281 - 179,404,164 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118898   ⟹   ENSRNOP00000077632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,086,247 - 179,404,164 (-)Ensembl
RefSeq Acc Id: NM_031046   ⟹   NP_112308
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,029,711 - 179,404,164 (-)NCBI
Rnor_6.04180,423,452 - 180,800,088 (-)NCBI
Rnor_5.04244,585,711 - 244,960,429 (-)NCBI
RGSC_v3.44183,677,606 - 184,066,130 (-)RGD
Celera4167,526,971 - 167,901,481 (-)RGD
Sequence:
RefSeq Acc Id: XM_039108425   ⟹   XP_038964353
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,434,657 (-)NCBI
RefSeq Acc Id: XM_039108426   ⟹   XP_038964354
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,434,606 (-)NCBI
RefSeq Acc Id: XM_039108427   ⟹   XP_038964355
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,434,606 (-)NCBI
RefSeq Acc Id: XM_039108428   ⟹   XP_038964356
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,404,267 (-)NCBI
RefSeq Acc Id: XM_039108429   ⟹   XP_038964357
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,434,606 (-)NCBI
RefSeq Acc Id: XM_039108430   ⟹   XP_038964358
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,028,594 - 179,434,606 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_112308   ⟸   NM_031046
- Sequence:
RefSeq Acc Id: ENSRNOP00000047905   ⟸   ENSRNOT00000040645
RefSeq Acc Id: XP_038964353   ⟸   XM_039108425
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038964354   ⟸   XM_039108426
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038964355   ⟸   XM_039108427
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038964357   ⟸   XM_039108429
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038964358   ⟸   XM_039108430
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038964356   ⟸   XM_039108428
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000043615   ⟸   ENSRNOT00000040255
RefSeq Acc Id: ENSRNOP00000096862   ⟸   ENSRNOT00000109175
RefSeq Acc Id: ENSRNOP00000077641   ⟸   ENSRNOT00000103103
RefSeq Acc Id: ENSRNOP00000077632   ⟸   ENSRNOT00000118898
RefSeq Acc Id: ENSRNOP00000072117   ⟸   ENSRNOT00000086465
Protein Domains
MIR

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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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)
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)
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
LEXF2B/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
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)
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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)
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: 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)
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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)
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)
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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:69649 AgrOrtholog
Ensembl Genes ENSRNOG00000001804 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000007104 UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000043615 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000047905 UniProtKB/TrEMBL
  ENSRNOP00000077641 ENTREZGENE
Ensembl Transcript ENSRNOT00000040255 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000040645 UniProtKB/TrEMBL
  ENSRNOT00000103103 ENTREZGENE
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ins145_P3_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  InsP3_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIR_motif UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RIH_assoc-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RIH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RyR/IP3R_RIH_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81678 UniProtKB/Swiss-Prot
NCBI Gene 81678 ENTREZGENE
Pfam Ins145_P3_rec UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RIH_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RYDR_ITPR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Itpr2 PhenoGen
PRINTS INSP3RECEPTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE MIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART MIR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF100909 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF82109 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LNT1_RAT UniProtKB/TrEMBL
  F1LQR8_RAT UniProtKB/TrEMBL
  ITPR2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q99P56 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Itpr2  inositol 1,4,5-trisphosphate receptor, type 2  LOC102553163  uncharacterized LOC102553163  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102553163  uncharacterized LOC102553163      Symbol and Name status set to provisional 70820 PROVISIONAL
2011-08-02 Itpr2  inositol 1,4,5-trisphosphate receptor, type 2  Itpr2  inositol 1,4,5-triphosphate receptor, type 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-17 Itpr2  inositol 1,4,5-triphosphate receptor, type 2  Itpr2  inositol 1,4,5-triphosphate receptor 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Itpr2  inositol 1,4,5-triphosphate receptor 2    inositol 1,4,5-triphosphate receptor type 2  Symbol and Name status set to approved 629479 APPROVED
2002-06-10 Itpr2  inositol 1,4,5-triphosphate receptor type 2      Name updated 70585 PROVISIONAL
2002-02-26 Itpr2  inositol 1,4,5-triphosphate receptor 2      Name updated 70292 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression predominantly expressed in brown adipose tissue 727515
gene_function intracellular Ca2+ channel, receptor for Insp3 (inositol 1,4,5-triphosphate) that causes the release of Ca ++ from intracellular stores 68894
gene_function intracellular Ca2+ channel, receptor for Insp3 (inositol 1,4,5-triphosphate) that causes the release of Ca ++ from intracellular stores 69501
gene_process plays a role in the regulation of insulin secretion 68894
gene_process plays a role in the regulation of insulin secretion 69501
gene_regulation mRNA expression elevated in cardiac atria and ventricles by stress 729245