Shank2 (SH3 and multiple ankyrin repeat domains 2) - Rat Genome Database
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Gene: Shank2 (SH3 and multiple ankyrin repeat domains 2) Rattus norvegicus
Analyze
Symbol: Shank2
Name: SH3 and multiple ankyrin repeat domains 2
RGD ID: 628772
Description: Exhibits SH3 domain binding activity and protein C-terminus binding activity. Involved in brain development; regulation of synapse organization; and response to nutrient. Localizes to several cellular components, including cell projection membrane; glutamatergic synapse; and postsynaptic density. Predicted to colocalize with ionotropic glutamate receptor complex; neurofilament; and postsynaptic membrane. Human ortholog(s) of this gene implicated in autistic disorder. Orthologous to human SHANK2 (SH3 and multiple ankyrin repeat domains 2); PARTICIPATES IN glutamate signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cortactin-binding protein 1; CortBP1; GKAP/SAPAP-interacting protein; proline rich synapse associated protein 1; proline-rich synapse-associated protein 1; ProSAP1; SH3 and multiple ankyrin repeat domains protein 2; SH3/ankyrin domain gene 2; Spank-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01217,149,156 - 217,593,950 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,151,166 - 217,592,763 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01224,028,791 - 224,450,737 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01222,118,530 - 222,150,341 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41204,399,856 - 204,855,474 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11204,553,308 - 205,005,561 (+)NCBI
Celera1196,732,183 - 197,149,084 (+)NCBICelera
Cytogenetic Map1q42NCBI
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
(+)-schisandrin B  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
Butylparaben  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cisplatin  (EXP,ISO)
cobalt dichloride  (EXP)
cocaine  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
DDE  (EXP)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichloroacetic acid  (ISO)
dicrotophos  (ISO)
dorsomorphin  (ISO)
elemental selenium  (ISO)
enzacamene  (EXP)
epoxiconazole  (EXP)
ethanol  (ISO)
fipronil  (EXP)
GW 4064  (ISO)
hydralazine  (ISO)
hydrogen peroxide  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
linuron  (EXP)
melphalan  (ISO)
menadione  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitroglycerin  (EXP)
O-methyleugenol  (ISO)
paracetamol  (EXP,ISO)
PCB138  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium atom  (EXP)
prochloraz  (EXP)
procymidone  (EXP)
propanal  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium dichromate  (EXP)
tetrachloromethane  (EXP)
tributylstannane  (EXP)
trichostatin A  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)
vitamin E  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc dichloride  (EXP)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Baron MK, etal., Science. 2006 Jan 27;311(5760):531-5.
2. Boeckers TM, etal., J Neurosci 1999 Aug 1;19(15):6506-18.
3. Du Y, etal., Mol Cell Biol 1998 Oct;18(10):5838-51.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Grabrucker AM, etal., EMBO J. 2011 Feb 2;30(3):569-81. doi: 10.1038/emboj.2010.336. Epub 2011 Jan 7.
6. Han W, etal., J Biol Chem. 2006 Jan 20;281(3):1461-9. Epub 2005 Nov 17.
7. Hwang JI, etal., J Biol Chem. 2005 Apr 1;280(13):12467-73. Epub 2005 Jan 4.
8. Ishida H, etal., FEBS Lett. 2018 Aug;592(16):2786-2797. doi: 10.1002/1873-3468.13209. Epub 2018 Aug 12.
9. Kreienkamp HJ, etal., J Biol Chem. 2000 Oct 20;275(42):32387-90.
10. Kreienkamp HJ, etal., J Physiol Paris. 2000 May-Aug;94(3-4):193-8.
11. Lee JH, etal., J Biol Chem. 2007 Apr 6;282(14):10414-22. Epub 2007 Jan 23.
12. Lim S, etal., J Biol Chem 1999 Oct 8;274(41):29510-8.
13. McWilliams RR, etal., Am J Physiol Cell Physiol. 2005 Oct;289(4):C1042-51. Epub 2005 May 25.
14. OMIM Disease Annotation Pipeline
15. Park E, etal., J Biol Chem. 2003 May 23;278(21):19220-9. Epub 2003 Mar 7.
16. Pipeline to import KEGG annotations from KEGG into RGD
17. Qualmann B, etal., J Neurosci. 2004 Mar 10;24(10):2481-95.
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. Saavedra MV, etal., Neuroreport. 2008 Jul 16;19(11):1123-6. doi: 10.1097/WNR.0b013e3283086797.
21. Tobaben S, etal., J Biol Chem 2000 Nov 17;275(46):36204-10.
22. Yang J, etal., EMBO J. 2011 Jan 5;30(1):165-80. doi: 10.1038/emboj.2010.286. Epub 2010 Nov 30.
Additional References at PubMed
PMID:10373412   PMID:10527873   PMID:10806096   PMID:11583995   PMID:14679199   PMID:14977424   PMID:15207857   PMID:15458844   PMID:16606358   PMID:16758162   PMID:17120053   PMID:19299912  
PMID:20131911   PMID:20473310   PMID:20800661   PMID:20810910   PMID:21795692   PMID:22699619   PMID:22699620   PMID:25775468   PMID:26627310   PMID:27890541   PMID:29250591   PMID:29476059  


Genomics

Comparative Map Data
Shank2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01217,149,156 - 217,593,950 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,151,166 - 217,592,763 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01224,028,791 - 224,450,737 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01222,118,530 - 222,150,341 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41204,399,856 - 204,855,474 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11204,553,308 - 205,005,561 (+)NCBI
Celera1196,732,183 - 197,149,084 (+)NCBICelera
Cytogenetic Map1q42NCBI
SHANK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1170,467,856 - 71,252,577 (-)EnsemblGRCh38hg38GRCh38
GRCh381170,467,854 - 71,252,724 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371170,313,961 - 70,935,808 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361169,991,609 - 70,185,520 (-)NCBINCBI36hg18NCBI36
Build 341170,012,765 - 70,185,520NCBI
Celera1167,575,145 - 68,227,408 (-)NCBI
Cytogenetic Map11q13.3-q13.4NCBI
HuRef1167,062,872 - 67,229,732 (-)NCBIHuRef
HuRef1166,575,130 - 67,004,438 (-)NCBIHuRef
CHM1_11170,197,402 - 70,819,783 (-)NCBICHM1_1
Shank2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397143,531,819 - 143,979,780 (+)NCBIGRCm39mm39
GRCm387143,978,077 - 144,426,043 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7144,001,928 - 144,424,494 (+)EnsemblGRCm38mm10GRCm38
MGSCv377151,361,425 - 151,608,580 (+)NCBIGRCm37mm9NCBIm37
MGSCv367143,840,654 - 144,232,065 (+)NCBImm8
Celera7143,939,514 - 144,185,177 (+)NCBICelera
Cytogenetic Map7F5NCBI
Shank2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542215,295,772 - 15,814,711 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542215,295,800 - 15,818,067 (+)NCBIChiLan1.0ChiLan1.0
SHANK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11168,857,186 - 69,495,237 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1168,860,606 - 69,437,925 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01165,570,677 - 66,268,139 (-)NCBIMhudiblu_PPA_v0panPan3
SHANK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1847,635,788 - 47,912,117 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11847,477,625 - 47,915,557 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
LOC101967789
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936599196,512 - 463,749 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SHANK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl22,503,181 - 3,016,433 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.122,517,853 - 3,016,959 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22924,313 - 1,073,976 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SHANK2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.113,453,268 - 4,104,515 (+)NCBI
Shank2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476716,296,053 - 16,828,714 (+)NCBI

Position Markers
D1Rat168  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01217,372,257 - 217,372,467NCBIRnor6.0
Rnor_5.01224,224,750 - 224,224,960UniSTSRnor5.0
RGSC_v3.41204,621,918 - 204,622,129RGDRGSC3.4
RGSC_v3.41204,621,919 - 204,622,129UniSTSRGSC3.4
RGSC_v3.11204,775,371 - 204,775,582RGD
Celera1196,929,409 - 196,929,619UniSTS
Cytogenetic Map1q41UniSTS
RH 2.0 Map11104.7RGD
SHRSP x BN Map1104.5599RGD
D1Got184  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01217,466,279 - 217,466,493NCBIRnor6.0
Rnor_5.01224,319,717 - 224,319,931UniSTSRnor5.0
Rnor_5.01224,808,843 - 224,809,057UniSTSRnor5.0
RGSC_v3.41204,729,897 - 204,730,112RGDRGSC3.4
RGSC_v3.41204,729,898 - 204,730,112UniSTSRGSC3.4
RGSC_v3.11204,883,350 - 204,883,565RGD
Celera1197,023,455 - 197,023,669UniSTS
Cytogenetic Map1q41UniSTS
RH 2.0 Map11103.1RGD
D1Wox81  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01215,243,564 - 215,243,770NCBIRnor6.0
Rnor_6.01217,590,876 - 217,591,082NCBIRnor6.0
Rnor_5.01224,447,663 - 224,447,869UniSTSRnor5.0
Rnor_5.01222,147,267 - 222,147,473UniSTSRnor5.0
RGSC_v3.41204,853,947 - 204,854,153UniSTSRGSC3.4
Celera1197,147,557 - 197,147,763UniSTS
Cytogenetic Map1q41UniSTS
RH138116  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01217,344,812 - 217,344,951NCBIRnor6.0
Rnor_5.01224,196,988 - 224,197,127UniSTSRnor5.0
RGSC_v3.41204,586,021 - 204,586,160UniSTSRGSC3.4
Cytogenetic Map1q41UniSTS
RH 3.4 Map11561.9UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1215828102260828102Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1216324817261324817Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
6480773Gluco64Glucose level QTL 645.09blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291218614387Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1215494321218614387Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1216213318245529710Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1216324817261324817Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1215828102260828102Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1215711860258765521Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1215684498260684498Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1217372257244992610Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1215711860260711860Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291281795785Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:264
Count of miRNA genes:92
Interacting mature miRNAs:105
Transcripts:ENSRNOT00000071484, ENSRNOT00000071741, ENSRNOT00000075078
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 50 6
Low 3 12 51 41 4 41 24 29 39 11
Below cutoff 29 6 15 7 8 2 7

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001004133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_133440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_133441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_201350 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008760068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588720 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07006076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07072008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07072009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009148 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01009169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC125304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC131216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF060116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF141903 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF159048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ131899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ249562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY298755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000071484   ⟹   ENSRNOP00000064763
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,151,166 - 217,592,763 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000071741   ⟹   ENSRNOP00000067841
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,345,545 - 217,589,035 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075078   ⟹   ENSRNOP00000065891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,173,199 - 217,589,037 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092278   ⟹   ENSRNOP00000075778
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,349,493 - 217,566,581 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092357   ⟹   ENSRNOP00000075800
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,459,321 - 217,589,488 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092386   ⟹   ENSRNOP00000075919
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,459,215 - 217,592,403 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092516   ⟹   ENSRNOP00000075839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,345,154 - 217,592,403 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092579   ⟹   ENSRNOP00000075896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,349,497 - 217,577,938 (+)Ensembl
RefSeq Acc Id: NM_001004133   ⟹   NP_001004133
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,459,321 - 217,589,488 (+)NCBI
Rnor_5.01224,028,791 - 224,450,737 (+)NCBI
RGSC_v3.41204,399,856 - 204,855,474 (+)RGD
Celera1197,016,496 - 197,146,169 (+)NCBI
Sequence:
RefSeq Acc Id: NM_133440   ⟹   NP_597684
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,459,215 - 217,592,403 (+)NCBI
Rnor_5.01224,028,791 - 224,450,737 (+)NCBI
RGSC_v3.41204,399,856 - 204,855,474 (+)RGD
Celera1197,016,390 - 197,149,084 (+)NCBI
Sequence:
RefSeq Acc Id: NM_133441   ⟹   NP_597685
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,345,154 - 217,592,403 (+)NCBI
Rnor_5.01224,028,791 - 224,450,737 (+)NCBI
RGSC_v3.41204,399,856 - 204,855,474 (+)RGD
Celera1196,902,548 - 197,149,084 (+)NCBI
Sequence:
RefSeq Acc Id: NM_201350   ⟹   NP_958738
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,173,199 - 217,589,037 (+)NCBI
Rnor_5.01224,028,791 - 224,450,737 (+)NCBI
RGSC_v3.41204,399,856 - 204,855,474 (+)RGD
Celera1196,732,183 - 197,145,718 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008760068   ⟹   XP_008758290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588715   ⟹   XP_017444204
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588716   ⟹   XP_017444205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,149,795 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588717   ⟹   XP_017444206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,149,156 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588718   ⟹   XP_017444207
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588719   ⟹   XP_017444208
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,298 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588720   ⟹   XP_017444209
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588721   ⟹   XP_017444210
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588722   ⟹   XP_017444211
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588723   ⟹   XP_017444212
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588724   ⟹   XP_017444213
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588725   ⟹   XP_017444214
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588726   ⟹   XP_017444215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588727   ⟹   XP_017444216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,150,473 - 217,593,950 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001004133 (Get FASTA)   NCBI Sequence Viewer  
  NP_597684 (Get FASTA)   NCBI Sequence Viewer  
  NP_597685 (Get FASTA)   NCBI Sequence Viewer  
  NP_958738 (Get FASTA)   NCBI Sequence Viewer  
  XP_008758290 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444204 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444205 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444206 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444207 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444208 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444209 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444210 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444211 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444212 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444213 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444214 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444215 (Get FASTA)   NCBI Sequence Viewer  
  XP_017444216 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC62226 (Get FASTA)   NCBI Sequence Viewer  
  AAD42977 (Get FASTA)   NCBI Sequence Viewer  
  AAF02497 (Get FASTA)   NCBI Sequence Viewer  
  AAP85236 (Get FASTA)   NCBI Sequence Viewer  
  CAB44312 (Get FASTA)   NCBI Sequence Viewer  
  CAB44313 (Get FASTA)   NCBI Sequence Viewer  
  CAB44314 (Get FASTA)   NCBI Sequence Viewer  
  CAB56522 (Get FASTA)   NCBI Sequence Viewer  
  Q9QX74 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_958738   ⟸   NM_201350
- Peptide Label: isoform a
- UniProtKB: Q9QX74 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_597685   ⟸   NM_133441
- Peptide Label: isoform d
- UniProtKB: Q9QX74 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_597684   ⟸   NM_133440
- Peptide Label: isoform c
- UniProtKB: Q9QX74 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001004133   ⟸   NM_001004133
- Peptide Label: isoform b
- UniProtKB: Q9QX74 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008758290   ⟸   XM_008760068
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017444206   ⟸   XM_017588717
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444205   ⟸   XM_017588716
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444208   ⟸   XM_017588719
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444204   ⟸   XM_017588715
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444209   ⟸   XM_017588720
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017444211   ⟸   XM_017588722
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017444214   ⟸   XM_017588725
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017444210   ⟸   XM_017588721
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017444212   ⟸   XM_017588723
- Peptide Label: isoform X6
- UniProtKB: M0R5T5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017444215   ⟸   XM_017588726
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017444213   ⟸   XM_017588724
- Peptide Label: isoform X7
- UniProtKB: Q9QX74 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017444216   ⟸   XM_017588727
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017444207   ⟸   XM_017588718
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000075778   ⟸   ENSRNOT00000092278
RefSeq Acc Id: ENSRNOP00000075919   ⟸   ENSRNOT00000092386
RefSeq Acc Id: ENSRNOP00000075800   ⟸   ENSRNOT00000092357
RefSeq Acc Id: ENSRNOP00000075839   ⟸   ENSRNOT00000092516
RefSeq Acc Id: ENSRNOP00000075896   ⟸   ENSRNOT00000092579
RefSeq Acc Id: ENSRNOP00000065891   ⟸   ENSRNOT00000075078
RefSeq Acc Id: ENSRNOP00000064763   ⟸   ENSRNOT00000071484
RefSeq Acc Id: ENSRNOP00000067841   ⟸   ENSRNOT00000071741
Protein Domains
ANK_REP_REGION   PDZ   SAM   SH3

Transcriptome

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

Promoters
RGD ID:13690583
Promoter ID:EPDNEW_R1107
Type:single initiation site
Name:Shank2_1
Description:SH3 and multiple ankyrin repeat domains 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,459,268 - 217,459,328EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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
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/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
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/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
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
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
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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
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 (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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (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 (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
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 (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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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:628772 AgrOrtholog
Ensembl Genes ENSRNOG00000050206 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000064763 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000065891 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000067841 UniProtKB/Swiss-Prot
  ENSRNOP00000075778 UniProtKB/TrEMBL
  ENSRNOP00000075800 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000075839 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000075896 UniProtKB/TrEMBL
  ENSRNOP00000075919 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000071484 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000071741 UniProtKB/Swiss-Prot
  ENSRNOT00000075078 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000092278 UniProtKB/TrEMBL
  ENSRNOT00000092357 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000092386 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000092516 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000092579 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.20 UniProtKB/TrEMBL
  2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_dom UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
  FERM_f0 UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171093 UniProtKB/Swiss-Prot
NCBI Gene 171093 ENTREZGENE
Pfam Ank_2 UniProtKB/TrEMBL
  FERM_f0 UniProtKB/TrEMBL
  PDZ_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Shank2 PhenoGen
PROSITE ANK_REP_REGION UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP ANK UniProtKB/TrEMBL
  SSF47769 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.14545 ENTREZGENE
UniProt A0A0U1RRR2_RAT UniProtKB/TrEMBL
  A0A0U1RS17_RAT UniProtKB/TrEMBL
  M0R5T5 ENTREZGENE, UniProtKB/TrEMBL
  Q9QX74 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O70470 UniProtKB/Swiss-Prot
  Q6WB19 UniProtKB/Swiss-Prot
  Q9QX93 UniProtKB/Swiss-Prot
  Q9QZZ9 UniProtKB/Swiss-Prot
  Q9WUV9 UniProtKB/Swiss-Prot
  Q9WUW0 UniProtKB/Swiss-Prot
  Q9WV46 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-11-04 Shank2  SH3 and multiple ankyrin repeat domains 2  Shank2  SH3/ankyrin domain gene 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Shank2  SH3/ankyrin domain gene 2    proline rich synapse associated protein 1  Name updated 1299863 APPROVED
2003-02-27 Shank2  proline rich synapse associated protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains a PDZ domain 633972