Sorcs1 (sortilin-related VPS10 domain containing receptor 1) - Rat Genome Database

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Gene: Sorcs1 (sortilin-related VPS10 domain containing receptor 1) Rattus norvegicus
Analyze
Symbol: Sorcs1
Name: sortilin-related VPS10 domain containing receptor 1
RGD ID: 1305910
Description: Predicted to be involved in post-Golgi vesicle-mediated transport. Predicted to localize to Golgi apparatus and integral component of membrane. Used to study proteinuria. Orthologous to human SORCS1 (sortilin related VPS10 domain containing receptor 1); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC309533; VPS10 domain receptor protein SORCS 1; VPS10 domain-containing receptor SorCS1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Sorcs1em1Mcwi  
Genetic Models: FHH-Chr 1BN-Sorcs1em1Mcwi-/- FHH-Chr 1BN-Sorcs1em1Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21249,080,662 - 249,594,520 (-)NCBI
Rnor_6.0 Ensembl1269,973,351 - 270,472,866 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01269,965,824 - 270,473,097 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01277,404,996 - 277,912,261 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41255,767,411 - 256,279,565 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11256,033,640 - 256,545,663 (-)NCBI
Celera1244,828,397 - 245,333,325 (-)NCBICelera
Cytogenetic Map1q55NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12482870   PMID:31658245   PMID:31857633  


Genomics

Candidate Gene Status
Sorcs1 is a candidate Gene for QTL Niddm65
Comparative Map Data
Sorcs1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21249,080,662 - 249,594,520 (-)NCBI
Rnor_6.0 Ensembl1269,973,351 - 270,472,866 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01269,965,824 - 270,473,097 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01277,404,996 - 277,912,261 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41255,767,411 - 256,279,565 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11256,033,640 - 256,545,663 (-)NCBI
Celera1244,828,397 - 245,333,325 (-)NCBICelera
Cytogenetic Map1q55NCBI
SORCS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl10106,573,663 - 107,164,706 (-)EnsemblGRCh38hg38GRCh38
GRCh3810106,573,663 - 107,181,138 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710108,333,421 - 108,924,464 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610108,323,411 - 108,914,282 (-)NCBINCBI36hg18NCBI36
Build 3410108,323,410 - 108,914,282NCBI
Celera10102,072,553 - 102,663,374 (-)NCBI
Cytogenetic Map10q25.1NCBI
HuRef10101,965,988 - 102,556,901 (-)NCBIHuRef
CHM1_110108,615,122 - 109,206,295 (-)NCBICHM1_1
Sorcs1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391950,131,733 - 50,668,030 (-)NCBIGRCm39mm39
GRCm39 Ensembl1950,131,737 - 50,667,084 (-)Ensembl
GRCm381950,143,295 - 50,679,129 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1950,143,299 - 50,678,646 (-)EnsemblGRCm38mm10GRCm38
MGSCv371950,222,150 - 50,753,102 (-)NCBIGRCm37mm9NCBIm37
MGSCv361950,204,284 - 50,731,796 (-)NCBImm8
Celera1950,907,555 - 51,438,064 (-)NCBICelera
Cytogenetic Map19D1NCBI
cM Map1945.05NCBI
Sorcs1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554853,719,008 - 4,218,699 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554853,719,006 - 4,222,143 (+)NCBIChiLan1.0ChiLan1.0
SORCS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.110106,623,481 - 107,211,230 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v010103,164,581 - 103,753,754 (-)NCBIMhudiblu_PPA_v0panPan3
SORCS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12818,619,015 - 18,933,785 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2818,622,234 - 18,797,249 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2818,745,291 - 19,221,898 (-)NCBI
ROS_Cfam_1.02819,098,613 - 19,608,198 (-)NCBI
UMICH_Zoey_3.12818,630,873 - 19,139,229 (-)NCBI
UNSW_CanFamBas_1.02818,678,797 - 19,178,427 (-)NCBI
UU_Cfam_GSD_1.02818,811,161 - 19,310,390 (-)NCBI
Sorcs1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721327,085,308 - 27,300,512 (+)NCBI
SpeTri2.0NW_00493677627,519 - 240,225 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SORCS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14117,479,786 - 118,009,275 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114117,479,817 - 118,009,485 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214127,817,702 - 128,359,641 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SORCS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1999,581,375 - 100,171,637 (-)NCBI
Vero_WHO_p1.0NW_02366604860,747,868 - 61,334,611 (-)NCBI
Sorcs1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248315,433,671 - 5,901,911 (-)NCBI

Position Markers
D1Got243  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,464,806 - 249,465,102 (+)MAPPER
Rnor_6.01270,343,685 - 270,343,980NCBIRnor6.0
Rnor_5.01277,782,857 - 277,783,152UniSTSRnor5.0
RGSC_v3.41256,147,163 - 256,147,458UniSTSRGSC3.4
RGSC_v3.11256,413,080 - 256,413,374RGD
RH 3.4 Map11647.6UniSTS
RH 3.4 Map11647.6RGD
Cytogenetic Map1q55UniSTS
D1Swe6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,556,757 - 249,557,041 (+)MAPPER
Rnor_6.01270,435,354 - 270,435,635NCBIRnor6.0
Rnor_5.01277,874,526 - 277,874,807UniSTSRnor5.0
RGSC_v3.41256,242,053 - 256,242,334UniSTSRGSC3.4
Celera1245,295,908 - 245,296,189UniSTS
Cytogenetic Map1q55UniSTS
D1Swe5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,396,204 - 249,396,498 (+)MAPPER
Rnor_6.01270,282,616 - 270,282,909NCBIRnor6.0
Rnor_5.01277,721,788 - 277,722,081UniSTSRnor5.0
RGSC_v3.41256,078,665 - 256,078,958UniSTSRGSC3.4
Celera1245,135,983 - 245,136,276UniSTS
Cytogenetic Map1q55UniSTS
AU047999  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,246,112 - 249,246,400 (+)MAPPER
Rnor_6.01270,132,136 - 270,132,423NCBIRnor6.0
Rnor_5.01277,571,308 - 277,571,595UniSTSRnor5.0
RGSC_v3.41255,928,594 - 255,928,881UniSTSRGSC3.4
Cytogenetic Map1q55UniSTS
RH128986  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,085,276 - 249,085,472 (+)MAPPER
Rnor_6.01269,970,439 - 269,970,634NCBIRnor6.0
Rnor_5.01277,409,611 - 277,409,806UniSTSRnor5.0
RGSC_v3.41255,764,499 - 255,764,694UniSTSRGSC3.4
Celera1244,825,485 - 244,825,680UniSTS
RH 3.4 Map11647.7UniSTS
Cytogenetic Map1q55UniSTS
RH142862  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,589,323 - 249,589,454 (+)MAPPER
Rnor_6.01270,467,911 - 270,468,041NCBIRnor6.0
Rnor_5.01277,907,083 - 277,907,213UniSTSRnor5.0
RGSC_v3.41256,274,610 - 256,274,740UniSTSRGSC3.4
Celera1245,328,375 - 245,328,505UniSTS
RH 3.4 Map11652.0UniSTS
Cytogenetic Map1q55UniSTS
RH144267  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,224,379 - 249,224,588 (+)MAPPER
Rnor_6.01270,110,403 - 270,110,611NCBIRnor6.0
Rnor_5.01277,549,575 - 277,549,783UniSTSRnor5.0
RGSC_v3.41255,906,861 - 255,907,069UniSTSRGSC3.4
Celera1244,964,441 - 244,964,649UniSTS
RH 3.4 Map11649.4UniSTS
Cytogenetic Map1q55UniSTS
AW530705  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,577,642 - 249,577,799 (+)MAPPER
Rnor_6.01270,456,233 - 270,456,389NCBIRnor6.0
Rnor_5.01277,895,405 - 277,895,561UniSTSRnor5.0
RGSC_v3.41256,262,932 - 256,263,088UniSTSRGSC3.4
Celera1245,316,793 - 245,316,949UniSTS
RH 3.4 Map11650.3UniSTS
Cytogenetic Map1q55UniSTS
BF401123  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,515,864 - 249,516,027 (+)MAPPER
Rnor_6.01270,393,697 - 270,393,859NCBIRnor6.0
Rnor_5.01277,832,869 - 277,833,031UniSTSRnor5.0
RGSC_v3.41256,200,300 - 256,200,462UniSTSRGSC3.4
Celera1245,254,983 - 245,255,145UniSTS
RH 3.4 Map11648.7UniSTS
Cytogenetic Map1q55UniSTS
BE107951  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,228,447 - 249,228,631 (+)MAPPER
Rnor_6.01270,114,471 - 270,114,654NCBIRnor6.0
Rnor_5.01277,553,643 - 277,553,826UniSTSRnor5.0
RGSC_v3.41255,910,929 - 255,911,112UniSTSRGSC3.4
Celera1244,968,509 - 244,968,692UniSTS
RH 3.4 Map11648.7UniSTS
Cytogenetic Map1q55UniSTS
RH137888  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,399,008 - 249,399,151 (+)MAPPER
Rnor_6.01270,285,420 - 270,285,562NCBIRnor6.0
Rnor_5.01277,724,592 - 277,724,734UniSTSRnor5.0
RGSC_v3.41256,081,469 - 256,081,611UniSTSRGSC3.4
Celera1245,138,790 - 245,138,932UniSTS
RH 3.4 Map11648.7UniSTS
Cytogenetic Map1q55UniSTS
RH140348  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,080,890 - 249,081,010 (+)MAPPER
Rnor_6.01269,966,053 - 269,966,172NCBIRnor6.0
Rnor_5.01277,405,225 - 277,405,344UniSTSRnor5.0
RGSC_v3.41255,760,113 - 255,760,232UniSTSRGSC3.4
Celera1244,821,099 - 244,821,218UniSTS
RH 3.4 Map11648.3UniSTS
Cytogenetic Map1q55UniSTS
D1Hmgc19  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21249,583,745 - 249,583,894 (+)MAPPER
Rnor_6.01270,462,331 - 270,462,479NCBIRnor6.0
Rnor_5.01277,901,503 - 277,901,651UniSTSRnor5.0
Celera1245,322,849 - 245,322,997UniSTS
Cytogenetic Map1q55UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1236795785281795785Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1245529606282763074Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1236265430281265430Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1238830534278228767Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1233663100273792054Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1243272341282763074Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1244401175282365384Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1235850810280850810Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1244992467282365384Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1252955158280632620Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1258132568282763074Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1581544Rf52Renal function QTL 520.05total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1252948438281795785Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1241482188281795785Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1255728828282763074Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1238824734279986079Rat
1598839Rf56Renal function QTL 56renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1266793821279986079Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1259295704282763074Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1258709726281795785Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1244401175282365384Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291281795785Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1225689973270689973Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1225689973270689973Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1244087148282763074Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1226706329271706329Rat
1600399Niddm65Non-insulin dependent diabetes mellitus QTL 650.004blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1269633949270137485Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1249206242281795785Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
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
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1236795785281795785Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1230420627282645769Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1236265430281265430Rat
7387289Uae45Urinary albumin excretion QTL 452.860.0021urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1244148899282763074Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1242302911282763074Rat


Genetic Models
This gene Sorcs1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:247
Count of miRNA genes:165
Interacting mature miRNAs:179
Transcripts:ENSRNOT00000015979
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 68
Low 3 36 13 4 13 4 6 6 6 35 36 8 6
Below cutoff 7 31 25 6 25 2 3 5 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015979   ⟹   ENSRNOP00000015979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1269,973,351 - 270,472,866 (-)Ensembl
RefSeq Acc Id: NM_001191563   ⟹   NP_001178492
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,088,189 - 249,594,279 (-)NCBI
Rnor_6.01269,973,351 - 270,472,866 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Celera1244,828,397 - 245,333,325 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231519   ⟹   XP_006231581
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,080,662 - 249,594,424 (-)NCBI
Rnor_6.01269,966,589 - 270,472,968 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231520   ⟹   XP_006231582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,594,424 (-)NCBI
Rnor_6.01269,970,262 - 270,472,968 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231521   ⟹   XP_006231583
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,080,662 - 249,594,424 (-)NCBI
Rnor_6.01269,965,824 - 270,472,968 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231522   ⟹   XP_006231584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,088,615 - 249,594,424 (-)NCBI
Rnor_6.01269,973,829 - 270,472,968 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231523   ⟹   XP_006231585
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,594,424 (-)NCBI
Rnor_6.01269,970,262 - 270,472,968 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231525   ⟹   XP_006231587
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,594,520 (-)NCBI
Rnor_6.01269,970,262 - 270,473,097 (-)NCBI
Rnor_5.01277,404,996 - 277,912,261 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008760442   ⟹   XP_008758664
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01269,970,262 - 270,364,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080712   ⟹   XP_038936640
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,594,424 (-)NCBI
RefSeq Acc Id: XM_039080717   ⟹   XP_038936645
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,485,297 (-)NCBI
RefSeq Acc Id: XM_039080722   ⟹   XP_038936650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,198,037 (-)NCBI
RefSeq Acc Id: XM_039080727   ⟹   XP_038936655
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21249,085,100 - 249,199,057 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178492   ⟸   NM_001191563
- Peptide Label: precursor
- UniProtKB: F1LUZ4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231583   ⟸   XM_006231521
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006231581   ⟸   XM_006231519
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006231587   ⟸   XM_006231525
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006231585   ⟸   XM_006231523
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006231582   ⟸   XM_006231520
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006231584   ⟸   XM_006231522
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008758664   ⟸   XM_008760442
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000015979   ⟸   ENSRNOT00000015979
RefSeq Acc Id: XP_038936640   ⟸   XM_039080712
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038936645   ⟸   XM_039080717
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038936655   ⟸   XM_039080727
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038936650   ⟸   XM_039080722
- Peptide Label: isoform X9
Protein Domains
PKD

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 (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (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/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 (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:1305910 AgrOrtholog
Ensembl Genes ENSRNOG00000011313 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015979 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015979 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/TrEMBL
  PKD_dom UniProtKB/TrEMBL
  PKD_dom_sf UniProtKB/TrEMBL
  Sortilin_C UniProtKB/TrEMBL
  Sortilin_N UniProtKB/TrEMBL
  VPS10 UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
KEGG Report rno:309533 UniProtKB/TrEMBL
NCBI Gene 309533 ENTREZGENE
Pfam PKD UniProtKB/TrEMBL
  Sortilin-Vps10 UniProtKB/TrEMBL
  Sortilin_C UniProtKB/TrEMBL
PhenoGen Sorcs1 PhenoGen
PROSITE PKD UniProtKB/TrEMBL
SMART VPS10 UniProtKB/TrEMBL
Superfamily-SCOP PKD UniProtKB/TrEMBL
UniProt F1LUZ4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Sorcs1  sortilin-related VPS10 domain containing receptor 1  Sorcs1  VPS10 domain receptor protein SORCS 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sorcs1  VPS10 domain receptor protein SORCS 1   Sorcs1_predicted  VPS10 domain receptor protein SORCS 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sorcs1_predicted  VPS10 domain receptor protein SORCS 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED