Gfra1 (GDNF family receptor alpha 1) - Rat Genome Database

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Gene: Gfra1 (GDNF family receptor alpha 1) Rattus norvegicus
Analyze
Symbol: Gfra1
Name: GDNF family receptor alpha 1
RGD ID: 2681
Description: Enables integrin binding activity and neurotrophin receptor activity. Involved in several processes, including male gonad development; neuron projection development; and positive regulation of peptidyl-tyrosine phosphorylation. Located in several cellular components, including axon; external side of plasma membrane; and neuronal cell body. Part of plasma membrane protein complex and receptor complex. Used to study Parkinsonism. Biomarker of Parkinsonism; brain ischemia; and sciatic neuropathy. Orthologous to human GFRA1 (GDNF family receptor alpha 1); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: GDNF family receptor alpha-1; GDNF family receptor alpha-1-like; GDNF receptor alpha; GDNF receptor alpha-1; GDNFR-alpha; GDNFR-alpha-1; GFR-alpha-1; glial cell line derived neurotrophic factor family receptor alpha 1; Glial cell line-derived neurotrophic factor receptor alpha; LOC100911751; RET ligand 1; TGF-beta-related neurotrophic factor receptor 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21257,315,682 - 257,552,004 (-)NCBImRatBN7.2
Rnor_6.01279,203,046 - 279,572,789 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01286,571,283 - 286,640,993 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01286,932,096 - 286,934,801 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41264,614,329 - 264,875,486 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11264,825,373 - 265,086,531 (-)NCBI
Celera1253,001,051 - 253,229,417 (-)NCBICelera
Cytogenetic Map1q55NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
1,1,1-trichloroethane  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
allethrin  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorohydrocarbon  (EXP)
cisplatin  (ISO)
coumestrol  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (EXP,ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
DDD  (ISO)
DDE  (ISO)
DDT  (ISO)
dexamethasone  (EXP,ISO)
dieldrin  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endrin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
fenvalerate  (EXP)
furan  (EXP)
gamma-hexachlorocyclohexane  (ISO)
genistein  (ISO)
GW 4064  (ISO)
L-ascorbic acid  (ISO)
methapyrilene  (EXP)
methylmercury chloride  (EXP,ISO)
naproxen  (EXP)
nickel atom  (ISO)
O-methyleugenol  (ISO)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenacetin  (EXP)
phenobarbital  (ISO)
phenylhydrazine  (EXP)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP,ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propanal  (ISO)
resmethrin  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
stigmasterol  (ISO)
sumatriptan  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
triadimefon  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (EXP)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Burazin TC and Gundlach AL, Brain Res Mol Brain Res. 1998 Apr;55(2):331-6.
2. Cao JP, etal., J Comp Neurol. 2008 Jul 10;509(2):203-10.
3. Cao L, etal., Glia. 2006 Nov 1;54(6):536-44.
4. Carmillo P, etal., Biochemistry. 2005 Feb 22;44(7):2545-54.
5. Charlet-Berguerand N, etal., Cell Signal. 2004 Dec;16(12):1425-34.
6. Dong ZQ, etal., Brain Res Bull. 2006 Mar 15;69(1):30-6. Epub 2005 Nov 28.
7. Eketjäll S, etal., EMBO J. 1999 Nov 1;18(21):5901-10.
8. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Glerup S, etal., Cell Rep. 2013 Jan 31;3(1):186-99. doi: 10.1016/j.celrep.2012.12.011. Epub 2013 Jan 17.
10. GOA data from the GO Consortium
11. Hase A, etal., J Neurochem. 2005 Oct;95(2):537-43. Epub 2005 Aug 8.
12. Jing S, etal., Cell 1996 Jun 28;85(7):1113-24.
13. Kawakami T, etal., Neurourol Urodyn 2003;22(1):83-8.
14. Keast JR, etal., J Comp Neurol. 2010 Aug 1;518(15):3024-45.
15. Kitagawa H, etal., Brain Res. 1999 Jul 10;834(1-2):190-5.
16. Kretz A, etal., Brain Res. 2006 May 23;1090(1):1-14. Epub 2006 May 2.
17. Lei Z, etal., J Neuropathol Exp Neurol. 2011 Sep;70(9):736-47.
18. Lindqvist N, etal., Exp Neurol. 2004 Jun;187(2):487-99.
19. Liu T, etal., Reprod Domest Anim. 2011 Nov 24. doi: 10.1111/j.1439-0531.2011.01950.x.
20. Marco S, etal., J Neurobiol. 2002 Sep 15;52(4):343-51.
21. Maroldt H, etal., J Neurocytol. 2005 Sep;34(3-5):241-55. Epub 2006 Jul 13.
22. MGD data from the GO Consortium
23. NCBI rat LocusLink and RefSeq merged data July 26, 2002
24. Pruett BS and Salvatore MF, J Neurochem. 2010 Nov;115(3):707-15. doi: 10.1111/j.1471-4159.2010.06963.x. Epub 2010 Sep 28.
25. RGD automated data pipeline
26. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
27. RGD automated import pipeline for gene-chemical interactions
28. Sanicola M, etal., Proc Natl Acad Sci U S A 1997 Jun 10;94(12):6238-43.
29. Sarabi A, etal., Exp Neurol. 2001 Aug;170(2):283-9.
30. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
31. Tsujino H, etal., Brain Res Mol Brain Res. 1999 Jul 5;70(2):298-303.
32. Uesaka T, etal., Development. 2007 Jun;134(11):2171-81.
33. Yamamoto M, etal., Brain Res. 1998 Nov 2;809(2):175-81.
34. Zhou W, etal., Zhonghua Yi Xue Za Zhi 2000 Feb;80(2):135-9.
Additional References at PubMed
PMID:8657309   PMID:9192898   PMID:10719212   PMID:11069590   PMID:12535958   PMID:14563851   PMID:15044950   PMID:15225646   PMID:15306125   PMID:16289634   PMID:16513266   PMID:17240430  
PMID:17298301   PMID:17538205   PMID:17640046   PMID:18085594   PMID:18845535   PMID:19056867   PMID:19845157   PMID:20350599   PMID:20807316   PMID:21133924   PMID:22266674   PMID:23321789  
PMID:23767459   PMID:25043933   PMID:26599339   PMID:30541958  


Genomics

Comparative Map Data
Gfra1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21257,315,682 - 257,552,004 (-)NCBImRatBN7.2
Rnor_6.01279,203,046 - 279,572,789 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01286,571,283 - 286,640,993 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01286,932,096 - 286,934,801 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41264,614,329 - 264,875,486 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11264,825,373 - 265,086,531 (-)NCBI
Celera1253,001,051 - 253,229,417 (-)NCBICelera
Cytogenetic Map1q55NCBI
GFRA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl10116,056,925 - 116,276,803 (-)EnsemblGRCh38hg38GRCh38
GRCh3810116,056,925 - 116,274,705 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710117,816,436 - 118,034,217 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610117,812,943 - 118,022,966 (-)NCBINCBI36hg18NCBI36
Build 3410117,813,264 - 118,022,966NCBI
Celera10111,545,807 - 111,762,346 (-)NCBI
Cytogenetic Map10q25.3NCBI
HuRef10111,444,080 - 111,660,347 (-)NCBIHuRef
CHM1_110118,099,661 - 118,316,231 (-)NCBICHM1_1
Gfra1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391958,224,013 - 58,444,382 (-)NCBIGRCm39mm39
GRCm39 Ensembl1958,224,036 - 58,444,341 (-)Ensembl
GRCm381958,235,581 - 58,455,946 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1958,235,604 - 58,455,909 (-)EnsemblGRCm38mm10GRCm38
MGSCv371958,311,182 - 58,528,956 (-)NCBIGRCm37mm9NCBIm37
MGSCv361958,289,942 - 58,507,716 (-)NCBImm8
Celera1960,429,999 - 60,650,471 (-)NCBICelera
Cytogenetic Map19D2NCBI
cM Map1954.18NCBI
Gfra1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543120,866,685 - 21,070,853 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543120,859,152 - 21,070,886 (-)NCBIChiLan1.0ChiLan1.0
GFRA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.110116,079,056 - 116,295,195 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10116,079,063 - 116,295,164 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v010112,645,574 - 112,862,413 (-)NCBIMhudiblu_PPA_v0panPan3
GFRA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12826,707,592 - 26,910,029 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2826,709,645 - 26,909,992 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2826,859,169 - 27,062,134 (-)NCBI
ROS_Cfam_1.02827,243,451 - 27,446,937 (-)NCBI
UMICH_Zoey_3.12826,799,655 - 27,002,551 (-)NCBI
UNSW_CanFamBas_1.02826,812,101 - 27,015,351 (-)NCBI
UU_Cfam_GSD_1.02827,006,585 - 27,209,685 (-)NCBI
Gfra1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721319,299,126 - 19,490,965 (+)NCBI
SpeTri2.0NW_0049364866,066,108 - 6,262,055 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GFRA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14126,277,857 - 126,499,465 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114126,273,558 - 126,499,957 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214137,525,348 - 137,748,038 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GFRA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.19108,869,444 - 109,088,803 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl9108,876,855 - 109,087,488 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604870,112,995 - 70,332,336 (-)NCBIVero_WHO_p1.0
Gfra1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473730,325,962 - 30,526,311 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH132446  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21257,424,447 - 257,424,659 (+)MAPPERmRatBN7.2
Rnor_6.01279,415,771 - 279,415,982NCBIRnor6.0
Rnor_6.01279,311,075 - 279,311,286NCBIRnor6.0
Rnor_5.01286,777,918 - 286,778,129UniSTSRnor5.0
Rnor_5.01286,673,222 - 286,673,433UniSTSRnor5.0
RGSC_v3.41264,747,990 - 264,748,201UniSTSRGSC3.4
Celera1253,102,980 - 253,103,191UniSTS
RH 3.4 Map11689.5UniSTS
Cytogenetic Map1q55UniSTS
AW529053  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21257,320,279 - 257,320,473 (+)MAPPERmRatBN7.2
Rnor_6.01279,207,644 - 279,207,837NCBIRnor6.0
Rnor_5.01286,571,341 - 286,571,534UniSTSRnor5.0
RGSC_v3.41264,614,387 - 264,614,580UniSTSRGSC3.4
Celera1253,001,109 - 253,001,302UniSTS
RH 3.4 Map11690.1UniSTS
Cytogenetic Map1q55UniSTS
Gfra1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21257,549,390 - 257,550,528 (+)MAPPERmRatBN7.2
Rnor_6.01279,571,144 - 279,572,281NCBIRnor6.0
Rnor_6.01278,478,808 - 278,479,945NCBIRnor6.0
Rnor_5.01285,849,673 - 285,850,810UniSTSRnor5.0
Rnor_5.01286,933,409 - 286,934,546UniSTSRnor5.0
RGSC_v3.41264,874,094 - 264,875,231UniSTSRGSC3.4
Celera1253,228,025 - 253,229,162UniSTS
Cytogenetic Map1q55UniSTS
Gfra1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21257,549,390 - 257,550,527 (+)MAPPERmRatBN7.2
Rnor_6.01279,571,144 - 279,572,280NCBIRnor6.0
Rnor_6.01278,478,808 - 278,479,944NCBIRnor6.0
Rnor_5.01285,849,673 - 285,850,809UniSTSRnor5.0
Rnor_5.01286,933,409 - 286,934,545UniSTSRnor5.0
RGSC_v3.41264,874,094 - 264,875,230UniSTSRGSC3.4
Celera1253,228,025 - 253,229,161UniSTS
Cytogenetic Map1q55UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
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)1218748008257976495Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
1581544Rf52Renal function QTL 520.05total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1232156370259647894Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233190394258625266Rat
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)1233948574260522016Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1237147813260522016Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1238699859259647894Rat
1598839Rf56Renal function QTL 56renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1245907761257976495Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:331
Count of miRNA genes:200
Interacting mature miRNAs:249
Transcripts:ENSRNOT00000023667, ENSRNOT00000066428
Prediction methods: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


Sequence


Reference Sequences
RefSeq Acc Id: NM_012959   ⟹   NP_037091
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,320,222 - 257,550,783 (-)NCBI
Rnor_6.01279,207,586 - 279,572,536 (-)NCBI
Rnor_5.01286,571,283 - 286,640,993 (-)NCBI
Rnor_5.01286,932,096 - 286,934,801 (-)NCBI
RGSC_v3.41264,614,329 - 264,875,486 (-)RGD
Celera1253,001,051 - 253,229,417 (-)RGD
Sequence:
RefSeq Acc Id: XM_008760512   ⟹   XP_008758734
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,042 (-)NCBI
Rnor_6.01279,203,046 - 279,572,789 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008760514   ⟹   XP_008758736
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,498 (-)NCBI
Rnor_6.01279,203,046 - 279,572,595 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039101759   ⟹   XP_038957687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,498 (-)NCBI
RefSeq Acc Id: XM_039101762   ⟹   XP_038957690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,523 (-)NCBI
RefSeq Acc Id: XM_039101768   ⟹   XP_038957696
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,552,004 (-)NCBI
RefSeq Acc Id: XM_039101773   ⟹   XP_038957701
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,280 (-)NCBI
RefSeq Acc Id: XM_039101776   ⟹   XP_038957704
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21257,315,682 - 257,551,081 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_037091   ⟸   NM_012959
- Peptide Label: precursor
- UniProtKB: Q62997 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008758734   ⟸   XM_008760512
- Peptide Label: isoform X1
- UniProtKB: Q62997 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008758736   ⟸   XM_008760514
- Peptide Label: isoform X2
- UniProtKB: O35748 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038957696   ⟸   XM_039101768
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957690   ⟸   XM_039101762
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957687   ⟸   XM_039101759
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957701   ⟸   XM_039101773
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957704   ⟸   XM_039101776
- Peptide Label: isoform X1
Protein Domains
GDNF


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2681 AgrOrtholog
InterPro GDNF/GAS1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDNF_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDNF_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDNF_rcpt_A1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glial_neurotroph_fac_rcpt_a1/2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25454 UniProtKB/Swiss-Prot
NCBI Gene 25454 ENTREZGENE
PANTHER PTHR10269 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam GDNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gfra1 PhenoGen
PIRSF GDNF_family_receptor_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS GDNFRALPHA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GDNFRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART GDNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF110035 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC218224
  TC227846
UniProt GFRA1_RAT UniProtKB/Swiss-Prot
  O35748 ENTREZGENE, UniProtKB/TrEMBL
  Q62997 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Gfra1  GDNF family receptor alpha 1  LOC100911751  GDNF family receptor alpha-1-like  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100911751  GDNF family receptor alpha-1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-10-17 Gfra1  GDNF family receptor alpha 1  Gfra1  glial cell line derived neurotrophic factor family receptor alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Gfra1  glial cell line derived neurotrophic factor family receptor alpha 1    Glial cell line-derived neurotrophic factor receptor alpha  Name updated 625702 APPROVED
2002-06-10 Gfra1  Glial cell line-derived neurotrophic factor receptor alpha      Symbol and Name status set to approved 70586 APPROVED