Cga (glycoprotein hormones, alpha polypeptide) - Rat Genome Database

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Gene: Cga (glycoprotein hormones, alpha polypeptide) Rattus norvegicus
Analyze
Symbol: Cga
Name: glycoprotein hormones, alpha polypeptide
RGD ID: 620436
Description: Predicted to enable follicle-stimulating hormone activity. Predicted to be involved in G protein-coupled receptor signaling pathway; positive regulation of steroid biosynthetic process; and thyroid hormone generation. Predicted to act upstream of or within several processes, including gonadotropin secretion; negative regulation of organ growth; and thyroid gland development. Predicted to be part of follicle-stimulating hormone complex. Predicted to be active in extracellular space. Orthologous to human CGA (glycoprotein hormones, alpha polypeptide); PARTICIPATES IN follicle-stimulating hormone signaling pathway; luteinizing hormone signaling pathway; autoimmune thyroiditis pathway; INTERACTS WITH 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: anterior pituitary glycoprotein hormones common subunit alpha; follicle-stimulating hormone alpha chain; follitropin alpha chain; FSH-alpha; glycoprotein hormone alpha subunit; glycoprotein hormones alpha chain; glycoprotein hormones, alpha subunit; Gpa1; LSH-alpha; luteinizing hormone alpha chain; lutropin alpha chain; pituitary hormone; pituitary hormone alpha subunit; thyroid-stimulating hormone alpha chain; thyrotropin alpha chain; TSH-alpha
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8554,283,109 - 54,295,464 (+)NCBIGRCr8
mRatBN7.2549,486,915 - 49,499,192 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl549,487,068 - 49,499,191 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx551,680,297 - 51,692,413 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0553,280,529 - 53,292,645 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0553,182,409 - 53,194,594 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0550,362,491 - 50,393,368 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,381,244 - 50,393,367 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0554,950,198 - 54,962,319 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4551,538,259 - 51,550,324 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1551,538,437 - 51,550,503 (+)NCBI
Celera548,231,474 - 48,243,595 (+)NCBICelera
RH 3.4 Map5269.7RGD
Cytogenetic Map5q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3',5'-cyclic AMP  (EXP,ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (EXP,ISO)
acetaldehyde  (ISO)
amiodarone  (EXP)
amphotericin B  (ISO)
anandamide  (ISO)
androst-4-ene-3,17-dione  (EXP)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
benzo[a]pyrene  (ISO)
bifenthrin  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
butyric acid  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
colforsin daropate hydrochloride  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
cyanamide  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
DDE  (ISO)
DDT  (ISO)
decabromodiphenyl ether  (EXP,ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diethyl phthalate  (ISO)
diethylstilbestrol  (EXP)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
dorsomorphin  (ISO)
equol  (EXP)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (EXP,ISO)
ethylparaben  (ISO)
flufenamic acid  (EXP)
flutamide  (EXP)
fulvestrant  (ISO)
iodoacetic acid  (ISO)
iron dichloride  (ISO)
ketoconazole  (ISO)
lead diacetate  (ISO)
methotrexate  (ISO)
methoxychlor  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monosodium L-glutamate  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
nickel sulfate  (EXP,ISO)
nicotine  (ISO)
nimodipine  (ISO)
Nonylphenol  (EXP)
Octicizer  (ISO)
octreotide  (ISO)
pentanal  (ISO)
perfluorobutanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
Phenelzine  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (EXP)
progesterone  (EXP,ISO)
propanal  (ISO)
prostaglandin E2  (EXP,ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP)
sodium perchlorate  (EXP)
sophoraflavanone B  (EXP)
T-2 toxin  (ISO)
tamoxifen  (ISO)
taurine  (EXP,ISO)
tebuconazole  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (EXP)
thapsigargin  (ISO)
theophylline  (ISO)
thimerosal  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Fetal but not adult Leydig cells are susceptible to adenoma formation in response to persistently high hCG level: a study on hCG overexpressing transgenic mice. Ahtiainen P, etal., Oncogene. 2005 Nov 10;24(49):7301-9.
2. Human chorionic gonadotropin and free subunits' serum levels in patients with partial and complete hydatidiform moles. Berkowitz R, etal., Obstet Gynecol. 1989 Aug;74(2):212-6.
3. CGA gene (coding for the alpha subunit of glycoprotein hormones) overexpression in ER alpha-positive prostate tumors. Bieche I, etal., Eur Urol. 2002 Mar;41(3):335-41.
4. The CGA gene as new predictor of the response to endocrine therapy in ER alpha-positive postmenopausal breast cancer patients. Bieche I, etal., Oncogene. 2001 Oct 18;20(47):6955-9.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. alpha Subunit of rat pituitary glycoprotein hormones. Primary structure of the precursor determined from the nucleotide sequence of cloned cDNAs. Godine JE, etal., J Biol Chem 1982 Jul 25;257(14):8368-71.
7. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Comprehensive gene review and curation RGD comprehensive gene curation
16. Distribution and characterization of alpha hCG in the serum and tumor cytosol of patients with breast cancer. Shindelman JE, etal., Int J Cancer. 1980 May 15;25(5):599-604.
Additional References at PubMed
PMID:2467841   PMID:2494176   PMID:11207219   PMID:12114718   PMID:12477932   PMID:20352046   PMID:21187122   PMID:22206666   PMID:23299500   PMID:24692546  


Genomics

Comparative Map Data
Cga
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8554,283,109 - 54,295,464 (+)NCBIGRCr8
mRatBN7.2549,486,915 - 49,499,192 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl549,487,068 - 49,499,191 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx551,680,297 - 51,692,413 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0553,280,529 - 53,292,645 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0553,182,409 - 53,194,594 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0550,362,491 - 50,393,368 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,381,244 - 50,393,367 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0554,950,198 - 54,962,319 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4551,538,259 - 51,550,324 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1551,538,437 - 51,550,503 (+)NCBI
Celera548,231,474 - 48,243,595 (+)NCBICelera
RH 3.4 Map5269.7RGD
Cytogenetic Map5q21NCBI
CGA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38687,085,498 - 87,095,106 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl687,085,498 - 87,095,106 (-)EnsemblGRCh38hg38GRCh38
GRCh37687,795,216 - 87,804,824 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36687,851,941 - 87,861,543 (-)NCBINCBI36Build 36hg18NCBI36
Build 34687,851,940 - 87,861,543NCBI
Celera688,213,978 - 88,223,577 (-)NCBICelera
Cytogenetic Map6q14.3NCBI
HuRef685,012,102 - 85,021,750 (-)NCBIHuRef
CHM1_1687,892,792 - 87,902,440 (-)NCBICHM1_1
T2T-CHM13v2.0688,294,252 - 88,303,837 (-)NCBIT2T-CHM13v2.0
Cga
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39434,893,779 - 34,907,374 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl434,893,779 - 34,907,370 (+)EnsemblGRCm39 Ensembl
GRCm38434,893,779 - 34,907,374 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl434,893,779 - 34,907,370 (+)EnsemblGRCm38mm10GRCm38
MGSCv37434,841,028 - 34,854,623 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36435,082,666 - 35,096,261 (+)NCBIMGSCv36mm8
Celera434,617,733 - 34,630,763 (+)NCBICelera
Cytogenetic Map4A5NCBI
cM Map416.86NCBI
Cga
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541114,092,743 - 14,095,302 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541114,092,743 - 14,168,297 (-)NCBIChiLan1.0ChiLan1.0
CGA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25107,164,947 - 107,177,621 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16105,061,393 - 105,071,234 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0684,962,974 - 84,972,638 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1688,237,550 - 88,247,051 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl688,236,206 - 88,247,300 (-)Ensemblpanpan1.1panPan2
CGA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11246,610,801 - 46,629,322 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1246,610,973 - 46,636,640 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1246,421,893 - 46,423,957 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01247,386,566 - 47,405,165 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1247,386,743 - 47,405,483 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11246,708,843 - 46,710,907 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01246,638,576 - 46,640,642 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01246,827,170 - 46,829,230 (-)NCBIUU_Cfam_GSD_1.0
Cga
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494681,774,384 - 81,791,558 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365104,679,321 - 4,696,529 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365104,679,349 - 4,696,511 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CGA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl155,551,320 - 55,568,991 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1155,552,675 - 55,569,057 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2162,245,797 - 62,262,149 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap1p21NCBI
CGA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11311,560,543 - 11,578,070 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1311,560,222 - 11,578,093 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040187,751,845 - 187,768,611 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cga
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247997,249,586 - 7,265,999 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247997,249,502 - 7,265,662 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cga
59 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:36
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000012385
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat

Markers in Region
RH139948  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map5269.7UniSTS
Cytogenetic Map5q13-q24UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3
Low 1 8 2 18
Below cutoff 7 2 3 2 1 1 27 16 12 3 1

Sequence


RefSeq Acc Id: ENSRNOT00000012385   ⟹   ENSRNOP00000012385
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl549,487,068 - 49,499,191 (+)Ensembl
Rnor_6.0 Ensembl550,381,244 - 50,393,367 (+)Ensembl
RefSeq Acc Id: NM_053918   ⟹   NP_446370
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8554,283,340 - 54,295,464 (+)NCBI
mRatBN7.2549,487,068 - 49,499,192 (+)NCBI
Rnor_6.0550,381,244 - 50,393,365 (+)NCBI
Rnor_5.0554,950,198 - 54,962,319 (+)NCBI
RGSC_v3.4551,538,259 - 51,550,324 (+)RGD
Celera548,231,474 - 48,243,595 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063287072   ⟹   XP_063143142
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8554,283,109 - 54,295,464 (+)NCBI
RefSeq Acc Id: XM_063287073   ⟹   XP_063143143
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8554,283,109 - 54,295,464 (+)NCBI
RefSeq Acc Id: NP_446370   ⟸   NM_053918
- Peptide Label: precursor
- UniProtKB: P11962 (UniProtKB/Swiss-Prot),   P70516 (UniProtKB/Swiss-Prot),   A0A0F7RQ24 (UniProtKB/TrEMBL),   Q6P509 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000012385   ⟸   ENSRNOT00000012385
RefSeq Acc Id: XP_063143143   ⟸   XM_063287073
- Peptide Label: isoform X1
- UniProtKB: P70516 (UniProtKB/Swiss-Prot),   P11962 (UniProtKB/Swiss-Prot),   Q6P509 (UniProtKB/TrEMBL),   A0A0F7RQ24 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063143142   ⟸   XM_063287072
- Peptide Label: isoform X1
- UniProtKB: P70516 (UniProtKB/Swiss-Prot),   P11962 (UniProtKB/Swiss-Prot),   Q6P509 (UniProtKB/TrEMBL),   A0A0F7RQ24 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P11962-F1-model_v2 AlphaFold P11962 1-120 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620436 AgrOrtholog
BioCyc Gene G2FUF-41645 BioCyc
Ensembl Genes ENSRNOG00000009269 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055016274 UniProtKB/Swiss-Prot
  ENSRNOG00060003908 UniProtKB/Swiss-Prot
  ENSRNOG00065004959 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012385 ENTREZGENE
  ENSRNOT00000012385.5 UniProtKB/Swiss-Prot
  ENSRNOT00055027600 UniProtKB/Swiss-Prot
  ENSRNOT00060006507 UniProtKB/Swiss-Prot
  ENSRNOT00065007225 UniProtKB/Swiss-Prot
Gene3D-CATH 2.10.90.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6922315 IMAGE-MGC_LOAD
InterPro Cystine-knot_cytokine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glyco_hormone UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116700 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72733 IMAGE-MGC_LOAD
NCBI Gene 116700 ENTREZGENE
PANTHER GLYCOPROTEIN HORMONES ALPHA CHAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11509 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Hormone_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cga PhenoGen
PRINTS GLYCOHORMONE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE GLYCO_HORMONE_ALPHA_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GLYCO_HORMONE_ALPHA_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GLYCO_HORMONE_ALPHA_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009269 RatGTEx
  ENSRNOG00055016274 RatGTEx
  ENSRNOG00060003908 RatGTEx
  ENSRNOG00065004959 RatGTEx
SMART GHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0F7RQ24 ENTREZGENE, UniProtKB/TrEMBL
  A6IIP0_RAT UniProtKB/TrEMBL
  GLHA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  P70516 ENTREZGENE
  Q6P509 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary P70516 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-02-04 Cga  glycoprotein hormones, alpha polypeptide  Cga  glycoprotein hormones, alpha subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Cga  glycoprotein hormones, alpha subunit      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Cga        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein precursor protein consists of a 24 amino acid leader sequence and a 96 amino acid alpha subunit apoprotein 632382