Gch1 (GTP cyclohydrolase 1) - Rat Genome Database

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Gene: Gch1 (GTP cyclohydrolase 1) Rattus norvegicus
Analyze
Symbol: Gch1
Name: GTP cyclohydrolase 1
RGD ID: 61992
Description: Exhibits several functions, including GTP binding activity; GTP cyclohydrolase I activity; and metal ion binding activity. Involved in several processes, including dihydrobiopterin metabolic process; response to pain; and vasodilation. Localizes to protein-containing complex. Human ortholog(s) of this gene implicated in bipolar disorder; dystonia; and dystonia 5. Orthologous to human GCH1 (GTP cyclohydrolase 1); PARTICIPATES IN dopa responsive dystonia pathway; Segawa syndrome pathway; folate metabolic pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Gch; GTP cyclohydrase I; GTP cyclohydrolase I; GTP-CH-I
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21520,404,267 - 20,437,727 (-)NCBI
Rnor_6.0 Ensembl1523,934,585 - 23,969,011 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01523,935,011 - 23,968,971 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01527,876,253 - 27,910,213 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41523,023,996 - 23,139,794 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11523,039,695 - 23,155,494 (-)NCBI
Celera1520,799,206 - 20,832,598 (-)NCBICelera
Cytogenetic Map15p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-colchicine  (ISO)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-diaminotoluene  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
2-methylcholine  (ISO)
3',5'-cyclic GMP  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5,6,7,8-tetrahydrobiopterin  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetylcholine  (EXP,ISO)
acrolein  (ISO)
adenine  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
Calcimycin  (EXP)
capsaicin  (ISO)
carbon nanotube  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (EXP)
diazinon  (EXP,ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dopamine  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (EXP)
furan  (EXP)
glutathione  (EXP)
GW 501516  (ISO)
hydrogen peroxide  (ISO)
L-erythro-7,8-dihydrobiopterin  (ISO)
lead diacetate  (EXP,ISO)
lipopolysaccharide  (EXP,ISO)
manganese(II) chloride  (EXP)
methamphetamine  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylphenidate  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
N-nitrosodiethylamine  (EXP)
naphthalenes  (EXP)
nefazodone  (EXP)
neopterin  (ISO)
nickel atom  (ISO)
nickel dichloride  (EXP)
nicotine  (ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
oxidopamine  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorooctanoic acid  (EXP)
phenethyl caffeate  (EXP)
phenobarbital  (EXP,ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
profenofos  (EXP)
propiconazole  (ISO)
reserpine  (EXP)
resveratrol  (EXP,ISO)
rotenone  (EXP,ISO)
sapropterin  (ISO)
sarin  (ISO)
SB 431542  (ISO)
sepiapterin  (EXP)
sevoflurane  (EXP)
silicon dioxide  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium dichromate  (EXP,ISO)
Soman  (EXP)
succimer  (ISO)
sunitinib  (ISO)
superoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
titanium dioxide  (EXP,ISO)
topotecan  (EXP,ISO)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
undecane  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Du J, etal., PLoS One. 2012;7(3):e33991. doi: 10.1371/journal.pone.0033991. Epub 2012 Mar 27.
2. Foster JA, etal., J Chem Neuroanat 2002 Sep;24(3):173-9.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Hatakeyama K, etal., J Biol Chem 1991 Jan 15;266(2):765-9.
5. Hatakeyama K, etal., J Biol Chem. 1989 Dec 25;264(36):21660-4.
6. Ichinose H, etal., Nat Genet. 1994 Nov;8(3):236-42.
7. Imazumi K, etal., Biochem Biophys Res Commun. 1994 Dec 15;205(2):1409-16.
8. Kealey C, etal., Am J Med Genet B Neuropsychiatr Genet. 2005 Jul 5;136(1):75-80.
9. KEGG
10. Kolinsky MA and Gross SS, J Biol Chem. 2004 Sep 24;279(39):40677-82. Epub 2004 Jul 29.
11. Kumei Y, etal., Ann N Y Acad Sci. 2003 Dec;1010:481-5.
12. Lam CF, etal., Am J Physiol Heart Circ Physiol. 2006 Feb;290(2):H786-93. Epub 2005 Sep 30.
13. Maita N, etal., J Biol Chem. 2004 Dec 3;279(49):51534-40. Epub 2004 Sep 23.
14. Maita N, etal., Proc Natl Acad Sci U S A. 2002 Feb 5;99(3):1212-7. Epub 2002 Jan 29.
15. Milstien S, etal., J Biol Chem 1996 Aug 16;271(33):19743-51.
16. Mitchell BM, etal., Am J Physiol Heart Circ Physiol. 2003 Nov;285(5):H2165-70. Epub 2003 Jul 10.
17. NCBI rat LocusLink and RefSeq merged data July 26, 2002
18. OMIM Disease Annotation Pipeline
19. Pipeline to import KEGG annotations from KEGG into RGD
20. Pipeline to import SMPDB annotations from SMPDB into RGD
21. RGD automated data pipeline
22. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. RGD automated import pipeline for gene-chemical interactions
24. RGD comprehensive gene curation
25. Serova LI, etal., Brain Res. 2004 Jul 23;1015(1-2):1-8.
26. Steinmetz MO, etal., J Mol Biol. 1998 May 29;279(1):189-99.
27. Suzuki T, etal., Biochem Biophys Res Commun 2002 May 10;293(3):962-8.
28. Tegeder I, etal., Nat Med. 2006 Nov;12(11):1269-77. Epub 2006 Oct 22.
29. Werner-Felmayer G, etal., FEBS Lett. 1993 May 17;322(3):223-6.
30. Yoneyama T and Hatakeyama K, J Biol Chem. 1998 Aug 7;273(32):20102-8.
Additional References at PubMed
PMID:2463916   PMID:3318829   PMID:3753653   PMID:7524491   PMID:7678411   PMID:7730309   PMID:8068008   PMID:9092499   PMID:9445252   PMID:10907721   PMID:11087823   PMID:11087827  
PMID:11284739   PMID:12176133   PMID:12607127   PMID:12716655   PMID:14717702   PMID:15604419   PMID:15684695   PMID:15721862   PMID:15824199   PMID:16000090   PMID:16338639   PMID:16696853  
PMID:16778797   PMID:17101830   PMID:17717598   PMID:18004997   PMID:19294699   PMID:19666465   PMID:19762783   PMID:21163945   PMID:23515624   PMID:25557619   PMID:25783971   PMID:28399119  
PMID:31210282  


Genomics

Comparative Map Data
Gch1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21520,404,267 - 20,437,727 (-)NCBI
Rnor_6.0 Ensembl1523,934,585 - 23,969,011 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01523,935,011 - 23,968,971 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01527,876,253 - 27,910,213 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41523,023,996 - 23,139,794 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11523,039,695 - 23,155,494 (-)NCBI
Celera1520,799,206 - 20,832,598 (-)NCBICelera
Cytogenetic Map15p14NCBI
GCH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1454,842,008 - 54,902,826 (-)EnsemblGRCh38hg38GRCh38
GRCh381454,842,016 - 54,902,826 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371455,308,735 - 55,369,544 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361454,378,473 - 54,439,292 (-)NCBINCBI36hg18NCBI36
Build 341454,378,484 - 54,439,279NCBI
Celera1435,358,210 - 35,419,030 (-)NCBI
Cytogenetic Map14q22.2NCBI
HuRef1435,471,338 - 35,532,109 (-)NCBIHuRef
CHM1_11455,247,346 - 55,308,167 (-)NCBICHM1_1
Gch1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391447,391,352 - 47,426,870 (-)NCBIGRCm39mm39
GRCm39 Ensembl1447,391,352 - 47,426,870 (-)Ensembl
GRCm381447,153,895 - 47,189,413 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1447,153,895 - 47,189,413 (-)EnsemblGRCm38mm10GRCm38
MGSCv371447,773,570 - 47,809,077 (-)NCBIGRCm37mm9NCBIm37
MGSCv361446,075,772 - 46,111,279 (-)NCBImm8
Celera1443,334,771 - 43,370,387 (-)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1424.6NCBI
Gch1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554098,624,468 - 8,668,614 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554098,624,225 - 8,670,436 (+)NCBIChiLan1.0ChiLan1.0
GCH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11453,706,723 - 53,767,393 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1453,706,723 - 53,767,393 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01435,428,676 - 35,489,359 (-)NCBIMhudiblu_PPA_v0panPan3
GCH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1830,733,422 - 30,784,067 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl830,732,608 - 30,784,156 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha830,501,844 - 30,552,428 (-)NCBI
ROS_Cfam_1.0830,989,520 - 31,040,202 (-)NCBI
UMICH_Zoey_3.1830,593,993 - 30,644,489 (-)NCBI
UNSW_CanFamBas_1.0830,669,980 - 30,720,620 (-)NCBI
UU_Cfam_GSD_1.0831,035,484 - 31,086,113 (-)NCBI
Gch1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864074,457,811 - 74,501,265 (+)NCBI
SpeTri2.0NW_004936697232,048 - 275,420 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GCH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1184,202,007 - 184,257,315 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11184,201,232 - 184,264,060 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21204,648,349 - 204,712,905 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GCH1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12432,029,997 - 32,079,656 (-)NCBI
ChlSab1.1 Ensembl2432,027,648 - 32,079,490 (-)Ensembl
Gch1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473114,459,164 - 14,502,485 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15232787726288802Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15232787726288802Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151071919155719191Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151549236072568189Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151582824233657761Rat
9590272Scort14Serum corticosterone level QTL 142.780.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)151698090761980907Rat
8694427Bw163Body weight QTL 1634.820.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)151698090761980907Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151724964162249641Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151809320881255430Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152102134241082727Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152102134252831189Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152377896946825072Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:131
Count of miRNA genes:109
Interacting mature miRNAs:114
Transcripts:ENSRNOT00000014821
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 2 43 35 11 35 2 3 8
Low 1 43 14 6 8 6 7 8 72 35 31 3 7
Below cutoff 1 3 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014821   ⟹   ENSRNOP00000014821
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1523,934,585 - 23,969,011 (-)Ensembl
RefSeq Acc Id: NM_024356   ⟹   NP_077332
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21520,404,267 - 20,437,677 (-)NCBI
Rnor_6.01523,935,011 - 23,968,971 (-)NCBI
Rnor_5.01527,876,253 - 27,910,213 (-)NCBI
RGSC_v3.41523,023,996 - 23,139,794 (-)RGD
Celera1520,799,206 - 20,832,598 (-)RGD
Sequence:
RefSeq Acc Id: XM_039093210   ⟹   XP_038949138
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21520,407,425 - 20,437,727 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_077332   ⟸   NM_024356
- Peptide Label: precursor
- UniProtKB: P22288 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000014821   ⟸   ENSRNOT00000014821
RefSeq Acc Id: XP_038949138   ⟸   XM_039093210
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13699609
Promoter ID:EPDNEW_R10133
Type:multiple initiation site
Name:Gch1_1
Description:GTP cyclohydrolase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01523,968,989 - 23,969,049EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61992 AgrOrtholog
Ensembl Genes ENSRNOG00000011039 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000014821 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000014821 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.286.10 UniProtKB/Swiss-Prot
  3.30.1130.10 UniProtKB/Swiss-Prot
InterPro GTP-CH-I_C/QueF UniProtKB/Swiss-Prot
  GTP-CH-I_N UniProtKB/Swiss-Prot
  GTP_CycHdrlase_I UniProtKB/Swiss-Prot
  GTP_CycHdrlase_I_CS UniProtKB/Swiss-Prot
  GTP_CycHdrlase_I_dom UniProtKB/Swiss-Prot
KEGG Report rno:29244 UniProtKB/Swiss-Prot
NCBI Gene 29244 ENTREZGENE
PANTHER PTHR11109 UniProtKB/Swiss-Prot
Pfam GTP_cyclohydroI UniProtKB/Swiss-Prot
PharmGKB GCH1 RGD
PhenoGen Gch1 PhenoGen
PROSITE GTP_CYCLOHYDROL_1_1 UniProtKB/Swiss-Prot
  GTP_CYCLOHYDROL_1_2 UniProtKB/Swiss-Prot
TIGRFAMs folE UniProtKB/Swiss-Prot
UniProt GCH1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-18 Gch1  GTP cyclohydrolase 1  Gch  GTP cyclohydrolase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Gch  GTP cyclohydrolase 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function the first and rate-limiting enzyme in the synthesis of tetrahydrobiopterin (BH(4)), an essential cofactor for tyrosine hydroxylase and nitric oxide synthase 625450
gene_function the first and rate-limiting enzyme in the synthesis of tetrahydrobiopterin (BH(4)), an essential cofactor for tyrosine hydroxylase and nitric oxide synthase 632772
gene_regulation expression and activity are upregulated by V-1 (Gcdp), a cdc10/SWI6 motif-containing protein 625450
gene_regulation induced by intrastriatal kainic acid lesion 632772