GCDH (glutaryl-CoA dehydrogenase) - Rat Genome Database

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Gene: GCDH (glutaryl-CoA dehydrogenase) Canis lupus familiaris
Analyze
Symbol: GCDH
Name: glutaryl-CoA dehydrogenase
RGD ID: 12163964
Description: ENCODES a protein that exhibits fatty-acyl-CoA binding (ortholog); flavin adenine dinucleotide binding (ortholog); glutaryl-CoA dehydrogenase activity (ortholog); INVOLVED IN acyl-CoA metabolic process (ortholog); fatty acid oxidation (ortholog); fatty-acyl-CoA biosynthetic process (ortholog); PARTICIPATES IN 2-aminoadipic 2-oxoadipic aciduria pathway; carnitine palmitoyltransferase I deficiency pathway; ethylmalonic encephalopathy pathway; ASSOCIATED WITH Aicardi-Goutieres Syndrome 4 (ortholog); episodic ataxia type 2 (ortholog); glutaric acidemia I (ortholog); FOUND IN mitochondrion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: glutaryl-CoA dehydrogenase, mitochondrial; glutaryl-Coenzyme A dehydrogenase
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,284,341 - 49,290,456 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,284,425 - 49,290,849 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,156,598 - 49,162,728 (-)NCBI
ROS_Cfam_1.02049,801,277 - 49,807,408 (-)NCBI
ROS_Cfam_1.0 Ensembl2049,800,586 - 49,807,454 (-)Ensembl
UMICH_Zoey_3.12049,012,394 - 49,018,522 (-)NCBI
UNSW_CanFamBas_1.02049,438,870 - 49,444,995 (-)NCBI
UU_Cfam_GSD_1.02049,681,416 - 49,687,548 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (IEA,ISO)

References

Genomics

Comparative Map Data
GCDH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,284,341 - 49,290,456 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,284,425 - 49,290,849 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,156,598 - 49,162,728 (-)NCBI
ROS_Cfam_1.02049,801,277 - 49,807,408 (-)NCBI
ROS_Cfam_1.0 Ensembl2049,800,586 - 49,807,454 (-)Ensembl
UMICH_Zoey_3.12049,012,394 - 49,018,522 (-)NCBI
UNSW_CanFamBas_1.02049,438,870 - 49,444,995 (-)NCBI
UU_Cfam_GSD_1.02049,681,416 - 49,687,548 (-)NCBI
GCDH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381912,891,129 - 12,899,999 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1912,891,160 - 12,914,207 (+)EnsemblGRCh38hg38GRCh38
GRCh371913,001,943 - 13,010,813 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,862,974 - 12,871,783 (+)NCBINCBI36hg18NCBI36
Build 341912,862,973 - 12,871,782NCBI
Celera1912,891,682 - 12,900,491 (+)NCBI
Cytogenetic Map19p13.13NCBI
HuRef1912,573,809 - 12,582,680 (+)NCBIHuRef
CHM1_11913,002,442 - 13,011,310 (+)NCBICHM1_1
T2T-CHM13v2.01913,015,581 - 13,024,452 (+)NCBI
Gcdh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,613,016 - 85,629,378 (-)NCBIGRCm39mm39
GRCm39 Ensembl885,613,022 - 85,620,550 (-)Ensembl
GRCm38884,886,387 - 84,893,921 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,886,393 - 84,893,921 (-)EnsemblGRCm38mm10GRCm38
MGSCv37887,410,286 - 87,417,820 (-)NCBIGRCm37mm9NCBIm37
MGSCv36887,776,696 - 87,783,807 (-)NCBImm8
Celera889,185,944 - 89,193,269 (-)NCBICelera
Cytogenetic Map8C3NCBI
cM Map841.28NCBI
Gcdh
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21923,263,215 - 23,269,689 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1923,263,264 - 23,269,681 (+)Ensembl
Rnor_6.01926,000,497 - 26,006,970 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1926,000,497 - 26,006,970 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01936,976,120 - 36,982,606 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41924,919,470 - 24,925,943 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11924,924,493 - 24,930,910 (+)NCBI
Celera1922,820,112 - 22,826,585 (+)NCBICelera
Cytogenetic Map19q11NCBI
Gcdh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541531,952,580 - 31,961,615 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541531,952,400 - 31,958,067 (+)NCBIChiLan1.0ChiLan1.0
GCDH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11913,195,241 - 13,204,253 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1913,195,241 - 13,204,223 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01912,452,779 - 12,461,757 (+)NCBIMhudiblu_PPA_v0panPan3
Gcdh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,392,780 - 208,399,126 (-)NCBI
SpeTri2.0NW_0049366591,955,601 - 1,961,925 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GCDH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl266,130,625 - 66,138,868 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1266,131,154 - 66,138,963 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2266,461,407 - 66,466,086 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GCDH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1611,572,512 - 11,588,108 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl611,572,540 - 11,588,224 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660748,202,199 - 8,216,104 (-)NCBIVero_WHO_p1.0
Gcdh
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624901475,073 - 479,292 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_004624901474,836 - 479,674 (+)NCBIHetGla_female_1.0hetGla2


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 reproductive system respiratory system adipose tissue
High
Medium 2 5 16 6 1 6 4 5 5
Low 3 6 5 6 2 12 8 5 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000027096   ⟹   ENSCAFP00000025196
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2049,284,425 - 49,290,361 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000060678   ⟹   ENSCAFP00000047621
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2049,284,583 - 49,290,849 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000060837   ⟹   ENSCAFP00000062763
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2049,284,425 - 49,290,849 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000091463   ⟹   ENSCAFP00000047412
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2049,284,425 - 49,290,419 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027589   ⟹   ENSCAFP00845021708
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2049,800,586 - 49,807,454 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027623   ⟹   ENSCAFP00845021737
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2049,800,586 - 49,807,454 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027653   ⟹   ENSCAFP00845021764
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2049,801,292 - 49,807,454 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027683   ⟹   ENSCAFP00845021785
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2049,801,292 - 49,807,454 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845027708   ⟹   ENSCAFP00845021806
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2049,801,292 - 49,807,304 (-)Ensembl
RefSeq Acc Id: XM_038428452   ⟹   XP_038284380
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02049,801,277 - 49,807,408 (-)NCBI
RefSeq Acc Id: XM_038504096   ⟹   XP_038360024
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12049,012,394 - 49,018,522 (-)NCBI
RefSeq Acc Id: XM_038567125   ⟹   XP_038423053
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02049,681,416 - 49,687,548 (-)NCBI
RefSeq Acc Id: XM_038631268   ⟹   XP_038487196
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02049,438,870 - 49,444,995 (-)NCBI
RefSeq Acc Id: XM_533901   ⟹   XP_533901
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12049,284,341 - 49,290,456 (-)NCBI
Dog10K_Boxer_Tasha2049,156,598 - 49,162,728 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_038284380 (Get FASTA)   NCBI Sequence Viewer  
  XP_038360024 (Get FASTA)   NCBI Sequence Viewer  
  XP_038423053 (Get FASTA)   NCBI Sequence Viewer  
  XP_038487196 (Get FASTA)   NCBI Sequence Viewer  
  XP_533901 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_533901   ⟸   XM_533901
- UniProtKB: F6UXJ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000062763   ⟸   ENSCAFT00000060837
RefSeq Acc Id: ENSCAFP00000047621   ⟸   ENSCAFT00000060678
RefSeq Acc Id: ENSCAFP00000047412   ⟸   ENSCAFT00000091463
RefSeq Acc Id: ENSCAFP00000025196   ⟸   ENSCAFT00000027096
RefSeq Acc Id: XP_038360024   ⟸   XM_038504096
RefSeq Acc Id: XP_038487196   ⟸   XM_038631268
RefSeq Acc Id: XP_038284380   ⟸   XM_038428452
RefSeq Acc Id: XP_038423053   ⟸   XM_038567125
RefSeq Acc Id: ENSCAFP00845021708   ⟸   ENSCAFT00845027589
RefSeq Acc Id: ENSCAFP00845021785   ⟸   ENSCAFT00845027683
RefSeq Acc Id: ENSCAFP00845021764   ⟸   ENSCAFT00845027653
RefSeq Acc Id: ENSCAFP00845021806   ⟸   ENSCAFT00845027708
RefSeq Acc Id: ENSCAFP00845021737   ⟸   ENSCAFT00845027623
Protein Domains
Acyl-CoA_dh_1   Acyl-CoA_dh_M   Acyl-CoA_dh_N

Promoters
RGD ID:13687004
Promoter ID:EPDNEW_C5072
Type:multiple initiation site
Name:GCDH_1
Description:glutaryl-CoA dehydrogenase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12049,290,345 - 49,290,405EPDNEW
Damaging Variants


Assembly: CanFam3.1

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 49288134 49288135 T C snv Border Collie (BC273), Border Collie (BC597), Bearded Collie (BD016), Rhodesian Ridgeback (RR123), Bearded Collie (BD036), Bearded Collie (BD052), Bearded Collie (BD089), Bearded Collie (BD093), Malinois (MA094)
20 49289631 49289632 C T snv Whippet (WH083)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000017106 Ensembl
  ENSCAFG00030018879 UniProtKB/TrEMBL
  ENSCAFG00040023723 UniProtKB/TrEMBL
  ENSCAFG00845015478 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00030030283.1 UniProtKB/TrEMBL
  ENSCAFP00030030333.1 UniProtKB/TrEMBL
  ENSCAFP00040038540 UniProtKB/TrEMBL
  ENSCAFP00040038581 UniProtKB/TrEMBL
  ENSCAFP00040038599 UniProtKB/TrEMBL
  ENSCAFP00845021708 ENTREZGENE
  ENSCAFP00845021708.1 UniProtKB/TrEMBL
  ENSCAFP00845021737.1 UniProtKB/TrEMBL
  ENSCAFP00845021764.1 UniProtKB/TrEMBL
  ENSCAFP00845021785.1 UniProtKB/TrEMBL
  ENSCAFP00845021806.1 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00030034726.1 UniProtKB/TrEMBL
  ENSCAFT00030034788.1 UniProtKB/TrEMBL
  ENSCAFT00040044149 UniProtKB/TrEMBL
  ENSCAFT00040044198 UniProtKB/TrEMBL
  ENSCAFT00040044216 UniProtKB/TrEMBL
  ENSCAFT00845027589 ENTREZGENE
  ENSCAFT00845027589.1 UniProtKB/TrEMBL
  ENSCAFT00845027623.1 UniProtKB/TrEMBL
  ENSCAFT00845027653.1 UniProtKB/TrEMBL
  ENSCAFT00845027683.1 UniProtKB/TrEMBL
  ENSCAFT00845027708.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.540.10 UniProtKB/TrEMBL
  2.40.110.10 UniProtKB/TrEMBL
InterPro Acyl-CoA_DH_CS UniProtKB/TrEMBL
  Acyl-CoA_Oxase/DH_cen-dom UniProtKB/TrEMBL
  Acyl-CoA_Oxase/DH_mid-dom_sf UniProtKB/TrEMBL
  AcylCo_DH-like_C UniProtKB/TrEMBL
  AcylCo_DH/oxidase_C UniProtKB/TrEMBL
  AcylCoA_DH/ox_N UniProtKB/TrEMBL
  AcylCoA_DH/ox_N_sf UniProtKB/TrEMBL
  AcylCoA_DH/oxidase_NM_dom UniProtKB/TrEMBL
NCBI Gene GCDH ENTREZGENE
Pfam Acyl-CoA_dh_1 UniProtKB/TrEMBL
  Acyl-CoA_dh_M UniProtKB/TrEMBL
  Acyl-CoA_dh_N UniProtKB/TrEMBL
PROSITE ACYL_COA_DH_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF47203 UniProtKB/TrEMBL
  SSF56645 UniProtKB/TrEMBL
UniProt A0A8C0NSE9_CANLF UniProtKB/TrEMBL
  A0A8C0RNJ3_CANLF UniProtKB/TrEMBL
  A0A8C0TKF8_CANLF UniProtKB/TrEMBL
  A0A8C0TPW3_CANLF UniProtKB/TrEMBL
  A0A8I3NLI5_CANLF UniProtKB/TrEMBL
  A0A8I3NMP6_CANLF UniProtKB/TrEMBL
  A0A8I3NMX0_CANLF UniProtKB/TrEMBL
  A0A8I3NWX7_CANLF UniProtKB/TrEMBL
  A0A8I3S1I3_CANLF UniProtKB/TrEMBL
  F6UXJ6 ENTREZGENE
VGNC ID VGNC:41141 ENTREZGENE