PDHB (pyruvate dehydrogenase E1 subunit beta) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: PDHB (pyruvate dehydrogenase E1 subunit beta) Chlorocebus sabaeus
Analyze
Symbol: PDHB
Name: pyruvate dehydrogenase E1 subunit beta
RGD ID: 18684749
Description: ENCODES a protein that exhibits pyruvate dehydrogenase (acetyl-transferring) activity (ortholog); pyruvate dehydrogenase (NAD+) activity (ortholog); INVOLVED IN acetyl-CoA biosynthetic process from pyruvate (ortholog); PARTICIPATES IN citric acid cycle pathway; fumaric aciduria pathway; Leigh disease pathway; ASSOCIATED WITH epilepsy (ortholog); genetic disease (ortholog); pyruvate decarboxylase deficiency (ortholog); FOUND IN pyruvate dehydrogenase complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pyruvate dehydrogenase (lipoamide) beta; pyruvate dehydrogenase E1 beta subunit; pyruvate dehydrogenase E1 component subunit beta, mitochondrial
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12219,718,610 - 19,725,037 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2219,718,353 - 19,725,036 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041147,098,867 - 147,105,329 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PDHB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12219,718,610 - 19,725,037 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2219,718,353 - 19,725,036 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041147,098,867 - 147,105,329 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
PDHB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38358,427,630 - 58,433,832 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl358,427,630 - 58,433,857 (-)EnsemblGRCh38hg38GRCh38
GRCh37358,413,357 - 58,419,559 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36358,388,394 - 58,394,605 (-)NCBINCBI36Build 36hg18NCBI36
Build 34358,388,397 - 58,394,594NCBI
Celera358,427,174 - 58,433,398 (-)NCBICelera
Cytogenetic Map3p14.3NCBI
HuRef358,509,470 - 58,515,692 (-)NCBIHuRef
CHM1_1358,363,623 - 58,369,848 (-)NCBICHM1_1
T2T-CHM13v2.0358,468,008 - 58,474,213 (-)NCBIT2T-CHM13v2.0
Pdhb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391414,296,470 - 14,303,782 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1414,296,748 - 14,303,777 (+)EnsemblGRCm39 Ensembl
GRCm38148,165,991 - 8,173,303 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl148,165,996 - 8,173,025 (-)EnsemblGRCm38mm10GRCm38
MGSCv37148,998,505 - 9,005,506 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36146,956,612 - 6,964,490 (-)NCBIMGSCv36mm8
Celera143,789,851 - 3,797,024 (-)NCBICelera
Cytogenetic Map14A1NCBI
cM Map144.74NCBI
Pdhb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81519,182,789 - 19,188,731 (+)NCBIGRCr8
mRatBN7.21516,752,561 - 16,758,503 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1516,750,980 - 16,758,500 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1518,927,415 - 18,933,373 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01519,885,878 - 19,891,836 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01518,140,784 - 18,146,742 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01518,540,826 - 18,546,855 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1518,539,210 - 18,546,854 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01522,507,861 - 22,513,890 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41518,737,449 - 18,743,391 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11518,737,448 - 18,743,390 (+)NCBI
Celera1516,710,789 - 16,716,731 (+)NCBICelera
Cytogenetic Map15p14NCBI
Pdhb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554301,707,615 - 1,713,541 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554301,707,615 - 1,713,541 (+)NCBIChiLan1.0ChiLan1.0
PDHB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2258,398,731 - 58,405,135 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1358,403,507 - 58,409,861 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0358,359,753 - 58,366,094 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1359,776,216 - 59,782,461 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl359,776,618 - 59,782,411 (-)Ensemblpanpan1.1panPan2
PDHB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12032,185,420 - 32,191,592 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2032,110,558 - 32,116,683 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02032,453,097 - 32,459,222 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2032,453,107 - 32,459,214 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12031,909,791 - 31,915,922 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02032,266,176 - 32,272,302 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02032,438,275 - 32,444,406 (+)NCBIUU_Cfam_GSD_1.0
Pdhb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118169,442,034 - 169,447,686 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364732,580,618 - 2,586,266 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364732,580,642 - 2,586,266 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDHB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1340,160,568 - 40,167,476 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11340,161,519 - 40,167,502 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21344,121,821 - 44,127,805 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pdhb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248225,482,173 - 5,488,287 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248225,482,177 - 5,488,218 (-)NCBIHetGla_female_1.0HetGla 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

endocrine system hemolymphoid system nervous system
High
Medium 36 15 60
Low 5
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007984787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000010247   ⟹   ENSCSAP00000008343
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2219,718,353 - 19,725,036 (-)Ensembl
RefSeq Acc Id: XM_007984787   ⟹   XP_007982978
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12219,718,610 - 19,725,037 (-)NCBI
Vero_WHO_p1.0NW_023666041147,098,867 - 147,105,329 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007982978 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000008343
  ENSCSAP00000008343.1
Reference Protein Sequences
RefSeq Acc Id: XP_007982978   ⟸   XM_007984787
- UniProtKB: A0A0D9RIA4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000008343   ⟸   ENSCSAT00000010247


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012153 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000010247.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.920 UniProtKB/TrEMBL
  3.40.50.970 UniProtKB/TrEMBL
InterPro PDHB UniProtKB/TrEMBL
  THDP-binding UniProtKB/TrEMBL
  Transketo_C/PFOR_II UniProtKB/TrEMBL
  Transketolase-like_Pyr-bd UniProtKB/TrEMBL
  Transketolase_C UniProtKB/TrEMBL
KEGG Report csab:103227812 UniProtKB/TrEMBL
NCBI Gene PDHB ENTREZGENE
PANTHER PTHR11624 UniProtKB/TrEMBL
  PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT BETA, MITOCHONDRIAL UniProtKB/TrEMBL
Pfam Transket_pyr UniProtKB/TrEMBL
  Transketolase_C UniProtKB/TrEMBL
SMART Transket_pyr UniProtKB/TrEMBL
Superfamily-SCOP SSF52518 UniProtKB/TrEMBL
  SSF52922 UniProtKB/TrEMBL
UniProt A0A0D9RIA4 ENTREZGENE, UniProtKB/TrEMBL