Pdha1l1 (pyruvate dehydrogenase (lipoamide) alpha 1-like 1) - Rat Genome Database

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Gene: Pdha1l1 (pyruvate dehydrogenase (lipoamide) alpha 1-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Pdha1l1
Name: pyruvate dehydrogenase (lipoamide) alpha 1-like 1
RGD ID: 1590190
Description: Predicted to be involved in glucose metabolic process. Predicted to be located in intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in pyruvate decarboxylase deficiency. Orthologous to human PDHA1 (pyruvate dehydrogenase E1 subunit alpha 1); INTERACTS WITH cadmium dichloride; gentamycin; ozone.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: LOC685778; pyruvate dehydrogenase E1 alpha 1 pseudogene
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Related Functional Gene: Pdha1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81689,213,172 - 89,216,067 (-)NCBIGRCr8
mRatBN7.21682,511,483 - 82,514,378 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1682,511,511 - 82,514,372 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1687,775,782 - 87,778,677 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01691,228,420 - 91,231,315 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01686,488,346 - 86,491,241 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01688,344,440 - 88,347,335 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1688,345,247 - 88,347,369 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01687,742,631 - 87,744,095 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41687,959,188 - 87,961,062 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1680,231,153 - 80,234,048 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Pdha1l1
20 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:36
Count of miRNA genes:32
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000019797
Prediction methods:Microtar, Miranda, Rnahybrid
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
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
RH141520  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21682,512,559 - 82,512,740 (-)MAPPERmRatBN7.2
mRatBN7.21682,512,559 - 82,512,740 (+)MAPPERmRatBN7.2
mRatBN7.2X34,713,049 - 34,713,230 (-)MAPPERmRatBN7.2
mRatBN7.2X34,713,049 - 34,713,230 (+)MAPPERmRatBN7.2
Rnor_6.0X37,342,151 - 37,342,331NCBIRnor6.0
Rnor_6.01688,345,517 - 88,345,697NCBIRnor6.0
Rnor_5.0X37,653,097 - 37,653,277UniSTSRnor5.0
Rnor_5.01687,742,248 - 87,742,428UniSTSRnor5.0
RGSC_v3.4X55,912,060 - 55,912,240UniSTSRGSC3.4
RGSC_v3.41687,959,282 - 87,959,462UniSTSRGSC3.4
Celera1680,232,230 - 80,232,410UniSTS
CeleraX35,385,625 - 35,385,805UniSTS
RH 3.4 MapX503.51UniSTS
Cytogenetic Map16q12.5UniSTS
Cytogenetic MapXq21UniSTS
Pdha1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21682,513,915 - 82,514,188 (+)MAPPERmRatBN7.2
Rnor_6.01688,346,873 - 88,347,145NCBIRnor6.0
Rnor_5.01687,743,604 - 87,743,876UniSTSRnor5.0
Celera1680,233,586 - 80,233,858UniSTS
Cytogenetic Map16q12.5UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000019797   ⟹   ENSRNOP00000019797
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1682,511,511 - 82,514,372 (-)Ensembl
Rnor_6.0 Ensembl1688,345,247 - 88,347,369 (-)Ensembl
RefSeq Acc Id: XM_001060860   ⟹   XP_001060860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
RGSC_v3.41687,959,188 - 87,961,062 (-)RGD
RefSeq Acc Id: XM_001060918
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
RGSC_v3.41687,959,188 - 87,961,062 (-)RGD
RefSeq Acc Id: XM_003752928   ⟹   XP_003752976
Type: CODING
Position: No map positions available.
RefSeq Acc Id: XM_006222298   ⟹   XP_006222360
Type: CODING
Position: No map positions available.
RefSeq Acc Id: XM_006253484   ⟹   XP_006253546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_5.01687,742,631 - 87,744,095 (-)NCBI
RefSeq Acc Id: XR_596571
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01688,345,900 - 88,347,364 (-)NCBI
RefSeq Acc Id: XR_597732
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1680,232,613 - 80,234,077 (-)NCBI
Protein Sequences
Ensembl Protein ENSRNOP00000019797.6
RefSeq Acc Id: XP_001060860   ⟸   XM_001060860
- Peptide Label: isoform 1
- Sequence:
RefSeq Acc Id: XP_003752976   ⟸   XM_003752928
- Sequence:
RefSeq Acc Id: XP_006222360   ⟸   XM_006222298
- Sequence:
RefSeq Acc Id: XP_006253546   ⟸   XM_006253484
- Sequence:
Ensembl Acc Id: ENSRNOP00000019797   ⟸   ENSRNOT00000019797
Protein Domains
Dehydrogenase E1 component

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5G8-F1-model_v2 AlphaFold D4A5G8 1-390 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:1590190 AgrOrtholog
BioCyc Gene G2FUF-10583 BioCyc
Ensembl Genes ENSRNOG00000014745 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019797.6 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.970 UniProtKB/TrEMBL
InterPro DH_E1 UniProtKB/TrEMBL
  PDH_E1_Alpha_Subunit UniProtKB/TrEMBL
  Pyrv_DH_E1_asu_subgrp-y UniProtKB/TrEMBL
  THDP-binding UniProtKB/TrEMBL
NCBI Gene 685778 ENTREZGENE
PANTHER PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT ALPHA, SOMATIC FORM, MITOCHONDRIAL UniProtKB/TrEMBL
  PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT BACTERIAL AND ORGANELLAR UniProtKB/TrEMBL
Pfam E1_dh UniProtKB/TrEMBL
PhenoGen Pdha1l1 PhenoGen
RatGTEx ENSRNOG00000014745 RatGTEx
Superfamily-SCOP SSF52518 UniProtKB/TrEMBL
UniProt D4A5G8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-05 Pdha1l1  pyruvate dehydrogenase (lipoamide) alpha 1-like 1  LOC685778  pyruvate dehydrogenase E1 alpha 1 pseudogene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC685778  pyruvate dehydrogenase E1 alpha 1 pseudogene      Symbol and Name status set to provisional 70820 PROVISIONAL