Ndufa13 (NADH:ubiquinone oxidoreductase subunit A13) - Rat Genome Database

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Gene: Ndufa13 (NADH:ubiquinone oxidoreductase subunit A13) Rattus norvegicus
Analyze
Symbol: Ndufa13
Name: NADH:ubiquinone oxidoreductase subunit A13
RGD ID: 6492821
Description: Predicted to be involved in several processes, including cellular response to interferon-beta; cellular response to retinoic acid; and mitochondrion organization. Predicted to act upstream of or within extrinsic apoptotic signaling pathway. Predicted to be located in mitochondrial respirasome and nucleoplasm. Predicted to be part of mitochondrial respiratory chain complex I. Human ortholog(s) of this gene implicated in nuclear type mitochondrial complex I deficiency 28 and thyroid gland Hurthle cell carcinoma. Orthologous to human NDUFA13 (NADH:ubiquinone oxidoreductase subunit A13); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100911483; NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 13 pseudogene; NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13; NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13; NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-like; Ndufa13-ps
RGD Orthologs
Human
Mouse
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Ndufa13-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21619,526,633 - 19,533,567 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1619,526,565 - 19,535,726 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1619,567,341 - 19,574,508 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01620,705,555 - 20,712,487 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01619,620,324 - 19,627,489 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01621,275,311 - 21,282,246 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1621,275,311 - 21,282,246 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01621,191,395 - 21,198,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1619,715,741 - 19,722,676 (+)NCBICelera
Cytogenetic Map16p14NCBI
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

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. Mitochondrial DNA Depletion in Respiratory Chain-Deficient Parkinson Disease Neurons. Grünewald A, etal., Ann Neurol. 2016 Mar;79(3):366-78. doi: 10.1002/ana.24571. Epub 2016 Jan 28.
3. The IFN-beta and retinoic acid-induced cell death regulator GRIM-19 is upregulated during focal cerebral ischemia. Mehrabian Z, etal., J Interferon Cytokine Res. 2007 May;27(5):383-92. doi: 10.1089/jir.2006.0067.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10924506   PMID:12611891   PMID:12865426   PMID:12867595   PMID:14651853   PMID:16826196   PMID:17209039   PMID:17297443   PMID:17616678   PMID:18614015   PMID:23271731   PMID:23376485  
PMID:25901006   PMID:27626371   PMID:28844695  


Genomics

Comparative Map Data
Ndufa13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21619,526,633 - 19,533,567 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1619,526,565 - 19,535,726 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1619,567,341 - 19,574,508 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01620,705,555 - 20,712,487 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01619,620,324 - 19,627,489 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01621,275,311 - 21,282,246 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1621,275,311 - 21,282,246 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01621,191,395 - 21,198,330 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1619,715,741 - 19,722,676 (+)NCBICelera
Cytogenetic Map16p14NCBI
NDUFA13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381919,516,225 - 19,528,198 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1919,515,736 - 19,529,054 (+)EnsemblGRCh38hg38GRCh38
GRCh371919,627,034 - 19,639,007 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361919,487,540 - 19,500,073 (+)NCBINCBI36Build 36hg18NCBI36
Celera1919,531,078 - 19,543,075 (+)NCBICelera
Cytogenetic Map19p13.11NCBI
HuRef1919,189,312 - 19,201,238 (+)NCBIHuRef
CHM1_11919,627,715 - 19,639,925 (+)NCBICHM1_1
T2T-CHM13v2.01919,653,712 - 19,665,685 (+)NCBIT2T-CHM13v2.0
Ndufa13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,346,813 - 70,355,208 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl870,346,830 - 70,355,208 (-)EnsemblGRCm39 Ensembl
GRCm38869,894,163 - 69,902,558 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl869,894,180 - 69,902,558 (-)EnsemblGRCm38mm10GRCm38
MGSCv37872,418,079 - 72,426,457 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36872,823,169 - 72,831,547 (-)NCBIMGSCv36mm8
Celera872,452,883 - 72,462,363 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.03NCBI
Ndufa13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555242,426,604 - 2,433,679 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555242,426,604 - 2,433,682 (-)NCBIChiLan1.0ChiLan1.0
NDUFA13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12043,721,568 - 43,730,607 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2043,721,640 - 43,730,295 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2043,639,120 - 43,648,160 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02044,209,536 - 44,218,574 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2044,209,540 - 44,218,261 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12043,447,128 - 43,456,166 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02043,856,534 - 43,865,573 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02044,132,173 - 44,141,212 (-)NCBIUU_Cfam_GSD_1.0
Ndufa13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118202,396,921 - 202,404,623 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365961,946,111 - 1,953,698 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365961,946,058 - 1,953,734 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NDUFA13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,401,551 - 58,411,981 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,401,542 - 58,410,414 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2258,287,586 - 58,296,458 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NDUFA13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1617,976,099 - 17,990,154 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660741,312,227 - 1,326,219 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ndufa13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249082,312,452 - 2,319,604 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249082,311,801 - 2,319,604 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ndufa13
8 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
631517Scl9Serum cholesterol level QTL 93.3blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)161572643321034895Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat

Markers in Region
RH138721  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,527,608 - 19,527,728 (+)MAPPERmRatBN7.2
Rnor_6.01621,276,287 - 21,276,406NCBIRnor6.0
Rnor_5.01621,192,371 - 21,192,490UniSTSRnor5.0
RGSC_v3.41620,012,399 - 20,012,518UniSTSRGSC3.4
Celera1619,716,717 - 19,716,836UniSTS
RH 3.4 Map16238.5UniSTS
Cytogenetic Map16p14UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027980   ⟹   ENSRNOP00000027980
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,526,565 - 19,535,726 (+)Ensembl
Rnor_6.0 Ensembl1621,275,311 - 21,282,246 (+)Ensembl
RefSeq Acc Id: NM_001277222   ⟹   NP_001264151
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,526,633 - 19,533,567 (+)NCBI
Rnor_6.01621,275,311 - 21,282,246 (+)NCBI
Rnor_5.01621,191,395 - 21,198,330 (+)NCBI
Celera1619,715,741 - 19,722,676 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001264151 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL90635 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027980
  ENSRNOP00000027980.6
  ENSRNOP00000034694.6
Reference Protein Sequences
RefSeq Acc Id: NP_001264151   ⟸   NM_001277222
- UniProtKB: A6KAA1 (UniProtKB/TrEMBL),   F1LZC5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000027980   ⟸   ENSRNOT00000027980

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZE15-F1-model_v2 AlphaFold D3ZE15 1-144 view protein structure

Transcriptome

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

Promoters
RGD ID:13700051
Promoter ID:EPDNEW_R10575
Type:multiple initiation site
Name:Ndufa13_1
Description:NADH:ubiquinone oxidoreductase subunit A13
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_6.01621,275,296 - 21,275,356EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:6492821 AgrOrtholog
BioCyc Gene G2FUF-11747 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
Ensembl Genes ENSRNOG00000020602 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000021688 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027980 ENTREZGENE
  ENSRNOT00000027980.8 UniProtKB/TrEMBL
  ENSRNOT00000029783.6 UniProtKB/TrEMBL
InterPro GRIM-19 UniProtKB/TrEMBL
KEGG Report rno:100911483 UniProtKB/TrEMBL
NCBI Gene LOC100911483 ENTREZGENE
PANTHER NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 13 UniProtKB/TrEMBL
  PTHR12966 UniProtKB/TrEMBL
Pfam GRIM-19 UniProtKB/TrEMBL
PhenoGen Ndufa13 PhenoGen
RatGTEx ENSRNOG00000020602 RatGTEx
  ENSRNOG00000021688 RatGTEx
UniProt A6KAA1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZE15_RAT UniProtKB/TrEMBL
  F1LZC5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-10-03 Ndufa13  NADH:ubiquinone oxidoreductase subunit A13  LOC100911483  NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-10-03 LOC100911483  NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-like  Ndufa13-ps  NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 13 pseudogene  Data merged from RGD:1561358 737654 PROVISIONAL
2012-07-05 LOC100911483  NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-05-01 Ndufa13-ps  NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 13 pseudogene  Ndufa13_predicted  NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ndufa13_predicted  NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13 (predicted)  RGD1561358_predicted  similar to novel cell death-regulatory protein GRIM19 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1561358_predicted  similar to novel cell death-regulatory protein GRIM19 (predicted)  LOC290671  similar to novel cell death-regulatory protein GRIM19  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC290671  similar to novel cell death-regulatory protein GRIM19      Symbol and Name status set to provisional 70820 PROVISIONAL