Ndufaf6 (NADH:ubiquinone oxidoreductase complex assembly factor 6) - Rat Genome Database

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Gene: Ndufaf6 (NADH:ubiquinone oxidoreductase complex assembly factor 6) Rattus norvegicus
Analyze
Symbol: Ndufaf6
Name: NADH:ubiquinone oxidoreductase complex assembly factor 6
RGD ID: 1309085
Description: Predicted to be involved in mitochondrial respiratory chain complex I assembly. Predicted to be located in mitochondrial inner membrane and nucleus. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in Fanconi renotubular syndrome 5 and nuclear type mitochondrial complex I deficiency 17. Orthologous to human NDUFAF6 (NADH:ubiquinone oxidoreductase complex assembly factor 6); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC297821; NADH dehydrogenase (ubiquinone) complex I, assembly factor 6; RGD1309085; similar to F23N19.9
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8528,945,014 - 28,969,230 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl528,945,014 - 28,969,667 (-)EnsemblGRCr8
mRatBN7.2524,147,712 - 24,171,981 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl524,147,735 - 24,171,951 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx526,336,338 - 26,360,255 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0527,929,343 - 27,953,260 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0527,730,386 - 27,754,081 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0524,297,169 - 24,320,804 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl524,297,094 - 24,320,786 (-)Ensemblrn6Rnor6.0
Rnor_5.0529,024,402 - 29,048,285 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4524,893,573 - 24,918,247 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera523,367,046 - 23,391,235 (-)NCBICelera
RGSC_v3.1524,893,533 - 24,918,252 (-)NCBI
Cytogenetic Map5q13NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
mitochondrial inner membrane  (IEA,ISO,ISS)
mitochondrion  (IBA,ISO)
nucleus  (ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation 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
Additional References at PubMed
PMID:18614015   PMID:20552642   PMID:22019594   PMID:34800366  


Genomics

Comparative Map Data
Ndufaf6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8528,945,014 - 28,969,230 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl528,945,014 - 28,969,667 (-)EnsemblGRCr8
mRatBN7.2524,147,712 - 24,171,981 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl524,147,735 - 24,171,951 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx526,336,338 - 26,360,255 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0527,929,343 - 27,953,260 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0527,730,386 - 27,754,081 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0524,297,169 - 24,320,804 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl524,297,094 - 24,320,786 (-)Ensemblrn6Rnor6.0
Rnor_5.0529,024,402 - 29,048,285 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4524,893,573 - 24,918,247 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera523,367,046 - 23,391,235 (-)NCBICelera
RGSC_v3.1524,893,533 - 24,918,252 (-)NCBI
Cytogenetic Map5q13NCBI
NDUFAF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38894,895,799 - 95,118,496 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl894,895,533 - 95,116,455 (+)Ensemblhg38GRCh38
GRCh37895,908,027 - 96,130,724 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36896,106,397 - 96,140,114 (+)NCBIBuild 36Build 36hg18NCBI36
Celera892,222,445 - 92,256,164 (+)NCBICelera
Cytogenetic Map8q22.1NCBI
HuRef891,245,157 - 91,278,920 (+)NCBIHuRef
CHM1_1896,077,465 - 96,111,211 (+)NCBICHM1_1
T2T-CHM13v2.0896,020,781 - 96,243,737 (+)NCBIT2T-CHM13v2.0
Ndufaf6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39411,048,991 - 11,076,393 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl411,051,045 - 11,076,205 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38411,048,991 - 11,076,237 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl411,051,045 - 11,076,205 (-)Ensemblmm10GRCm38
MGSCv37410,978,192 - 11,003,351 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36410,978,197 - 11,003,352 (-)NCBIMGSCv36mm8
Celera410,859,795 - 10,883,714 (-)NCBICelera
Cytogenetic Map4A1NCBI
cM Map44.91NCBI
Ndufaf6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541711,150,282 - 11,180,323 (+)Ensembl
ChiLan1.0NW_00495541711,159,449 - 11,180,323 (+)NCBIChiLan1.0ChiLan1.0
NDUFAF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27112,222,926 - 112,385,269 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1887,761,057 - 87,922,253 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0891,514,809 - 91,693,044 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1893,717,602 - 93,936,702 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl893,843,617 - 93,877,475 (+)EnsemblpanPan2panpan1.1
NDUFAF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12939,668,089 - 39,692,479 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2939,668,089 - 39,692,470 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2939,830,526 - 39,854,909 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02939,870,525 - 39,894,885 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2939,870,510 - 39,895,864 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12939,894,249 - 39,918,601 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02939,880,309 - 39,904,788 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02940,322,655 - 40,347,016 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ndufaf6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530339,784,263 - 39,809,617 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365447,982,950 - 8,011,083 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365447,983,093 - 8,008,442 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NDUFAF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl441,621,174 - 41,655,792 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1441,619,480 - 41,655,682 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2444,873,811 - 44,907,566 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NDUFAF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1889,918,063 - 90,026,705 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603950,744,248 - 50,842,484 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ndufaf6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247632,375,621 - 2,398,238 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247632,375,601 - 2,402,846 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ndufaf6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11132,634,192 - 132,657,442 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ndufaf6
224 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:159
Interacting mature miRNAs:191
Transcripts:ENSRNOT00000061569
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)51373115343590997Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)52367149379046465Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5862723052665523Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51460607859606078Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1578774Tcas8Tongue tumor susceptibility QTL 83.47tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)51570745160707451Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5692228237468560Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52602321171023211Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5862723053627230Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)52367149368671493Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 90 59 6 354 190 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000061569   ⟹   ENSRNOP00000058286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl528,945,014 - 28,969,230 (-)Ensembl
mRatBN7.2 Ensembl524,147,735 - 24,171,951 (-)Ensembl
Rnor_6.0 Ensembl524,297,094 - 24,320,786 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000171730   ⟹   ENSRNOP00000105915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl528,945,014 - 28,969,667 (-)Ensembl
RefSeq Acc Id: NM_001276441   ⟹   NP_001263370
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8528,945,014 - 28,969,230 (-)NCBI
mRatBN7.2524,147,735 - 24,171,951 (-)NCBI
Rnor_6.0524,297,169 - 24,320,804 (-)NCBI
Rnor_5.0529,024,402 - 29,048,285 (-)NCBI
Celera523,367,046 - 23,391,235 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109408   ⟹   XP_038965336
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8528,945,018 - 28,969,155 (-)NCBI
mRatBN7.2524,147,712 - 24,171,981 (-)NCBI
RefSeq Acc Id: XM_039109409   ⟹   XP_038965337
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8528,945,018 - 28,969,103 (-)NCBI
mRatBN7.2524,147,712 - 24,171,828 (-)NCBI
RefSeq Acc Id: XM_063287279   ⟹   XP_063143349
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8528,945,018 - 28,966,187 (-)NCBI
RefSeq Acc Id: XM_063287280   ⟹   XP_063143350
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8528,945,018 - 28,966,185 (-)NCBI
RefSeq Acc Id: NP_001263370   ⟸   NM_001276441
- Peptide Label: precursor
- UniProtKB: D3ZN43 (UniProtKB/Swiss-Prot),   A0A0H2UI06 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058286   ⟸   ENSRNOT00000061569
RefSeq Acc Id: XP_038965336   ⟸   XM_039109408
- Peptide Label: isoform X3
- UniProtKB: A6JFS4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038965337   ⟸   XM_039109409
- Peptide Label: isoform X3
- UniProtKB: A6JFS4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063143349   ⟸   XM_063287279
- Peptide Label: isoform X1
- UniProtKB: A6JFS4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063143350   ⟸   XM_063287280
- Peptide Label: isoform X2
- UniProtKB: A6JFS4 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105915   ⟸   ENSRNOT00000171730

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZN43-F1-model_v2 AlphaFold D3ZN43 1-333 view protein structure

Transcriptome

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

Promoters
RGD ID:13693562
Promoter ID:EPDNEW_R4086
Type:multiple initiation site
Name:Ndufaf6_1
Description:NADH:ubiquinone oxidoreductase complex assembly factor 6
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_6.0524,320,803 - 24,320,863EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309085 AgrOrtholog
BioCyc Gene G2FUF-41965 BioCyc
Ensembl Genes ENSRNOG00000040040 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000061569 ENTREZGENE
  ENSRNOT00000061569.5 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.600.10 UniProtKB/Swiss-Prot
InterPro Isoprenoid_synthase_dom_sf UniProtKB/Swiss-Prot
  Squ/phyt_synthse UniProtKB/Swiss-Prot
KEGG Report rno:297821 UniProtKB/Swiss-Prot
NCBI Gene 297821 ENTREZGENE
PANTHER NADH DEHYDROGENASE (UBIQUINONE) COMPLEX I, ASSEMBLY FACTOR 6 UniProtKB/Swiss-Prot
  PTHR21181 UniProtKB/Swiss-Prot
Pfam SQS_PSY UniProtKB/Swiss-Prot
PhenoGen Ndufaf6 PhenoGen
RatGTEx ENSRNOG00000040040 RatGTEx
Superfamily-SCOP SSF48576 UniProtKB/Swiss-Prot
UniProt A0A0H2UI06 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LQ23_RAT UniProtKB/TrEMBL
  A6JFS4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZN43 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Ndufaf6  NADH:ubiquinone oxidoreductase complex assembly factor 6  Ndufaf6  NADH dehydrogenase (ubiquinone) complex I, assembly factor 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Ndufaf6  NADH dehydrogenase (ubiquinone) complex I, assembly factor 6  RGD1309085  similar to F23N19.9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1309085  similar to F23N19.9   RGD1309085_predicted  similar to F23N19.9 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1309085_predicted  similar to F23N19.9 (predicted)  LOC297821_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC297821_predicted  similar to F23N19.9 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL