Sdhaf4 (succinate dehydrogenase complex assembly factor 4) - Rat Genome Database

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Gene: Sdhaf4 (succinate dehydrogenase complex assembly factor 4) Rattus norvegicus
Analyze
Symbol: Sdhaf4
Name: succinate dehydrogenase complex assembly factor 4
RGD ID: 1588998
Description: Predicted to enable enzyme activator activity. Predicted to be involved in cellular respiration; mitochondrial respiratory chain complex II assembly; and positive regulation of succinate dehydrogenase activity. Predicted to act upstream of or within innate immune response. Predicted to be active in mitochondrion. Orthologous to human SDHAF4 (succinate dehydrogenase complex assembly factor 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; tetrachloromethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC685888; LOC685888; succinate dehydrogenase assembly factor 4, mitochondrial
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8933,904,667 - 33,912,813 (-)NCBIGRCr8
mRatBN7.2926,408,332 - 26,416,478 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx934,918,115 - 34,926,261 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0940,036,410 - 40,044,557 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0938,346,158 - 38,354,304 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0930,243,261 - 30,251,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl930,243,610 - 30,251,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0929,067,898 - 29,076,116 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4922,713,335 - 22,721,491 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera923,945,793 - 23,953,994 (-)NCBICelera
Cytogenetic Map9q13NCBI
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

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18614015   PMID:19805818   PMID:24954416   PMID:34800366  


Genomics

Comparative Map Data
Sdhaf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8933,904,667 - 33,912,813 (-)NCBIGRCr8
mRatBN7.2926,408,332 - 26,416,478 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx934,918,115 - 34,926,261 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0940,036,410 - 40,044,557 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0938,346,158 - 38,354,304 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0930,243,261 - 30,251,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl930,243,610 - 30,251,388 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0929,067,898 - 29,076,116 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4922,713,335 - 22,721,491 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera923,945,793 - 23,953,994 (-)NCBICelera
Cytogenetic Map9q13NCBI
SDHAF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38670,566,930 - 70,598,428 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl670,566,917 - 70,589,569 (+)EnsemblGRCh38hg38GRCh38
GRCh37671,276,633 - 71,299,272 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36671,333,346 - 71,355,327 (+)NCBINCBI36Build 36hg18NCBI36
Build 34671,333,345 - 71,355,327NCBI
Celera671,665,041 - 71,687,022 (+)NCBICelera
Cytogenetic Map6q13NCBI
HuRef668,474,783 - 68,496,774 (+)NCBIHuRef
CHM1_1671,442,976 - 71,464,957 (+)NCBICHM1_1
T2T-CHM13v2.0671,747,474 - 71,770,117 (+)NCBIT2T-CHM13v2.0
Sdhaf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39124,035,020 - 24,044,721 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl124,035,020 - 24,044,737 (-)EnsemblGRCm39 Ensembl
GRCm38123,995,939 - 24,005,640 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl123,995,939 - 24,005,656 (-)EnsemblGRCm38mm10GRCm38
MGSCv37124,002,778 - 24,012,479 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36123,950,221 - 23,959,915 (-)NCBIMGSCv36mm8
Celera123,832,137 - 23,841,860 (-)NCBICelera
Cytogenetic Map1A5NCBI
cM Map19.86NCBI
Sdhaf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554885,628,341 - 5,645,707 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554885,628,297 - 5,644,384 (+)NCBIChiLan1.0ChiLan1.0
SDHAF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2590,554,858 - 90,576,863 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1688,480,060 - 88,509,848 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0668,402,024 - 68,424,420 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1671,700,165 - 71,722,131 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl671,700,165 - 71,722,125 (+)Ensemblpanpan1.1panPan2
SDHAF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11233,080,545 - 33,089,944 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1233,069,013 - 33,089,930 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1232,927,894 - 32,948,859 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01233,608,662 - 33,629,628 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1233,608,696 - 33,629,614 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11233,139,123 - 33,160,035 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01233,180,881 - 33,201,819 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01233,293,517 - 33,314,461 (+)NCBIUU_Cfam_GSD_1.0
Sdhaf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494668,294,307 - 68,306,697 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366182,451,675 - 2,466,150 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366182,451,717 - 2,461,676 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDHAF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1174,410,081 - 4,432,885 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl174,410,932 - 4,432,841 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605810,414,639 - 10,437,421 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sdhaf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248199,320,368 - 9,336,572 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248199,320,343 - 9,336,196 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sdhaf4
28 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:101
Interacting mature miRNAs:112
Transcripts:ENSRNOT00000035033
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
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92375402461381613Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92375402458157242Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92207120067071200Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
724543Cm20Cardiac mass QTL 203.9heart mass (VT:0007028)calculated heart weight (CMO:0000073)91696139840594091Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)92213332249968732Rat

Markers in Region
RH133392  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2926,408,462 - 26,408,654 (+)MAPPERmRatBN7.2
Rnor_6.0930,243,404 - 30,243,595NCBIRnor6.0
Rnor_5.0929,068,041 - 29,068,232UniSTSRnor5.0
RGSC_v3.4922,713,478 - 22,713,669UniSTSRGSC3.4
Celera923,945,936 - 23,946,127UniSTS
RH 3.4 Map9245.5UniSTS
Cytogenetic Map9q13UniSTS
RH143909  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2926,414,285 - 26,414,404 (+)MAPPERmRatBN7.2
Rnor_6.0930,249,227 - 30,249,345NCBIRnor6.0
Rnor_5.0929,073,864 - 29,073,982UniSTSRnor5.0
RGSC_v3.4922,719,301 - 22,719,423UniSTSRGSC3.4
Celera923,951,743 - 23,951,861UniSTS
RH 3.4 Map9247.3UniSTS
Cytogenetic Map9q13UniSTS
RH135085  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2926,417,095 - 26,417,314 (+)MAPPERmRatBN7.2
Rnor_6.0930,252,035 - 30,252,253NCBIRnor6.0
Rnor_5.0929,076,672 - 29,076,890UniSTSRnor5.0
RGSC_v3.4922,722,113 - 22,722,331UniSTSRGSC3.4
Celera923,954,551 - 23,954,769UniSTS
RH 3.4 Map9245.5UniSTS
Cytogenetic Map9q13UniSTS


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: ENSRNOT00000035033   ⟹   ENSRNOP00000030072
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl930,243,610 - 30,251,388 (-)Ensembl
RefSeq Acc Id: NM_001399405   ⟹   NP_001386334
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8933,904,667 - 33,912,813 (-)NCBI
mRatBN7.2926,408,332 - 26,416,478 (-)NCBI
RefSeq Acc Id: NM_001399406   ⟹   NP_001386335
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8933,904,667 - 33,912,813 (-)NCBI
mRatBN7.2926,408,332 - 26,416,478 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386334 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386335 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18618 (Get FASTA)   NCBI Sequence Viewer  
  EDM18620 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000030072   ⟸   ENSRNOT00000035033
RefSeq Acc Id: NP_001386334   ⟸   NM_001399405
- Peptide Label: isoform 1
- UniProtKB: A6JJB2 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386335   ⟸   NM_001399406
- Peptide Label: isoform 2
- UniProtKB: A6JJB3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A7Q3-F1-model_v2 AlphaFold D4A7Q3 1-104 view protein structure

Transcriptome

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

Promoters
RGD ID:13696583
Promoter ID:EPDNEW_R7105
Type:multiple initiation site
Name:Sdhaf4_1
Description:succinate dehydrogenase complex assembly factor 4
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_6.0930,251,414 - 30,251,474EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588998 AgrOrtholog
BioCyc Gene G2FUF-27965 BioCyc
Ensembl Genes ENSRNOG00000028087 Ensembl
InterPro SDHF4 UniProtKB/TrEMBL
NCBI Gene 685888 ENTREZGENE
PANTHER SUCCINATE DEHYDROGENASE ASSEMBLY FACTOR 4, MITOCHONDRIAL UniProtKB/TrEMBL
  SUCCINATE DEHYDROGENASE ASSEMBLY FACTOR 4, MITOCHONDRIAL UniProtKB/TrEMBL
Pfam DUF1674 UniProtKB/TrEMBL
PhenoGen Sdhaf4 PhenoGen
RatGTEx ENSRNOG00000028087 RatGTEx
UniProt A6JJB2 ENTREZGENE, UniProtKB/TrEMBL
  A6JJB3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-03 Sdhaf4  succinate dehydrogenase complex assembly factor 4  LOC685888  hypothetical protein LOC685888  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC685888  hypothetical protein LOC685888  LOC684207  similar to CG7224-PA, isoform A  Data merged from RGD:1592738 1643240 APPROVED
2006-11-20 LOC684207  similar to CG7224-PA, isoform A      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC685888  hypothetical protein LOC685888      Symbol and Name status set to provisional 70820 PROVISIONAL