Sdhaf3 (succinate dehydrogenase complex assembly factor 3) - Rat Genome Database

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Gene: Sdhaf3 (succinate dehydrogenase complex assembly factor 3) Rattus norvegicus
Analyze
Symbol: Sdhaf3
Name: succinate dehydrogenase complex assembly factor 3
RGD ID: 1305143
Description: Predicted to be involved in mitochondrial respiratory chain complex II assembly and succinate metabolic process. Predicted to be located in mitochondrial matrix. Predicted to be active in mitochondrial intermembrane space. Orthologous to human SDHAF3 (succinate dehydrogenase complex assembly factor 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol; 4,4'-diaminodiphenylmethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Acn9; ACN9 homolog (S. cerevisiae); liver regeneration-related protein LRRGT00092; LOC362323; LRRGT00092; protein ACN9 homolog, mitochondrial; SDH assembly factor 3; succinate dehydrogenase assembly factor 3, mitochondrial
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8436,066,963 - 36,127,168 (+)NCBIGRCr8
mRatBN7.2435,100,533 - 35,160,740 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl435,100,506 - 35,160,749 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx440,102,013 - 40,119,294 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0436,028,188 - 36,045,471 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0434,462,970 - 34,480,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0432,541,706 - 32,558,798 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl432,495,321 - 32,558,798 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0432,404,589 - 32,421,681 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4432,132,528 - 32,151,053 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1432,204,882 - 32,269,917 (+)NCBI
Celera430,657,695 - 30,674,975 (+)NCBICelera
Cytogenetic Map4q21NCBI
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

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15057822  


Genomics

Comparative Map Data
Sdhaf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8436,066,963 - 36,127,168 (+)NCBIGRCr8
mRatBN7.2435,100,533 - 35,160,740 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl435,100,506 - 35,160,749 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx440,102,013 - 40,119,294 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0436,028,188 - 36,045,471 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0434,462,970 - 34,480,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0432,541,706 - 32,558,798 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl432,495,321 - 32,558,798 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0432,404,589 - 32,421,681 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4432,132,528 - 32,151,053 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1432,204,882 - 32,269,917 (+)NCBI
Celera430,657,695 - 30,674,975 (+)NCBICelera
Cytogenetic Map4q21NCBI
SDHAF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38797,117,698 - 97,181,763 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl797,117,698 - 97,181,763 (+)EnsemblGRCh38hg38GRCh38
GRCh37796,747,010 - 96,811,075 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36796,584,953 - 96,649,011 (+)NCBINCBI36Build 36hg18NCBI36
Build 34796,391,670 - 96,455,724NCBI
Celera791,439,813 - 91,504,987 (+)NCBICelera
Cytogenetic Map7q21.3NCBI
HuRef791,347,464 - 91,412,636 (+)NCBIHuRef
CHM1_1796,675,946 - 96,741,117 (+)NCBICHM1_1
T2T-CHM13v2.0798,347,396 - 98,411,438 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2796,068,386 - 96,133,557 (+)NCBI
Sdhaf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3966,956,004 - 7,039,661 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl66,956,004 - 7,042,979 (+)EnsemblGRCm39 Ensembl
GRCm3866,955,971 - 7,039,661 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl66,956,004 - 7,042,979 (+)EnsemblGRCm38mm10GRCm38
MGSCv3766,906,018 - 6,989,220 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3666,906,011 - 6,989,667 (+)NCBIMGSCv36mm8
Celera67,110,213 - 7,181,964 (+)NCBICelera
Cytogenetic Map6A1NCBI
cM Map62.83NCBI
Sdhaf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543213,512,594 - 13,586,978 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543213,512,594 - 13,586,984 (+)NCBIChiLan1.0ChiLan1.0
SDHAF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26114,953,971 - 115,018,052 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17163,218,603 - 163,282,684 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0789,069,374 - 89,133,394 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17102,653,715 - 102,717,045 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7102,653,723 - 102,717,045 (+)Ensemblpanpan1.1panPan2
SDHAF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11422,153,377 - 22,221,918 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1421,721,749 - 21,790,196 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01421,974,606 - 22,043,528 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1421,882,613 - 22,044,508 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11422,118,553 - 22,187,439 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01421,851,973 - 21,920,837 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01422,115,855 - 22,184,411 (+)NCBIUU_Cfam_GSD_1.0
Sdhaf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934930,291,074 - 30,291,987 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647529,297,198 - 29,298,040 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDHAF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1976,699,512 - 76,771,834 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2984,323,963 - 84,325,362 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SDHAF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12151,872,063 - 51,948,340 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604252,418,098 - 52,492,870 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sdhaf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248133,861,689 - 3,960,625 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248133,861,686 - 3,960,631 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sdhaf3
458 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:146
Count of miRNA genes:59
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000015286, ENSRNOT00000050827
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
61415Eae11Experimental allergic encephalomyelitis QTL 112.9nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)4139505420Rat
634323Hc2Hypercalciuria QTL 22.15urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)421079645210796Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2302371Stl22Serum triglyceride level QTL 225.15blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829457114705Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
631642Stl2Serum triglyceride level QTL 23.3blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521917856647776Rat
631209Bw2Body weight QTL24.2retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)4994088544463908Rat
1300141Bp178Blood pressure QTL 178arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)41002490139524530Rat
6478724Anxrr35Anxiety related response QTL 350.00449defecation behavior trait (VT:0010462)defecation measurement (CMO:0000997)41008408955084089Rat
6478766Anxrr47Anxiety related response QTL 470.09637locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)41008408955084089Rat
6478769Anxrr48Anxiety related response QTL 480.02514locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)41008408955084089Rat
8694374Bw155Body weight QTL 1553.390.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)41008408955084089Rat
9590304Scort17Serum corticosterone level QTL 174.960.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)41008408955084089Rat
8552906Pigfal3Plasma insulin-like growth factor 1 level QTL 3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)41008408955084089Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
70222Eae2Experimental allergic encephalomyelitis QTL 24.3nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)42133334339505420Rat
1354665Stl10Serum triglyceride level QTL 103.57blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)42133334344463908Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
11530004Niddm71Non-insulin dependent diabetes mellitus QTL 710.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)43258419952754138Rat
8655949Rf62Renal function QTL 6222blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)43443011944463908Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat

Markers in Region
RH128678  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2435,160,514 - 35,160,718 (+)MAPPERmRatBN7.2
Rnor_6.0432,558,897 - 32,559,100NCBIRnor6.0
Rnor_5.0432,421,780 - 32,421,983UniSTSRnor5.0
RGSC_v3.4432,151,152 - 32,151,355UniSTSRGSC3.4
Celera430,675,074 - 30,675,277UniSTS
Cytogenetic Map4q21UniSTS
RH140884  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2435,160,514 - 35,160,715 (+)MAPPERmRatBN7.2
Rnor_6.0432,558,897 - 32,559,097NCBIRnor6.0
Rnor_5.0432,421,780 - 32,421,980UniSTSRnor5.0
RGSC_v3.4432,151,152 - 32,151,352UniSTSRGSC3.4
Celera430,675,074 - 30,675,274UniSTS
RH 3.4 Map4213.72UniSTS
Cytogenetic Map4q21UniSTS


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 42 36 28 1 28 8 11 63 35 31 8
Low 3 1 21 13 18 13 11 10 11
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015286   ⟹   ENSRNOP00000015286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl435,100,506 - 35,160,749 (+)Ensembl
Rnor_6.0 Ensembl432,495,321 - 32,558,798 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000050827   ⟹   ENSRNOP00000040707
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl432,541,706 - 32,558,798 (+)Ensembl
RefSeq Acc Id: NM_001412565   ⟹   NP_001399494
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8436,066,963 - 36,127,168 (+)NCBI
mRatBN7.2435,100,533 - 35,160,740 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000040707   ⟸   ENSRNOT00000050827
RefSeq Acc Id: ENSRNOP00000015286   ⟸   ENSRNOT00000015286
RefSeq Acc Id: NP_001399494   ⟸   NM_001412565
- Peptide Label: precursor
- UniProtKB: Q6TUF2 (UniProtKB/Swiss-Prot),   A6IDV3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6TUF2-F1-model_v2 AlphaFold Q6TUF2 1-125 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:1305143 AgrOrtholog
BioCyc Gene G2FUF-45679 BioCyc
Ensembl Genes ENSRNOG00000011283 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055001833 UniProtKB/Swiss-Prot
  ENSRNOG00060020515 UniProtKB/Swiss-Prot
  ENSRNOG00065010756 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015286 ENTREZGENE
  ENSRNOT00000015286.8 UniProtKB/Swiss-Prot
  ENSRNOT00055002958 UniProtKB/Swiss-Prot
  ENSRNOT00060035521 UniProtKB/Swiss-Prot
  ENSRNOT00065017414 UniProtKB/Swiss-Prot
InterPro SDHAF3/Sdh7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362323 UniProtKB/Swiss-Prot
NCBI Gene 362323 ENTREZGENE
PANTHER DC11 ACN9 HOMOLOG UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  SUCCINATE DEHYDROGENASE ASSEMBLY FACTOR 3, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Complex1_LYR_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sdhaf3 PhenoGen
RatGTEx ENSRNOG00000011283 RatGTEx
  ENSRNOG00055001833 RatGTEx
  ENSRNOG00060020515 RatGTEx
  ENSRNOG00065010756 RatGTEx
UniProt A6IDV3 ENTREZGENE, UniProtKB/TrEMBL
  Q6TUF2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-03-04 Sdhaf3  succinate dehydrogenase complex assembly factor 3  Acn9  ACN9 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Acn9  ACN9 homolog (S. cerevisiae)  Acn9_predicted  ACN9 homolog (S. cerevisiae) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Acn9_predicted  ACN9 homolog (S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED