Mouse Gene Sdhaf3 (ENSMUST00000040826.5) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus succinate dehydrogenase complex assembly factor 3 (Sdhaf3), mRNA. (from RefSeq NM_001077713)
Gencode Transcript: ENSMUST00000040826.5
Gencode Gene: ENSMUSG00000042505.6
Transcript (Including UTRs)
   Position: mm10 chr6:6,956,004-7,042,979 Size: 86,976 Total Exon Count: 2 Strand: +
Coding Region
   Position: mm10 chr6:6,956,027-7,039,057 Size: 83,031 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:6,956,004-7,042,979)mRNA (may differ from genome)Protein (125 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ACN9_MOUSE
DESCRIPTION: RecName: Full=Protein ACN9 homolog, mitochondrial; Flags: Precursor;
SUBCELLULAR LOCATION: Mitochondrion (Potential).
SIMILARITY: Belongs to the ACN9 family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -6.1023-0.265 Picture PostScript Text
3' UTR -985.103922-0.251 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008381 - ACN9

Pfam Domains:
PF05347 - Complex 1 protein (LYR family)
PF13233 - Complex1_LYR-like

ModBase Predicted Comparative 3D Structure on Q8BQU3
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details    Gene Details
Gene Sorter    Gene Sorter
 RGDEnsemblEnsemblWormBaseSGD
 Protein Sequence Protein SequenceProtein Sequence 
 Alignment AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0006105 succinate metabolic process
GO:0006111 regulation of gluconeogenesis
GO:0006979 response to oxidative stress
GO:0034553 mitochondrial respiratory chain complex II assembly

Cellular Component:
GO:0005739 mitochondrion
GO:0005758 mitochondrial intermembrane space
GO:0005759 mitochondrial matrix


-  Descriptions from all associated GenBank mRNAs
  AK046436 - Mus musculus adult male corpora quadrigemina cDNA, RIKEN full-length enriched library, clone:B230384K14 product:hypothetical ACN9 containing protein, full insert sequence.
AK016986 - Mus musculus adult male testis cDNA, RIKEN full-length enriched library, clone:4933430A16 product:unclassifiable, full insert sequence.
BC118928 - Mus musculus ACN9 homolog (S. cerevisiae), mRNA (cDNA clone MGC:143505 IMAGE:40090189), complete cds.
BC061217 - Mus musculus ACN9 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:30278413), containing frame-shift errors.
BC118927 - Mus musculus ACN9 homolog (S. cerevisiae), mRNA (cDNA clone MGC:143504 IMAGE:40090186), complete cds.
AK002229 - Mus musculus adult male kidney cDNA, RIKEN full-length enriched library, clone:0610005M07 product:ACN9 homolog (S. cerevisiae), full insert sequence.
AK028031 - Mus musculus 18-day embryo whole body cDNA, RIKEN full-length enriched library, clone:1190025P04 product:similar to DC11 [Homo sapiens], full insert sequence.
AK004417 - Mus musculus 18-day embryo whole body cDNA, RIKEN full-length enriched library, clone:1110069H07 product:ACN9 homolog (S. cerevisiae), full insert sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: Acn9, ACN9_MOUSE, NM_001077713, Q8BQU3, Q8BT21, uc009axa.1, uc009axa.2
UCSC ID: uc009axa.2
RefSeq Accession: NM_001077713
Protein: Q8BQU3 (aka ACN9_MOUSE)
CCDS: CCDS39423.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.