Mouse Gene Slc25a40 (ENSMUST00000066921.10) from GENCODE VM33
  Description: Mus musculus solute carrier family 25, member 40 (Slc25a40), transcript variant 1, mRNA. (from RefSeq NM_178766)
Gencode Transcript: ENSMUST00000066921.10
Gencode Gene: ENSMUSG00000054099.12
Transcript (Including UTRs)
   Position: mm39 chr5:8,472,850-8,504,797 Size: 31,948 Total Exon Count: 12 Strand: +
Coding Region
   Position: mm39 chr5:8,477,417-8,503,298 Size: 25,882 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-15 19:06:27

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:8,472,850-8,504,797)mRNA (may differ from genome)Protein (337 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: S2540_MOUSE
DESCRIPTION: RecName: Full=Solute carrier family 25 member 40;
SUBCELLULAR LOCATION: Mitochondrion inner membrane; Multi-pass membrane protein (By similarity).
SIMILARITY: Belongs to the mitochondrial carrier family.
SIMILARITY: Contains 3 Solcar repeats.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -103.20271-0.381 Picture PostScript Text
3' UTR -355.701499-0.237 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
IPR002067 - Mit_carrier
IPR018108 - Mitochondrial_sb/sol_carrier
IPR023395 - Mt_carrier_dom

Pfam Domains:
PF00153 - Mitochondrial carrier protein

ModBase Predicted Comparative 3D Structure on Q8BGP6
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0022857 transmembrane transporter activity

Biological Process:
GO:0006839 mitochondrial transport
GO:0055085 transmembrane transport

Cellular Component:
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK044260 - Mus musculus adult retina cDNA, RIKEN full-length enriched library, clone:A930004C23 product:similar to Mitochondrial carrier family protein [Homo sapiens], full insert sequence.
AK045863 - Mus musculus adult male corpora quadrigemina cDNA, RIKEN full-length enriched library, clone:B230315F11 product:similar to MITOCHONDRIAL CARRIER FAMILY PROTEIN [Homo sapiens], full insert sequence.
AK044862 - Mus musculus 9.5 days embryo parthenogenote cDNA, RIKEN full-length enriched library, clone:B130008N03 product:unclassifiable, full insert sequence.
AK136770 - Mus musculus adult male diencephalon cDNA, RIKEN full-length enriched library, clone:9330005I01 product:similar to Mitochondrial carrier family protein [Homo sapiens], full insert sequence.
AK163037 - Mus musculus 0 day neonate thymus cDNA, RIKEN full-length enriched library, clone:A430089L20 product:similar to Mitochondrial carrier family protein [Homo sapiens], full insert sequence.
AK088444 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430016M04 product:similar to MITOCHONDRIAL CARRIER FAMILY PROTEIN [Homo sapiens], full insert sequence.
AK079538 - Mus musculus adult male hypothalamus cDNA, RIKEN full-length enriched library, clone:A230040D12 product:similar to MITOCHONDRIAL CARRIER FAMILY PROTEIN [Homo sapiens], full insert sequence.
AK084797 - Mus musculus 13 days embryo heart cDNA, RIKEN full-length enriched library, clone:D330044F17 product:similar to MITOCHONDRIAL CARRIER FAMILY PROTEIN [Homo sapiens], full insert sequence.
BC083103 - Mus musculus solute carrier family 25, member 40, mRNA (cDNA clone MGC:103255 IMAGE:30726859), complete cds.
AK050815 - Mus musculus 9 days embryo whole body cDNA, RIKEN full-length enriched library, clone:D030021M05 product:unclassifiable, full insert sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: ENSMUST00000066921.1, ENSMUST00000066921.2, ENSMUST00000066921.3, ENSMUST00000066921.4, ENSMUST00000066921.5, ENSMUST00000066921.6, ENSMUST00000066921.7, ENSMUST00000066921.8, ENSMUST00000066921.9, NM_178766, Q3UVZ5, Q8BGP6, Q8BXT8, S2540_MOUSE, uc008wkf.1, uc008wkf.2, uc008wkf.3, uc008wkf.4, uc008wkf.5
UCSC ID: ENSMUST00000066921.10
RefSeq Accession: NM_178766
Protein: Q8BGP6 (aka S2540_MOUSE)

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