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    Shmt2 serine hydroxymethyltransferase 2 (mitochondrial) [ Mus musculus (house mouse) ]

    Gene ID: 108037, updated on 5-Sep-2021

    Summary

    Official Symbol
    Shmt2provided by MGI
    Official Full Name
    serine hydroxymethyltransferase 2 (mitochondrial)provided by MGI
    Primary source
    MGI:MGI:1277989
    See related
    Ensembl:ENSMUSG00000025403
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    SHMT; AA408223; AA986903; 2700043D08Rik
    Expression
    Ubiquitous expression in liver adult (RPKM 102.9), kidney adult (RPKM 81.2) and 27 other tissues See more
    Orthologs
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    Genomic context

    See Shmt2 in Genome Data Viewer
    Location:
    10; 10 D3
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (127352992..127358313, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (127517123..127522444, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (126954195..126959491, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene R3H domain containing 2 Neighboring gene predicted gene, 23819 Neighboring gene Ndufa4, mitochondrial complex associated like 2 Neighboring gene SH3 and cysteine rich domain 3 Neighboring gene neurexophilin 4 Neighboring gene low density lipoprotein receptor-related protein 1 Neighboring gene predicted gene 16217

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Endonuclease-mediated (2)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables L-allo-threonine aldolase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables amino acid binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cobalt ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables glycine hydroxymethyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables glycine hydroxymethyltransferase activity IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    enables glycine hydroxymethyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables glycine hydroxymethyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA 5'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables protein homodimerization activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables pyridoxal phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables pyridoxal phosphate binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables serine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables translation repressor activity, mRNA regulatory element binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables zinc ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in L-serine biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in L-serine catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in L-serine metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in folic acid metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in glycine biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glycine biosynthetic process from serine IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in glycine biosynthetic process from serine ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glycine metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in one-carbon metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in one-carbon metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein K63-linked deubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein homotetramerization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in protein homotetramerization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein tetramerization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in purine nucleobase biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of aerobic respiration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of aerobic respiration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of mitochondrial translation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of mitochondrial translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of oxidative phosphorylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of oxidative phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of oxidative phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to type I interferon IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in response to type I interferon ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tetrahydrofolate interconversion IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in tetrahydrofolate interconversion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in tetrahydrofolate metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in tetrahydrofolate metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of BRISC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of BRISC complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in microtubule cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrial inner membrane HDA PubMed 
    is_active_in mitochondrial inner membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in mitochondrial inner membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrial intermembrane space ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in mitochondrial matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in mitochondrial matrix ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrial nucleoid ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    serine hydroxymethyltransferase, mitochondrial
    Names
    glycine hydroxymethyltransferase
    serine methylase
    NP_001239245.1
    NP_082506.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001252316.1NP_001239245.1  serine hydroxymethyltransferase, mitochondrial isoform 2

      See identical proteins and their annotated locations for NP_001239245.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different splice site in the 5' coding region, compared to variant 1. The resulting protein (isoform 2) has a shorter N-terminus when it is compared to isoform 1.
      Source sequence(s)
      AK162421, AK169192
      Consensus CDS
      CCDS88105.1
      UniProtKB/TrEMBL
      Q3TFD0, Q9CZN7
      Related
      ENSMUSP00000151616.2, ENSMUST00000219239.2
      Conserved Domains (1) summary
      PLN03226
      Location:42499
      PLN03226; serine hydroxymethyltransferase; Provisional
    2. NM_028230.4NP_082506.1  serine hydroxymethyltransferase, mitochondrial isoform 1

      See identical proteins and their annotated locations for NP_082506.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).
      Source sequence(s)
      AK162421, BY760884
      Consensus CDS
      CCDS24244.1
      UniProtKB/TrEMBL
      Q9CZN7
      Related
      ENSMUSP00000026470.5, ENSMUST00000026470.6
      Conserved Domains (1) summary
      PLN03226
      Location:45502
      PLN03226; serine hydroxymethyltransferase; Provisional

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      127352992..127358313 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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