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    Shoc1 shortage in chiasmata 1 [ Mus musculus (house mouse) ]

    Gene ID: 100155, updated on 9-Dec-2024

    Summary

    Official Symbol
    Shoc1provided by MGI
    Official Full Name
    shortage in chiasmata 1provided by MGI
    Primary source
    MGI:MGI:2140313
    See related
    Ensembl:ENSMUSG00000038598 AllianceGenome:MGI:2140313
    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
    Gm426; Mzip2
    Summary
    Predicted to enable ATP hydrolysis activity and single-stranded DNA binding activity. Involved in resolution of meiotic recombination intermediates and synaptonemal complex assembly. Located in condensed nuclear chromosome. Human ortholog(s) of this gene implicated in spermatogenic failure 75. Orthologous to human SHOC1 (shortage in chiasmata 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
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    Genomic context

    See Shoc1 in Genome Data Viewer
    Location:
    4 B3; 4 32.36 cM
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (59041984..59138983, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (59041984..59138983, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9587 Neighboring gene DnaJ heat shock protein family (Hsp40) member C25 Neighboring gene guanine nucleotide binding protein (G protein), gamma 10 Neighboring gene STARR-positive B cell enhancer ABC_E10236 Neighboring gene STARR-seq mESC enhancer starr_10367 Neighboring gene predicted gene, 35527 Neighboring gene ribosomal protein SA, pseudogene 11 Neighboring gene STARR-seq mESC enhancer starr_10368 Neighboring gene STARR-seq mESC enhancer starr_10369 Neighboring gene STARR-positive B cell enhancer mm9_chr4:59212266-59212567 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:59218694-59218997 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:59219045-59219154 Neighboring gene UDP-glucose ceramide glucosyltransferase

    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)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • RP23-211P15.6

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP hydrolysis activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP hydrolysis activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables single-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables single-stranded DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in condensed nuclear chromosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in condensed nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    protein shortage in chiasmata 1 ortholog
    Names
    likely orthologue of H. sapiens chromosome 9 open reading frame 84
    protein ZIP2 homolog

    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_001370843.1NP_001357772.1  protein shortage in chiasmata 1 ortholog

      Status: VALIDATED

      Source sequence(s)
      AL805972, AL808112, BX001048
      Consensus CDS
      CCDS89749.1
      UniProtKB/Swiss-Prot
      A2ALV5
      Related
      ENSMUSP00000103171.2, ENSMUST00000107547.2
      Conserved Domains (1) summary
      pfam17825
      Location:661481
      DUF5587; Family of unknown function (DUF5587)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      59041984..59138983 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001033200.1: Suppressed sequence

      Description
      NM_001033200.1: This RefSeq was permanently suppressed because the CDS was partial.