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

Gene ID: 100155, updated on 8-Feb-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 single-stranded DNA binding activity. Involved in resolution of meiotic recombination intermediates. Located in condensed nuclear chromosome. Orthologous to human SHOC1 (shortage in chiasmata 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
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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 DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
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
 
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)

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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.