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    BC005624 cDNA sequence BC005624 [ Mus musculus (house mouse) ]

    Gene ID: 227707, updated on 8-Feb-2024

    Summary

    Official Symbol
    BC005624provided by MGI
    Official Full Name
    cDNA sequence BC005624provided by MGI
    Primary source
    MGI:MGI:2385132
    See related
    Ensembl:ENSMUSG00000026851 AllianceGenome:MGI:2385132
    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
    Summary
    Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of spliceosomal complex. Orthologous to human C9orf78 (chromosome 9 open reading frame 78). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 15.3), frontal lobe adult (RPKM 14.0) and 28 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See BC005624 in Genome Data Viewer
    Location:
    2 B; 2 21.77 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (30862845..30872225, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (30970693..30981941, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_04126 Neighboring gene predicted gene, 57831 Neighboring gene peptidylprolyl isomerase A pseudogene 2_387.1 Neighboring gene torsin family 1, member B Neighboring gene torsin family 1, member A (torsin A) Neighboring gene predicted gene, 39786 Neighboring gene ubiquitin specific peptidase 20 Neighboring gene formin binding protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E9195 Neighboring gene STARR-positive B cell enhancer ABC_E4431 Neighboring gene STARR-seq mESC enhancer starr_04135 Neighboring gene STARR-positive B cell enhancer ABC_E4432 Neighboring gene STARR-positive B cell enhancer ABC_E9196 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:30971715-30971947

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Clone Names

    • MGC11690

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables U5 snRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular_function ND
    No biological Data available
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within chromosome segregation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA cis splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of homologous chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromosome, centromeric region ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    splicing factor C9orf78 homolog
    Names
    telomere length and silencing protein 1 homolog
    uncharacterized protein C9orf78 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_144885.3NP_659134.1  splicing factor C9orf78 homolog

      See identical proteins and their annotated locations for NP_659134.1

      Status: VALIDATED

      Source sequence(s)
      AL844532, AL844546
      Consensus CDS
      CCDS15892.1
      UniProtKB/Swiss-Prot
      Q3TQI7, Q99JW3
      Related
      ENSMUSP00000028205.9, ENSMUST00000028205.10
      Conserved Domains (1) summary
      pfam07052
      Location:101196
      Hep_59; Hepatocellular carcinoma-associated antigen 59

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      30862845..30872225 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006497943.5XP_006498006.1  splicing factor C9orf78 homolog isoform X1

      See identical proteins and their annotated locations for XP_006498006.1

      Conserved Domains (1) summary
      pfam07052
      Location:55150
      Hep_59; Hepatocellular carcinoma-associated antigen 59