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

Gene ID: 227707, updated on 27-Nov-2024

Summary

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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 enable U5 snRNA binding activity. Predicted to be involved in mRNA cis splicing, via spliceosome and regulation of homologous chromosome segregation. Predicted to be located in chromosome, centromeric region; 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, Nov 2024]
Expression
Ubiquitous expression in cerebellum adult (RPKM 15.3), frontal lobe adult (RPKM 14.0) and 28 other tissues See more
Orthologs
human all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
  2. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  4. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
  5. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • MGC11690

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables U5 snRNA 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
involved_in chromosome segregation IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA cis splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA cis splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of homologous chromosome segregation IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of homologous chromosome segregation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in chromosome, centromeric region IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, centromeric region ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
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

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

    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:101 → 196
    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_006497943.5 → XP_006498006.1  splicing factor C9orf78 homolog isoform X1

    Conserved Domains (1) summary
    pfam07052
    Location:55 → 150
    Hep_59; Hepatocellular carcinoma-associated antigen 59
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3TQI7.2 GenPept UniProtKB/Swiss-Prot:Q3TQI7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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