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Srsf9 serine and arginine-rich splicing factor 9 [ Mus musculus (house mouse) ]

Gene ID: 108014, updated on 11-Apr-2024

Summary

Official Symbol
Srsf9provided by MGI
Official Full Name
serine and arginine-rich splicing factor 9provided by MGI
Primary source
MGI:MGI:104896
See related
Ensembl:ENSMUSG00000029538 AllianceGenome:MGI:104896
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
25kDa; Sfrs9; SRp30c; 2610029M16Rik
Summary
The protein encoded by this gene is a member of the serine/arginine (SR)-rich family of pre-mRNA splicing factors, which constitute part of the spliceosome. Each of these factors contains an RNA recognition motif (RRM) for binding RNA and an RS domain for binding other proteins. The RS domain is rich in serine and arginine residues and facilitates interaction between different SR splicing factors. In addition to being critical for mRNA splicing, the SR proteins have also been shown to be involved in mRNA export from the nucleus and in translation. Two transcript variants, one protein-coding and the other not protein-coding, have been found for this gene. [provided by RefSeq, Sep 2010]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 57.7), ovary adult (RPKM 45.6) and 28 other tissues See more
Orthologs
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Genomic context

Location:
5 F; 5 56.05 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (115465236..115471139)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (115327163..115333843)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E530 Neighboring gene dynein light chain LC8-type 1 Neighboring gene predicted gene 13830 Neighboring gene STARR-positive B cell enhancer ABC_E6368 Neighboring gene glutamyl-tRNA amidotransferase subunit C Neighboring gene TP53 regulated inhibitor of apoptosis 1

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)
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
 
involved_in alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
serine/arginine-rich splicing factor 9
Names
splicing factor, arginine/serine-rich 9

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_025573.3NP_079849.1  serine/arginine-rich splicing factor 9

    See identical proteins and their annotated locations for NP_079849.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the protein-coding transcript.
    Source sequence(s)
    AC117735
    Consensus CDS
    CCDS19587.1
    UniProtKB/Swiss-Prot
    Q9CRN3, Q9D0B0
    UniProtKB/TrEMBL
    Q3TXM9
    Related
    ENSMUSP00000031513.8, ENSMUST00000031513.14
    Conserved Domains (2) summary
    cd12598
    Location:1687
    RRM1_SRSF9; RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)
    cd12768
    Location:112187
    RRM2_SRSF9; RNA recognition motif 2 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)

RNA

  1. NR_036616.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate exon with an in-frame stop codon. The resulting transcript is a candidate for nonsense-mediated mRNA decay (NMD), so this variant is not thought to be protein-coding.
    Source sequence(s)
    AC117735, AI503042, CJ162734, CV558546

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    115465236..115471139
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)