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srsf9 serine and arginine rich splicing factor 9 [ Danio rerio (zebrafish) ]

Gene ID: 405835, updated on 27-Mar-2024

Summary

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Official Symbol
srsf9provided by ZNC
Official Full Name
serine and arginine rich splicing factor 9provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-2397
See related
Ensembl:ENSDARG00000008097 AllianceGenome:ZFIN:ZDB-GENE-040426-2397
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:77449
Summary
Predicted to enable RNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome. Predicted to be active in nuclear speck. Orthologous to human SRSF9 (serine and arginine rich splicing factor 9). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See srsf9 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (1686975..1697121, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (1659229..1669375, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene small G protein signaling modulator 1b Neighboring gene TP53 regulated inhibitor of apoptosis 1 Neighboring gene linc RNA epb41l4a Neighboring gene galactose-3-O-sulfotransferase 1b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Number of inadvertent RNA targets for morpholino knockdown in Danio rerio is largely underestimated: evidence from the study of Ser/Arg-rich splicing factors. Joris M, et al. Nucleic Acids Res, 2017 Sep 19. PMID 28934490, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Clone Names

  • MGC77449

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
serine/arginine-rich splicing factor 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_001312899.1 → NP_001299828.1  serine/arginine-rich splicing factor 9

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC067134, CA476386, CU459021, EH464318, EH504229, EH583693
    UniProtKB/TrEMBL
    A0A8M1PIA9, F1QVC6, Q6NXE0
    Related
    ENSDARP00000110534.2, ENSDART00000125188.4
    Conserved Domains (3) summary
    COG0724
    Location:1 → 76
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12598
    Location:5 → 76
    RRM1_SRSF9; RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)
    cl17169
    Location:109 → 184
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. NM_212899.2 → NP_998064.2  serine/arginine-rich splicing factor 9

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC067134, CU459021, EH464318, EH504229, EH583693, EH995382
    UniProtKB/TrEMBL
    A0A8M1PIA9, F1QVC6, Q6NXE0
    Related
    ENSDARP00000002874.6, ENSDART00000002985.7
    Conserved Domains (3) summary
    COG0724
    Location:1 → 76
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12598
    Location:5 → 76
    RRM1_SRSF9; RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)
    cl17169
    Location:109 → 184
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    1686975..1697121 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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