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    srsf1a serine and arginine rich splicing factor 1a [ Danio rerio (zebrafish) ]

    Gene ID: 406288, updated on 4-Jan-2025

    Summary

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    Official Symbol
    srsf1aprovided by ZNC
    Official Full Name
    serine and arginine rich splicing factor 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1950
    See related
    Ensembl:ENSDARG00000057691 AllianceGenome:ZFIN:ZDB-GENE-040426-1950
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    sfrs1a; sfrs1l; zgc:66146; wu:fb52g10; wu:fb97g12
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be active in nuclear speck. Human ortholog(s) of this gene implicated in neurodevelopmental disorder with dysmorphic facies and behavioral abnormalities. Orthologous to human SRSF1 (serine and arginine rich splicing factor 1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See srsf1a in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (16072080..16076412, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (16136058..16140490, complement)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487733 Neighboring gene HNF1 homeobox Ba Neighboring gene dynein, light chain, LC8-type 2a Neighboring gene aldolase C, fructose-bisphosphate, a Neighboring gene si:ch211-259g3.4

    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. Genome wide analysis reveals Zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish. Winata CL, et al. PLoS Genet, 2013 Oct. PMID 24204288, 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    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
    		  
    Component Evidence Code Pubs
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    serine/arginine-rich splicing factor 1A
    Names
    splicing factor, arginine/serine-rich 1, like
    splicing factor, arginine/serine-rich 1-like protein 1
    splicing factor, arginine/serine-rich 1a

    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_213015.1 → NP_998180.1  serine/arginine-rich splicing factor 1A

      See identical proteins and their annotated locations for NP_998180.1

      Status: PROVISIONAL

      Source sequence(s)
      BC055511
      UniProtKB/Swiss-Prot
      Q7SXP4
      Conserved Domains (3) summary
      COG0724
      Location:7 → 87
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12597
      Location:16 → 89
      RRM1_SRSF1; RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins
      cd12601
      Location:131 → 203
      RRM2_SRSF1_like; RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007126.7 Reference GRCz11 Primary Assembly

      Range
      16072080..16076412 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005157415.5 → XP_005157472.1  serine/arginine-rich splicing factor 1A isoform X1

      See identical proteins and their annotated locations for XP_005157472.1

      UniProtKB/Swiss-Prot
      A8E5H5, Q7SXP4
      Conserved Domains (3) summary
      COG0724
      Location:7 → 87
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12597
      Location:16 → 89
      RRM1_SRSF1; RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins
      cd12601
      Location:130 → 202
      RRM2_SRSF1_like; RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins

    2. XM_005157414.5 → XP_005157471.1  serine/arginine-rich splicing factor 1A isoform X1

      See identical proteins and their annotated locations for XP_005157471.1

      UniProtKB/Swiss-Prot
      A8E5H5, Q7SXP4
      Related
      ENSDARP00000074862.5, ENSDART00000080413.7
      Conserved Domains (3) summary
      COG0724
      Location:7 → 87
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12597
      Location:16 → 89
      RRM1_SRSF1; RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins
      cd12601
      Location:130 → 202
      RRM2_SRSF1_like; RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394942.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      80347..84615 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7SXP4.2 GenPept UniProtKB/Swiss-Prot:Q7SXP4

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