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    srsf5b serine and arginine rich splicing factor 5b [ Danio rerio (zebrafish) ]

    Gene ID: 436883, updated on 2-Nov-2024

    Summary

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    Official Symbol
    srsf5bprovided by ZNC
    Official Full Name
    serine and arginine rich splicing factor 5bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040718-354
    See related
    Ensembl:ENSDARG00000027734 AllianceGenome:ZFIN:ZDB-GENE-040718-354
    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
    sfrs5b; zgc:92278; wu:fe15e05; zgc:113907
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be active in nuclear speck. Orthologous to human SRSF5 (serine and arginine rich splicing factor 5). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See srsf5b in Genome Data Viewer
    Location:
    chromosome: 20
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (28869973..28884831, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (28967094..28981979, complement)

    Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene rho GTPase-activating protein 1-like Neighboring gene solute carrier family 10 member 1 Neighboring gene sushi domain containing 6 Neighboring gene acyl-CoA thioesterase 20

    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 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 of 3' UTR sequence elements and proteins regulating mRNA stability during maternal-to-zygotic transition in zebrafish. Vejnar CE, et al. Genome Res, 2019 Jul. PMID 31227602, Free PMC Article
    3. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    4. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    5. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    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 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 and arginine rich splicing factor 5b
    Names
    serine/arginine-rich splicing factor 5b
    splicing factor arginine/serine-rich 5
    splicing factor, arginine/serine-rich 5b

    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_001002610.1 → NP_001002610.1  serine and arginine rich splicing factor 5b

      See identical proteins and their annotated locations for NP_001002610.1

      Status: PROVISIONAL

      Source sequence(s)
      BC075982
      UniProtKB/TrEMBL
      A0A8M1N0Z6, Q5SPF9, Q6DHJ0
      Related
      ENSDARP00000122656.2, ENSDART00000134564.3
      Conserved Domains (2) summary
      cd12337
      Location:5 → 73
      RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
      cd12600
      Location:110 → 180
      RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) 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_007131.7 Reference GRCz11 Primary Assembly

      Range
      28869973..28884831 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005160668.5 → XP_005160725.1  serine and arginine rich splicing factor 5b isoform X1

      See identical proteins and their annotated locations for XP_005160725.1

      UniProtKB/TrEMBL
      A0A8M2B7K3, Q4V988
      Related
      ENSDARP00000069997.3, ENSDART00000075515.6
      Conserved Domains (3) summary
      COG0724
      Location:1 → 75
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12595
      Location:5 → 74
      RRM1_SRSF5; RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 5 (SRSF5)
      cl17169
      Location:107 → 124
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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