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    srsf1b serine and arginine rich splicing factor 1b [ Danio rerio (zebrafish) ]

    Gene ID: 393565, updated on 12-Sep-2024

    Summary

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    Official Symbol
    srsf1bprovided by ZNC
    Official Full Name
    serine and arginine rich splicing factor 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1467
    See related
    Ensembl:ENSDARG00000017843 AllianceGenome:ZFIN:ZDB-GENE-040426-1467
    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
    sfrs1; sfrs1b; zgc:65898; zgc:76897; wu:fb80g05; zgc:111894
    Summary
    Predicted to enable RNA 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 cytoplasm and nucleus. Predicted to be active in nuclear speck. Orthologous to human SRSF1 (serine and arginine rich splicing factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See srsf1b in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (39568895..39577717, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (39523833..39532683, complement)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene MAX network transcriptional repressor b Neighboring gene septin 4a Neighboring gene dynein, light chain, LC8-type 2b Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class S Neighboring gene aldolase C, fructose-bisphosphate, b

    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. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC65898

    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
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 1B
    Names
    splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)
    splicing factor, arginine/serine-rich 1b

    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_200593.2 → NP_956887.2  serine/arginine-rich splicing factor 1B

      See identical proteins and their annotated locations for NP_956887.2

      Status: PROVISIONAL

      Source sequence(s)
      BC066682
      UniProtKB/Swiss-Prot
      Q502R8, Q6NYA0, Q6PH14
      Related
      ENSDARP00000116886.2, ENSDART00000143566.4
      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:120 → 192
      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_007132.7 Reference GRCz11 Primary Assembly

      Range
      39568895..39577717 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_659427.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6NYA0.1 GenPept UniProtKB/Swiss-Prot:Q6NYA0

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