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

Gene ID: 436883, updated on 4-Jan-2025

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, Jan 2025]
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
  • 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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