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    sf3b3 splicing factor 3b, subunit 3 [ Danio rerio (zebrafish) ]

    Gene ID: 406824, updated on 9-Dec-2024

    Summary

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    Official Symbol
    sf3b3provided by ZNC
    Official Full Name
    splicing factor 3b, subunit 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2901
    See related
    Ensembl:ENSDARG00000103553 AllianceGenome:ZFIN:ZDB-GENE-040426-2901
    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
    zgc:55440; wu:fb81f05; ik:tdsubc_2b2; xx:tdsubc_2b2
    Summary
    Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be part of U2 snRNP and U2-type precatalytic spliceosome. Predicted to be active in nucleus. Orthologous to human SF3B3 (splicing factor 3b subunit 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See sf3b3 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (18550418..18584839, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (18561352..18595773, complement)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene lon peptidase 2, peroxisomal Neighboring gene interleukin 34 Neighboring gene small nucleolar RNA SNORD111 Neighboring gene small nucleolar RNA SNORD111 Neighboring gene small nucleolar RNA SNORD111 Neighboring gene ST3 beta-galactoside alpha-2,3-sialyltransferase 2 Neighboring gene alanyl-tRNA synthetase 1

    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. Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition. Aanes H, et al. Genome Res, 2011 Aug. PMID 21555364, Free PMC Article
    2. Integrative view of α2,3-sialyltransferases (ST3Gal) molecular and functional evolution in deuterostomes: significance of lineage-specific losses. Petit D, et al. Mol Biol Evol, 2015 Apr. PMID 25534026, 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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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables U2 snRNA 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
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type precatalytic spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor 3B subunit 3

    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_213503.1 → NP_998668.1  splicing factor 3B subunit 3

      See identical proteins and their annotated locations for NP_998668.1

      Status: PROVISIONAL

      Source sequence(s)
      BC047171
      UniProtKB/Swiss-Prot
      Q1LVE8, Q802W7
      Related
      ENSDARP00000134109.1, ENSDART00000159274.2
      Conserved Domains (2) summary
      pfam03178
      Location:863 → 1182
      CPSF_A; CPSF A subunit region
      pfam10433
      Location:76 → 592
      MMS1_N; Mono-functional DNA-alkylating methyl methanesulfonate N-term

    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_007129.7 Reference GRCz11 Primary Assembly

      Range
      18550418..18584839 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q1LVE8.1 GenPept UniProtKB/Swiss-Prot:Q1LVE8

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.