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

Gene ID: 406824, updated on 17-Aug-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, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 18
Exon count:
27
Annotation release Status Assembly Chr Location
106 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 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 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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

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