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sf3a2 splicing factor 3a, subunit 2 [ Danio rerio (zebrafish) ]

Gene ID: 394018, updated on 27-Mar-2024

Summary

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Official Symbol
sf3a2provided by ZNC
Official Full Name
splicing factor 3a, subunit 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-897
See related
Ensembl:ENSDARG00000021107 AllianceGenome:ZFIN:ZDB-GENE-040426-897
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:56097; zgc:77448
Summary
Predicted to enable nucleic acid binding activity and zinc ion binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U2 snRNP; U2-type prespliceosome; and catalytic step 2 spliceosome. Orthologous to human SF3A2 (splicing factor 3a subunit 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 2
Exon count:
8
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (57825431..57837848, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (57710668..57723085, complement)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 3 Neighboring gene uncharacterized LOC108179272 Neighboring gene pleckstrin homology domain containing, family J member 1 Neighboring gene tubulin polyglutamylase complex subunit 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. Two independent transcription initiation codes overlap on vertebrate core promoters. Haberle V, et al. Nature, 2014 Mar 20. PMID 24531765, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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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Homology

Clone Names

  • MGC56097

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion 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 spliceosomal complex assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of U2 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type prespliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
splicing factor 3A subunit 2

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_201043.2 → NP_957337.1  splicing factor 3A subunit 2

    See identical proteins and their annotated locations for NP_957337.1

    Status: VALIDATED

    Source sequence(s)
    BX324113, EH523364, EH542271
    UniProtKB/TrEMBL
    B2GSJ7, Q7ZVD4
    Related
    ENSDARP00000003884.5, ENSDART00000010699.6
    Conserved Domains (3) summary
    smart00451
    Location:52 → 85
    ZnF_U1; U1-like zinc finger
    COG5246
    Location:1 → 216
    PRP11; Splicing factor 3a, subunit 2 [RNA processing and modification]
    pfam16835
    Location:128 → 206
    SF3A2; Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    57825431..57837848 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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