U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Sf3b3 splicing factor 3b, subunit 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292019, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sf3b3provided by RGD
    Official Full Name
    splicing factor 3b, subunit 3provided by RGD
    Primary source
    RGD:1311636
    See related
    EnsemblRapid:ENSRNOG00000017724 AllianceGenome:RGD:1311636
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable U2 snRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and negative regulation of protein catabolic process. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of U2 snRNP and spliceosomal complex. Predicted to be active in nucleus. Orthologous to human SF3B3 (splicing factor 3b subunit 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 362.8), Spleen (RPKM 321.4) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sf3b3 in Genome Data Viewer
    Location:
    19q12
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (55692124..55729640, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (38782749..38820271, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (43392071..43429582)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483366 Neighboring gene interleukin 34 Neighboring gene ribosomal protein L29 like 3 Neighboring gene 60S ribosomal protein L7a pseudogene Neighboring gene microRNA 3084a Neighboring gene small nucleolar RNA, C/D box 111 Neighboring gene small nucleolar RNA, C/D box 111B Neighboring gene component of oligomeric golgi complex 4 Neighboring gene fucose kinase Neighboring gene uncharacterized LOC134483368

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Regulation of Cullin-RING ubiquitin ligase 1 by Spliceosome-associated protein 130 (SAP130). Cordero-Espinoza L, et al. Biol Open, 2013 Aug 15. PMID 23951410, Free PMC Article
    2. Splicing modulators act at the branch point adenosine binding pocket defined by the PHF5A-SF3b complex. Teng T, et al. Nat Commun, 2017 May 25. PMID 28541300, Free PMC Article
    3. Molecular Architecture of SF3b and Structural Consequences of Its Cancer-Related Mutations. Cretu C, et al. Mol Cell, 2016 Oct 20. PMID 27720643
    4. Structure of the human activated spliceosome in three conformational states. Zhang X, et al. Cell Res, 2018 Mar. PMID 29360106, Free PMC Article
    5. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, et al. Nucleic Acids Res, 2007. PMID 17537823, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables U2 snRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U12-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type precatalytic spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    splicing factor 3B subunit 3

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001106187.2 → NP_001099657.2  splicing factor 3B subunit 3

      See identical proteins and their annotated locations for NP_001099657.2

      Status: VALIDATED

      Source sequence(s)
      BC168883, CA505966, CA512836, CB706187, CB767922, FM083013
      UniProtKB/TrEMBL
      E9PT66
      Related
      ENSRNOP00000023854.6, ENSRNOT00000023854.8
      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_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086037.1 Reference GRCr8

      Range
      55692124..55729640 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006255620.5 → XP_006255682.1  splicing factor 3B subunit 3 isoform X1

      See identical proteins and their annotated locations for XP_006255682.1

      UniProtKB/TrEMBL
      E9PT66
      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

    2. XM_063277936.1 → XP_063134006.1  splicing factor 3B subunit 3 isoform X1

      UniProtKB/TrEMBL
      E9PT66
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous