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    Sf3b2 splicing factor 3b, subunit 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293671, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Sf3b2provided by RGD
    Official Full Name
    splicing factor 3b, subunit 2provided by RGD
    Primary source
    RGD:1307159
    See related
    Ensembl:ENSRNOG00000020412 AllianceGenome:RGD:1307159
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    SAP145
    Summary
    Predicted to be involved in mRNA splicing, via spliceosome. Located in nucleus. Orthologous to human SF3B2 (splicing factor 3b subunit 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 315.4), Lung (RPKM 268.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sf3b2 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (211999777..212040686, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (202570423..202590774, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (220645685..220665611, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120099980 Neighboring gene phosphofurin acidic cluster sorting protein 1 Neighboring gene F11 receptor, pseudogene 1 Neighboring gene galactose-3-O-sulfotransferase 3 Neighboring gene cation channel, sperm associated 1 Neighboring gene cystatin E/M

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Proteomic characterization of protein phosphatase complexes of the mammalian nucleus. Tran HT, et al. Mol Cell Proteomics, 2004 Mar. PMID 14724321
    2. Molecular Architecture of SF3b and Structural Consequences of Its Cancer-Related Mutations. Cretu C, et al. Mol Cell, 2016 Oct 20. PMID 27720643
    3. Structure of the human activated spliceosome in three conformational states. Zhang X, et al. Cell Res, 2018 Mar. PMID 29360106, Free PMC Article
    4. Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex. Neubauer G, et al. Nat Genet, 1998 Sep. PMID 9731529
    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 (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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
    		  
    Component Evidence Code Pubs
    part_of U12-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of precatalytic spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor 3B 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_001106326.1 → NP_001099796.2  splicing factor 3B subunit 2

      See identical proteins and their annotated locations for NP_001099796.2

      Status: PROVISIONAL

      Source sequence(s)
      CH473953
      UniProtKB/TrEMBL
      A0A8I6A8Y6, A6HZ38, D3ZMS1
      Related
      ENSRNOP00000060335.3, ENSRNOT00000068497.4
      Conserved Domains (3) summary
      smart00581
      Location:584 → 642
      PSP; proline-rich domain in spliceosome associated proteins
      pfam02037
      Location:24 → 57
      SAP; SAP domain
      pfam04037
      Location:454 → 579
      DUF382; Domain of unknown function (DUF382)

    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_086019.1 Reference GRCr8

      Range
      211999777..212040686 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286842.1 → XP_063142912.1  splicing factor 3B subunit 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A8Y6, A6HZ38, D3ZMS1

    2. XM_063286841.1 → XP_063142911.1  splicing factor 3B subunit 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A8Y6, A6HZ38, D3ZMS1

    3. XM_008760105.4 → XP_008758327.2  splicing factor 3B subunit 2 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A8Y6
      Conserved Domains (3) summary
      COG5182
      Location:424 → 688
      CUS1; Splicing factor 3b, subunit 2 [RNA processing and modification]
      pfam02037
      Location:24 → 57
      SAP; SAP domain
      pfam04037
      Location:453 → 578
      DUF382; Domain of unknown function (DUF382)
    Nucleotide Protein Strain
    Heading Accession and Version

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