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

Gene ID: 293671, updated on 28-Oct-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
EnsemblRapid: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. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP and spliceosomal complex. Human ortholog(s) of this gene implicated in Goldenhar syndrome. Orthologous to human SF3B2 (splicing factor 3b subunit 2). [provided by Alliance of Genome Resources, Oct 2024]
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 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 (12) 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, ENSRNOT00000068497.5
    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
    A6HZ38, D3ZMS1

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

    UniProtKB/TrEMBL
    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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