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    Sf3a1 splicing factor 3A subunit 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305479, updated on 28-Oct-2024

    Summary

    Official Symbol
    Sf3a1provided by RGD
    Official Full Name
    splicing factor 3A subunit 1provided by RGD
    Primary source
    RGD:1311477
    See related
    EnsemblRapid:ENSRNOG00000005218 AllianceGenome:RGD:1311477
    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
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in U2-type prespliceosome assembly. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP and spliceosomal complex. Orthologous to human SF3A1 (splicing factor 3a subunit 1). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Thymus (RPKM 143.8), Kidney (RPKM 100.7) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Sf3a1 in Genome Data Viewer
    Location:
    14q21
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (83254971..83275720)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (79031394..79052144)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (84393182..84413931)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene ring finger protein 215 Neighboring gene uncharacterized LOC134481866 Neighboring gene coiled-coil domain containing 157 Neighboring gene TBC1 domain family, member 10a Neighboring gene cytosolic arginine sensor for mTORC1 subunit 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in U2-type prespliceosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA cis splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U2 snRNP ISO
    Inferred from Sequence Orthology
    more info
     
    part_of U2-type precatalytic spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    part_of U2-type prespliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U2-type prespliceosome 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 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 ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    splicing factor 3A subunit 1

    NCBI Reference Sequences (RefSeq)

    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_001107235.1NP_001100705.1  splicing factor 3A subunit 1

      See identical proteins and their annotated locations for NP_001100705.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473963
      UniProtKB/TrEMBL
      A6IKF2, D3ZQM0
      Related
      ENSRNOP00000008355.4, ENSRNOT00000008355.7
      Conserved Domains (5) summary
      cd01800
      Location:716791
      SF3a120_C; Ubiquitin-like domain of Mammalian splicing factor SF3a_120
      smart00648
      Location:50103
      SWAP; Suppressor-of-White-APricot splicing regulator
      smart00213
      Location:716784
      UBQ; Ubiquitin homologues
      pfam01805
      Location:165215
      Surp; Surp module
      pfam12230
      Location:229469
      PRP21_like_P; Pre-mRNA splicing factor PRP21 like protein

    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_086032.1 Reference GRCr8

      Range
      83254971..83275720
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)