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    U2af1 U2 small nuclear RNA auxiliary factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 687575, updated on 9-Dec-2024

    Summary

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    Official Symbol
    U2af1provided by RGD
    Official Full Name
    U2 small nuclear RNA auxiliary factor 1provided by RGD
    Primary source
    RGD:1584190
    See related
    EnsemblRapid:ENSRNOG00000045860 AllianceGenome:RGD:1584190
    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 RS domain binding activity and pre-mRNA 3'-splice site binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nuclear speck. Predicted to be part of U2AF complex and catalytic step 2 spliceosome. Orthologous to human U2AF1 (U2 small nuclear RNA auxiliary factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 235.9), Spleen (RPKM 179.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See U2af1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (9744206..9755146, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (9742904..9753840, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (10396652..10407564, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene PBX/knotted 1 homeobox 1 Neighboring gene cystathionine beta synthase Neighboring gene crystallin, alpha A Neighboring gene uncharacterized LOC103694395

    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. Identification, purification, and biochemical characterization of U2 small nuclear ribonucleoprotein auxiliary factor. Zamore PD, et al. Proc Natl Acad Sci U S A, 1989 Dec. PMID 2531895, Free PMC Article
    2. Biochemical characterization of U2 snRNP auxiliary factor: an essential pre-mRNA splicing factor with a novel intranuclear distribution. Zamore PD, et al. EMBO J, 1991 Jan. PMID 1824937, Free PMC Article
    3. PHF5A represents a bridge protein between splicing proteins and ATP-dependent helicases and is differentially expressed during mouse spermatogenesis. Rzymski T, et al. Cytogenet Genome Res, 2008. PMID 18758164
    4. A novel SR-related protein is required for the second step of Pre-mRNA splicing. Cazalla D, et al. Mol Cell Biol, 2005 Apr. PMID 15798186, Free PMC Article
    5. The spliceosome: design principles of a dynamic RNP machine. Wahl MC, et al. Cell, 2009 Feb 20. PMID 19239890

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RS domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables pre-mRNA 3'-splice site binding IBA
    Inferred from Biological aspect of Ancestor
    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
    		  
    Component Evidence Code Pubs
    part_of U2AF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2AF complex ISO
    Inferred from Sequence Orthology
    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
    		  
    part_of spliceosomal complex 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 U2AF 35 kDa subunit

    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_001044291.1 → NP_001037756.1  splicing factor U2AF 35 kDa subunit

      See identical proteins and their annotated locations for NP_001037756.1

      Status: PROVISIONAL

      Source sequence(s)
      BC105905
      UniProtKB/TrEMBL
      M0RBR0, Q3KR55
      Related
      ENSRNOP00000067005.1, ENSRNOT00000074081.4
      Conserved Domains (2) summary
      pfam00642
      Location:149 → 175
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cd12538
      Location:43 → 146
      RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

    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_086038.1 Reference GRCr8

      Range
      9744206..9755146 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006256228.5 → XP_006256290.1  splicing factor U2AF 35 kDa subunit isoform X1

      See identical proteins and their annotated locations for XP_006256290.1

      UniProtKB/TrEMBL
      A6JK09
      Related
      ENSRNOP00000086374.2, ENSRNOT00000100283.2
      Conserved Domains (2) summary
      pfam00642
      Location:149 → 175
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cd12538
      Location:43 → 146
      RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

    2. XM_063279519.1 → XP_063135589.1  splicing factor U2AF 35 kDa subunit isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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