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    U2af1l4 U2 small nuclear RNA auxiliary factor 1-like 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361542, updated on 28-Oct-2024

    Summary

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    Official Symbol
    U2af1l4provided by RGD
    Official Full Name
    U2 small nuclear RNA auxiliary factor 1-like 4provided by RGD
    Primary source
    RGD:1305600
    See related
    EnsemblRapid:ENSRNOG00000024497 AllianceGenome:RGD:1305600
    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 pre-mRNA 3'-splice site binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in cytoplasm and nuclear speck. Predicted to be part of U2AF complex and spliceosomal complex. Orthologous to human U2AF1L4 (U2 small nuclear RNA auxiliary factor 1 like 4). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Heart (RPKM 126.3), Brain (RPKM 111.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See U2af1l4 in Genome Data Viewer
    Location:
    1q21
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (94943684..94945906)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (85816268..85818462)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (89017414..89019651)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene heat shock protein family B (small) member 6 Neighboring gene lin-37 DREAM MuvB core complex component Neighboring gene presenilin enhancer gamma secretase subunit Neighboring gene IGF-like family receptor 1 Neighboring gene lysine methyltransferase 2B Neighboring gene microRNA 3569 Neighboring gene zinc finger and BTB domain containing 32

    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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    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 RNA binding IEA
    Inferred from Electronic Annotation
    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 mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of U2AF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2AF complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor U2AF 26 kDa subunit
    Names
    Cb2-807
    U2 auxiliary factor 26
    U2 small nuclear RNA auxiliary factor 1-like protein 4
    U2AF1-like 4
    liver regeneration-related protein LRRG157/LRRG158

    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_001008775.2 → NP_001008775.1  splicing factor U2AF 26 kDa subunit

      See identical proteins and their annotated locations for NP_001008775.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q7TP17, Q7TP18
      UniProtKB/TrEMBL
      A0A8I5ZTD8, A6J9Z2
      Related
      ENSRNOP00000082091.1, ENSRNOT00000118586.2
      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)

    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
      94943684..94945906
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081940.2 → XP_038937868.1  splicing factor U2AF 26 kDa subunit isoform X4

      Conserved Domains (2) summary
      pfam00642
      Location:13 → 39
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:43 → 113
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_039081930.2 → XP_038937858.1  splicing factor U2AF 26 kDa subunit isoform X2

      UniProtKB/TrEMBL
      A0A8I6A441, A6J9Z3
      Related
      ENSRNOP00000086667.1, ENSRNOT00000098092.2
      Conserved Domains (2) summary
      pfam00642
      Location:13 → 39
      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)

    3. XM_039081934.2 → XP_038937862.1  splicing factor U2AF 26 kDa subunit isoform X3

      UniProtKB/TrEMBL
      A0A8I6A4P9
      Related
      ENSRNOP00000095413.2, ENSRNOT00000116214.2
      Conserved Domains (2) summary
      pfam00642
      Location:116 → 142
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:43 → 113
      RRM_SF; RNA recognition motif (RRM) superfamily

    4. XM_006228777.4 → XP_006228839.1  splicing factor U2AF 26 kDa subunit isoform X1

      Conserved Domains (2) summary
      pfam00642
      Location:127 → 153
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cd12538
      Location:21 → 124
      RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TP17.1 GenPept UniProtKB/Swiss-Prot:Q7TP17

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