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    ATU2AF65A U2 snRNP auxilliary factor, large subunit, splicing factor [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829822, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ATU2AF65A
    Official Full Name
    U2 snRNP auxilliary factor, large subunit, splicing factor
    Primary source
    TAIR:AT4G36690
    Locus tag
    AT4G36690
    See related
    Araport:AT4G36690
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    AP22.29; AP22_29
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    Genomic context

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    See ATU2AF65A in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    12
    Sequence:
    Chromosome: 4; NC_003075.7 (17293938..17297761, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Major facilitator superfamily protein Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein Neighboring gene RmlC-like cupins superfamily protein Neighboring gene GRAS family transcription factor

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants. Domon C, et al. J Biol Chem, 1998 Dec 18. PMID 9852132
    2. The conserved splicing factor SUA controls alternative splicing of the developmental regulator ABI3 in Arabidopsis. Sugliani M, et al. Plant Cell, 2010 Jun. PMID 20525852, Free PMC Article
    3. A homolog of splicing factor SF1 is essential for development and is involved in the alternative splicing of pre-mRNA in Arabidopsis thaliana. Jang YH, et al. Plant J, 2014 May. PMID 24580679
    4. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms. Park HY, et al. Plant Cell Rep, 2017 Jul. PMID 28432478
    5. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms
      Title: The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001204008.1
    NM_119833.4
    NM_179178.3
    NM_202966.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    U2 snRNP auxilliary factor, large subunit, splicing factor
    NP_001190937.1
    • ATU2AF65A; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 snRNP auxilliary factor, large subunit, splicing factor (InterPro:IPR006529); BEST Arabidopsis thaliana protein match is: U2 snRNP auxilliary factor, large subunit, splicing factor (TAIR:AT1G60900.1).
    NP_195387.1
    • ATU2AF65A; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, defense response to bacterium; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 snRNP auxilliary factor, large subunit, splicing factor (InterPro:IPR006529); BEST Arabidopsis thaliana protein match is: U2 snRNP auxilliary factor, large subunit, splicing factor (TAIR:AT1G60900.1); Has 66106 Blast hits to 34639 proteins in 1663 species: Archae - 71; Bacteria - 4965; Metazoa - 34951; Fungi - 7331; Plants - 6616; Viruses - 285; Other Eukaryotes - 11887 (source: NCBI BLink).
    NP_849509.1
    • ATU2AF65A; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, defense response to bacterium; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 snRNP auxilliary factor, large subunit, splicing factor (InterPro:IPR006529); BEST Arabidopsis thaliana protein match is: U2 snRNP auxilliary factor, large subunit, splicing factor (TAIR:AT1G60900.1); Has 65300 Blast hits to 34004 proteins in 1640 species: Archae - 71; Bacteria - 4901; Metazoa - 34634; Fungi - 7219; Plants - 6371; Viruses - 283; Other Eukaryotes - 11821 (source: NCBI BLink).
    NP_974695.1
    • ATU2AF65A; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, defense response to bacterium; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 snRNP auxilliary factor, large subunit, splicing factor (InterPro:IPR006529); BEST Arabidopsis thaliana protein match is: U2 snRNP auxilliary factor, large subunit, splicing factor (TAIR:AT1G60900.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003075.7 Reference assembly

      Range
      17293938..17297761 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_202966.4 → NP_974695.1  U2 snRNP auxilliary factor, large subunit, splicing factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974695.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UXU1, B9DG58
      Conserved Domains (1) summary
      TIGR01642
      Location:31 → 505
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor

    2. NM_179178.3 → NP_849509.1  U2 snRNP auxilliary factor, large subunit, splicing factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_849509.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UVY6, A0A654FW70
      Conserved Domains (4) summary
      cd12230
      Location:238 → 320
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:359 → 435
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:471 → 507
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      pfam12871
      Location:19 → 107
      PRP38_assoc; Pre-mRNA-splicing factor 38-associated hydrophilic C-term

    3. NM_001204008.1 → NP_001190937.1  U2 snRNP auxilliary factor, large subunit, splicing factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190937.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654FW70, F4JQG2
      Conserved Domains (5) summary
      cd12230
      Location:216 → 298
      RRM1_U2AF65; RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12231
      Location:337 → 413
      RRM2_U2AF65; RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      cd12232
      Location:449 → 537
      RRM3_U2AF65; RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins
      TIGR01642
      Location:38 → 549
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
      pfam12871
      Location:19 → 106
      PRP38_assoc; Pre-mRNA-splicing factor 38-associated hydrophilic C-term

    4. NM_119833.4 → NP_195387.1  U2 snRNP auxilliary factor, large subunit, splicing factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_195387.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O23212, Q3E9P9, Q8RXR7
      UniProtKB/TrEMBL
      A0A178UYD2, A0A5S9XZK7, A0A654FW70
      Conserved Domains (1) summary
      TIGR01642
      Location:31 → 571
      U2AF_lg; U2 snRNP auxilliary factor, large subunit, splicing factor
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O23212.2

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