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    ATU2AF35A U2 snRNP auxiliary factor small subunit [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 839657, updated on 7-Sep-2023

    Summary

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    Gene symbol
    ATU2AF35A
    Gene description
    U2 snRNP auxiliary factor small subunit
    Primary source
    Araport:AT1G27650
    Locus tag
    AT1G27650
    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
    T22C5.30
    Summary
    U2 auxiliary factor small subunit. The atU2AF35a protein and its homolog, atU2AF35b, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.
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    Genomic context

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    Location:
    chromosome: 1
    Exon count:
    2
    Sequence:
    Chromosome: 1; NC_003070.9 (9614551..9616574)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene HXXXD-type acyl-transferase family protein Neighboring gene cyclin T 1;3 Neighboring gene uncharacterized protein Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Molecular characterization and phylogeny of U2AF35 homologs in plants. Wang BB, et al. Plant Physiol, 2006 Feb. PMID 16407443, Free PMC Article
    2. The Arabidopsis splicing factors, AtU2AF65, AtU2AF35, and AtSF1 shuttle between nuclei and cytoplasms. Park HY, et al. Plant Cell Rep, 2017 Jul. PMID 28432478
    3. Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing. Day IS, et al. Plant J, 2012 Sep. PMID 22563826
    4. MAPK target networks in Arabidopsis thaliana revealed using functional protein microarrays. Popescu SC, et al. Genes Dev, 2009 Jan 1. PMID 19095804, Free PMC Article
    5. Extensive signal integration by the phytohormone protein network. Altmann M, et al. Nature, 2020 Jul. PMID 32612234

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001084140.1
    NM_102530.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within photoperiodism, flowering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of U2AF complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    U2 snRNP auxiliary factor small subunit
    NP_001077609.1
    • ATU2AF35A; FUNCTIONS IN: RNA binding, nucleotide binding, zinc ion binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: Zinc finger C-x8-C-x5-C-x3-H type family protein (TAIR:AT5G42820.1); Has 5086 Blast hits to 4097 proteins in 292 species: Archae - 0; Bacteria - 77; Metazoa - 3138; Fungi - 590; Plants - 568; Viruses - 11; Other Eukaryotes - 702 (source: NCBI BLink).
    NP_174086.1
    • ATU2AF35A; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), RNA recognition, domain 1 (InterPro:IPR003954), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: Zinc finger C-x8-C-x5-C-x3-H type family protein (TAIR:AT5G42820.1); Has 5134 Blast hits to 4149 proteins in 301 species: Archae - 0; Bacteria - 77; Metazoa - 3143; Fungi - 618; Plants - 577; Viruses - 15; Other Eukaryotes - 704 (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_003070.9 Reference assembly

      Range
      9614551..9616574
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_102530.3 → NP_174086.1  U2 snRNP auxiliary factor small subunit [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_174086.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q945S1, Q9S709
      UniProtKB/TrEMBL
      A0A178W2Y4, A0A5S9W351
      Conserved Domains (3) summary
      smart00356
      Location:148 → 174
      ZnF_C3H1; zinc finger
      pfam00642
      Location:13 → 39
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cd12539
      Location:44 → 145
      RRM_U2AF35B; RNA recognition motif (RRM) found in splicing factor U2AF 35 kDa subunit B (U2AF35B)

    2. NM_001084140.1 → NP_001077609.1  U2 snRNP auxiliary factor small subunit [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001077609.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A8MRI1
      Conserved Domains (2) summary
      smart00356
      Location:98 → 124
      ZnF_C3H1; zinc finger
      cl17169
      Location:1 → 95
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9S709.1

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