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    U2AF35B Zinc finger C-x8-C-x5-C-x3-H type family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 834293, updated on 18-Sep-2024

    Summary

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    Official Symbol
    U2AF35B
    Official Full Name
    Zinc finger C-x8-C-x5-C-x3-H type family protein
    Primary source
    TAIR:AT5G42820
    Locus tag
    AT5G42820
    See related
    Araport:AT5G42820
    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
    ATU2AF35B; MJB21.20; MJB21_20
    Summary
    U2 auxiliary factor small subunit. The atU2AF35b protein and its homolog, atU2AF35a, 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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    See U2AF35B in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    3
    Sequence:
    Chromosome: 5; NC_003076.8 (17169283..17172787, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene low-molecular-weight cysteine-rich 28 Neighboring gene dihydroflavonol 4-reductase Neighboring gene inositol-pentakisphosphate 2-kinase 1 Neighboring gene ncRNA Neighboring gene uncharacterized protein Neighboring gene HXXXD-type acyl-transferase family protein Neighboring gene Cysteine/Histidine-rich C1 domain family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    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. Plant-specific SR-related protein atSR45a interacts with spliceosomal proteins in plant nucleus. Tanabe N, et al. Plant Mol Biol, 2009 Jun. PMID 19238562
    5. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article

    See all (7) 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.
    2. SR45 recruits U1snRNP and U2AF to 5' and 3' splice sites, respectively, by interacting with pre-mRNA, U1-70K and U2AF(35) and modulates alternative splicing (AS).
      Title: Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    NM_123647.3
    NM_203141.2

    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 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
    Zinc finger C-x8-C-x5-C-x3-H type family protein
    NP_199096.1
    • U2AF35B; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 28 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: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).
    NP_974870.1
    • U2AF35B; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 28 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: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); 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_003076.8 Reference assembly

      Range
      17169283..17172787 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_203141.2 → NP_974870.1  Zinc finger C-x8-C-x5-C-x3-H type family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974870.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q945S0, Q9FMY5
      UniProtKB/TrEMBL
      A0A178UM74, A0A5S9YAE5
      Conserved Domains (4) summary
      smart00356
      Location:148 → 174
      ZnF_C3H1; zinc finger
      TIGR01622
      Location:212 → 279
      SF-CC1; splicing factor, CC1-like family
      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_123647.3 → NP_199096.1  Zinc finger C-x8-C-x5-C-x3-H type family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_199096.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q945S0, Q9FMY5
      UniProtKB/TrEMBL
      A0A178UM74, A0A5S9YAE5
      Conserved Domains (4) summary
      smart00356
      Location:148 → 174
      ZnF_C3H1; zinc finger
      TIGR01622
      Location:212 → 279
      SF-CC1; splicing factor, CC1-like family
      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)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FMY5.1

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