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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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