U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    UBP1B oligouridylate binding protein 1B [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 838309, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    UBP1B
    Official Full Name
    oligouridylate binding protein 1B
    Primary source
    TAIR:AT1G17370
    Locus tag
    AT1G17370
    See related
    Araport:AT1G17370
    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
    F28G4.17; oligouridylate binding protein 1B
    Summary
    Encodes an RNA#Aeibinding protein involved in stress granule formation. Regulated by a transposable element small RNA.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See UBP1B in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Sequence:
    Chromosome: 1; NC_003070.9 (5951542..5955143, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene NADH:ubiquinone oxidoreductase intermediate-associated protein 30 Neighboring gene LOW protein: protein phosphatase 1 regulatory subunit-like protein Neighboring gene ncRNA Neighboring gene jasmonate-zim-domain protein 5 Neighboring gene pseudo

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. UBA1 and UBA2, two proteins that interact with UBP1, a multifunctional effector of pre-mRNA maturation in plants. Lambermon MH, et al. Mol Cell Biol, 2002 Jun. PMID 12024044, Free PMC Article
    2. In Planta Determination of the mRNA-Binding Proteome of Arabidopsis Etiolated Seedlings. Reichel M, et al. Plant Cell, 2016 Oct. PMID 27729395, Free PMC Article
    3. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. Ito J, et al. J Proteome Res, 2011 Apr 1. PMID 21166475
    4. Mapping the signaling network of BIN2 kinase using TurboID-mediated biotin labeling and phosphoproteomics. Kim TW, et al. Plant Cell, 2023 Mar 15. PMID 36660928, Free PMC Article
    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 (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    NM_001123829.1
    NM_101598.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    NOT located_in cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    oligouridylate binding protein 1B
    NP_001117301.1
    • oligouridylate binding protein 1B (UBP1B); FUNCTIONS IN: mRNA 3'-UTR binding; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein (TAIR:AT3G14100.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_564018.1
    • oligouridylate binding protein 1B (UBP1B); FUNCTIONS IN: mRNA 3'-UTR binding; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein (TAIR:AT3G14100.1); Has 681 Blast hits to 681 proteins in 21 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 681; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      5951542..5955143 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_101598.3 → NP_564018.1  oligouridylate binding protein 1B [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_564018.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LNS1, Q9LQI9
      UniProtKB/TrEMBL
      A0A178WA94, A0A5S9UUW5, A0A654EFP5
      Conserved Domains (3) summary
      cd12614
      Location:56 → 126
      RRM1_PUB1; RNA recognition motif 1 (RRM1) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
      cd12619
      Location:138 → 217
      RRM2_PUB1; RNA recognition motif 2 (RRM2) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
      cd12622
      Location:260 → 336
      RRM3_PUB1; RNA recognition motif 3 (RRM3) found in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

    2. NM_001123829.1 → NP_001117301.1  oligouridylate binding protein 1B [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001117301.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WA94, B3H4Q3
      Conserved Domains (4) summary
      cd12352
      Location:56 → 126
      RRM1_TIA1_like; RNA recognition motif 1 in granule-associated RNA binding proteins p40-TIA-1 and TIAR
      cd12354
      Location:257 → 332
      RRM3_TIA1_like; RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1
      cd12619
      Location:140 → 214
      RRM2_PUB1; RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins
      TIGR01661
      Location:65 → 328
      ELAV_HUD_SF; ELAV/HuD family splicing factor
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LQI9.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools