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    PTB1 polypyrimidine tract-binding protein 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 821129, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PTB1
    Official Full Name
    polypyrimidine tract-binding protein 1
    Primary source
    TAIR:AT3G01150
    Locus tag
    AT3G01150
    See related
    Araport:AT3G01150
    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
    ATPTB1; POLYPYRIMIDINE TRACT-BINDING; polypyrimidine tract-binding protein 1; POLYPYRIMIDINE TRACT-BINDING PROTEIN 1; PTB; T4P13.16; T4P13_16
    Summary
    Encodes one of the two polypyrimidine tract-binding (PTB) protein homologs in the Arabidopsis genome. Double mutants have defects in pollen germination.
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    Genomic context

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    See PTB1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    10
    Sequence:
    Chromosome: 3; NC_003074.8 (51496..54544)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene myb domain protein 106 Neighboring gene ncRNA Neighboring gene pre-rRNA-processing ESF1-like protein Neighboring gene Ribosomal protein L34e superfamily protein Neighboring gene uncharacterized protein Neighboring gene starch synthase 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Arabidopsis PTB1 and PTB2 proteins negatively regulate splicing of a mini-exon splicing reporter and affect alternative splicing of endogenous genes differentially. Simpson CG, et al. New Phytol, 2014 Jul. PMID 24749484
    2. Involvement of polypyrimidine tract-binding protein (PTB)-related proteins in pollen germination in Arabidopsis. Wang S, et al. Plant Cell Physiol, 2009 Feb. PMID 19122186
    3. Polypyrimidine tract binding protein homologs from Arabidopsis are key regulators of alternative splicing with implications in fundamental developmental processes. Rühl C, et al. Plant Cell, 2012 Nov. PMID 23192226, Free PMC Article
    4. Polypyrimidine tract-binding protein homologues from Arabidopsis underlie regulatory circuits based on alternative splicing and downstream control. Stauffer E, et al. Plant J, 2010 Oct. PMID 20735772
    5. High-throughput protein localization in Arabidopsis using Agrobacterium-mediated transient expression of GFP-ORF fusions. Koroleva OA, et al. Plant J, 2005 Jan. PMID 15610358

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PTB1 is a splicing factor that influences alternative splicing and acts at the polypyrimidine tract.
      Title: Arabidopsis PTB1 and PTB2 proteins negatively regulate splicing of a mini-exon splicing reporter and affect alternative splicing of endogenous genes differentially.
    2. Alternative splicing (AS) patterns as well as the expression of key flowering regulators were massively changed in a PTB1/2 level-dependent manner.
      Title: Polypyrimidine tract binding protein homologs from Arabidopsis are key regulators of alternative splicing with implications in fundamental developmental processes.
    3. AtPTB1 and AtPTB2 are widely expressed in almost all tissues, with the highest expression levels in late-maturing and mature pollen grains, and are crucial for pollen germination. [AtPTB1]
      Title: Involvement of polypyrimidine tract-binding protein (PTB)-related proteins in pollen germination in Arabidopsis.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    NM_001337323.1
    NM_001337324.1
    NM_001337325.1
    NM_110980.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within pollen germination IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of RNA splicing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of translation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within seed germination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm HDA PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus HDA 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
    polypyrimidine tract-binding protein 1
    NP_001319439.1
    • POLYPYRIMIDINE TRACT-BINDING (PTB); FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: pollen germination, regulation of RNA splicing, regulation of translation; LOCATED IN: nucleus, cytoplasmic mRNA processing body, cytoplasm; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 14 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: polypyrimidine tract-binding protein 2 (TAIR:AT5G53180.1); 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_186764.1
    • polypyrimidine tract-binding protein 1 (PTB1); FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: pollen germination, regulation of RNA splicing, regulation of translation; LOCATED IN: nucleus, cytoplasmic mRNA processing body, cytoplasm; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 14 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: polypyrimidine tract-binding protein 2 (TAIR:AT5G53180.1); Has 1792 Blast hits to 964 proteins in 150 species: Archae - 0; Bacteria - 0; Metazoa - 1278; Fungi - 41; Plants - 303; Viruses - 0; Other Eukaryotes - 170 (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_003074.8 Reference assembly

      Range
      51496..54544
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001337323.1 → NP_001319439.1  polypyrimidine tract-binding protein 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      B3H7H5

    2. NM_110980.4 → NP_186764.1  polypyrimidine tract-binding protein 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_186764.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O82472, Q9MAC5
      UniProtKB/TrEMBL
      A0A178VNW1, A0A384LJ51, A0A7G2EHH2, B9DFT7
      Conserved Domains (3) summary
      cd12691
      Location:109 → 203
      RRM2_PTBPH1_PTBPH2; RNA recognition motif 2 (RRM2) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12686
      Location:15 → 95
      RRM1_PTBPH1_PTBPH2; RNA recognition motif 1 (RRM1) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12690
      Location:242 → 338
      RRM3_PTBPH1_PTBPH2; RNA recognition motif 3 (RRM3) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)

    3. NM_001337324.1 → NP_001327637.1  polypyrimidine tract-binding protein 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LSX9
      Conserved Domains (2) summary
      cd12691
      Location:109 → 203
      RRM2_PTBPH1_PTBPH2; RNA recognition motif 2 (RRM2) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      TIGR01649
      Location:15 → 309
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

    4. NM_001337325.1 → NP_001327636.1  polypyrimidine tract-binding protein 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8RWB0
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9MAC5.1

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