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    PTB2 polypyrimidine tract-binding protein 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835399, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PTB2
    Official Full Name
    polypyrimidine tract-binding protein 2
    Primary source
    TAIR:AT5G53180
    Locus tag
    AT5G53180
    See related
    Araport:AT5G53180
    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
    ATPTB2; MFH8.12; MFH8_12; polypyrimidine tract-binding protein 2; POLYPYRIMIDINE TRACT-BINDING PROTEIN 2
    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 PTB2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    11
    Sequence:
    Chromosome: 5; NC_003076.8 (21568131..21571904, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene regulatory components of ABA receptor 3 Neighboring gene FTSH protease 11 Neighboring gene Nodulin MtN3 family protein Neighboring gene Homeodomain-like superfamily 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. Positioning of pyrimidine motifs around cassette exons defines their PTB-dependent splicing in Arabidopsis. Burgardt R, et al. Plant J, 2024 Jun. PMID 38578875
    2. 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
    3. 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
    4. 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
    5. 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

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PTB2 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. [AtPTB2]
      Title: Involvement of polypyrimidine tract-binding protein (PTB)-related proteins in pollen germination in Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001085281.2
    NM_001345040.1
    NM_001345041.1
    NM_001345042.1
    NM_001345043.1
    NM_124697.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding HDA PubMed 
    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 
    involved_in 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 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
    polypyrimidine tract-binding protein 2
    NP_001078750.1
    • polypyrimidine tract-binding protein 2 (PTB2); 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: 31 plant structures; EXPRESSED DURING: 16 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 1 (TAIR:AT3G01150.1); Has 1611 Blast hits to 972 proteins in 138 species: Archae - 0; Bacteria - 10; Metazoa - 1107; Fungi - 42; Plants - 324; Viruses - 0; Other Eukaryotes - 128 (source: NCBI BLink).
    NP_200130.1
    • polypyrimidine tract-binding protein 2 (PTB2); 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: 31 plant structures; EXPRESSED DURING: 16 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 1 (TAIR:AT3G01150.1); 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).

    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
      21568131..21571904 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001085281.2 → NP_001078750.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078750.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UNW6, Q0WQ48
      Conserved Domains (2) summary
      cd12690
      Location:143 → 239
      RRM3_PTBPH1_PTBPH2; RNA recognition motif 3 in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cl17169
      Location:33 → 104
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_124697.5 → NP_200130.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_200130.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9FGL9
      UniProtKB/TrEMBL
      A0A5S9YE94, A0A654GB15
      Conserved Domains (3) summary
      cd12691
      Location:110 → 204
      RRM2_PTBPH1_PTBPH2; RNA recognition motif 2 (RRM2) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12686
      Location:16 → 96
      RRM1_PTBPH1_PTBPH2; RNA recognition motif 1 (RRM1) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cd12690
      Location:243 → 339
      RRM3_PTBPH1_PTBPH2; RNA recognition motif 3 (RRM3) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)

    3. NM_001345040.1 → NP_001332166.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UNW6, A0A1P8BG32

    4. NM_001345041.1 → NP_001332168.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UNW6, A0A1P8BG61
      Conserved Domains (2) summary
      cd12690
      Location:144 → 240
      RRM3_PTBPH1_PTBPH2; RNA recognition motif 3 (RRM3) found in plant polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2)
      cl17169
      Location:34 → 105
      RRM_SF; RNA recognition motif (RRM) superfamily

    5. NM_001345042.1 → NP_001332167.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BG46

    6. NM_001345043.1 → NP_001332169.1  polypyrimidine tract-binding protein 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UNW6, A0A1P8BG29
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FGL9.1

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