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    Ptbp1 polypyrimidine tract binding protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29497, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ptbp1provided by RGD
    Official Full Name
    polypyrimidine tract binding protein 1provided by RGD
    Primary source
    RGD:62047
    See related
    EnsemblRapid:ENSRNOG00000010448 AllianceGenome:RGD:62047
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Ptb; PTB1; Pybp; Pybp1; Pybp2
    Summary
    Enables nucleic acid binding activity and single-stranded DNA endodeoxyribonuclease activity. Involved in several processes, including positive regulation of cellular component organization; positive regulation of insulin secretion; and regulation of gene expression. Located in neuron projection terminus. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 487.5), Kidney (RPKM 337.5) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ptbp1 in Genome Data Viewer
    Location:
    7q11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (10493199..10502957, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (9842574..9852332, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (12663965..12673723, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene elastase, neutrophil expressed Neighboring gene proteinase 3 Neighboring gene phospholipid phosphatase related 3 Neighboring gene uncharacterized LOC134479815 Neighboring gene uncharacterized LOC134479814 Neighboring gene mitotic spindle positioning

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables pre-mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables regulatory region RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables single-stranded DNA endodeoxyribonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in 3'-UTR-mediated mRNA stabilization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in DNA metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in IRES-dependent viral translational initiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cardiac ventricle development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_negative_effect gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of RNA splicing ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of muscle cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neurogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in nuclear-transcribed mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of calcineurin-NFAT signaling cascade ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of insulin secretion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of secretory granule organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of alternative mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in neuron projection terminus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    polypyrimidine tract-binding protein 1
    Names
    heterogeneous nuclear ribonucleoprotein I
    hnRNP I
    pyrimidine binding protein 1
    pyrimidine binding protein 2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001271057.1NP_001257986.1  polypyrimidine tract-binding protein 1 isoform a

      See identical proteins and their annotated locations for NP_001257986.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform a).
      Source sequence(s)
      BC061858, CB772933
      UniProtKB/Swiss-Prot
      F1LM18, Q00438, Q63568, Q6P736
      UniProtKB/TrEMBL
      A0A8J8YFZ4
      Related
      ENSRNOP00000043256.6, ENSRNOT00000044865.9
      Conserved Domains (1) summary
      TIGR01649
      Location:56556
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    2. NM_022516.5NP_071961.2  polypyrimidine tract-binding protein 1 isoform b

      See identical proteins and their annotated locations for NP_071961.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a coding exon compared to variant 1. The resulting protein (isoform b) is shorter but has the same N- and C-termini compared to isoform a.
      Source sequence(s)
      BC061858, CB772933, CK365398, FN803753
      UniProtKB/TrEMBL
      A6K8W5, D3ZB30
      Conserved Domains (1) summary
      TIGR01649
      Location:56530
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      10493199..10502957 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039078590.2XP_038934518.1  polypyrimidine tract-binding protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8J8YFZ4
      Related
      ENSRNOP00000076206.3, ENSRNOT00000093362.3
      Conserved Domains (1) summary
      TIGR01649
      Location:60560
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    2. XM_039078591.2XP_038934519.1  polypyrimidine tract-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      D3ZB30
      Related
      ENSRNOP00000077281.2, ENSRNOT00000100764.2
      Conserved Domains (1) summary
      TIGR01649
      Location:60534
      hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

    RNA

    1. XR_010052946.1 RNA Sequence