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

Gene ID: 29497, updated on 2-May-2024

Summary

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Official Symbol
Ptbp1provided by RGD
Official Full Name
polypyrimidine tract binding protein 1provided by RGD
Primary source
RGD:62047
See related
Ensembl: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 mRNA metabolic process; positive regulation of cellular component organization; and positive regulation of gene expression. Located in cytoplasm; neuron projection terminus; and nucleus. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 487.5), Kidney (RPKM 337.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Relocalization of the polypyrimidine tract-binding protein during PKA-induced neurite growth. Ma S, et al. Biochim Biophys Acta, 2007 Jun. PMID 17400307
  2. cAMP-dependent phosphorylation of PTB1 promotes the expression of insulin secretory granule proteins in beta cells. Knoch KP, et al. Cell Metab, 2006 Feb. PMID 16459313
  3. Competition of PTB with TIA proteins for binding to a U-rich cis-element determines tissue-specific splicing of the myosin phosphatase targeting subunit 1. Shukla S, et al. RNA, 2005 Nov. PMID 16177139, Free PMC Article
  4. A novel structure-specific endonuclease activity associated with polypyrimidine-tract binding (PTB) related protein from rat testis. Haldar D, et al. Biochemistry, 2002 Oct 1. PMID 12269805
  5. Mutations in RRM4 uncouple the splicing repression and RNA-binding activities of polypyrimidine tract binding protein. Liu H, et al. RNA, 2002 Feb. PMID 11911361, Free PMC Article

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Inhibition of IGF2BP1 attenuates the progression of endometriosis through PTBP1.
    Title: Inhibition of IGF2BP1 attenuates the progression of endometriosis through PTBP1.
  2. Reduced CircSMOC1 Level Promotes Metabolic Reprogramming via PTBP1 (Polypyrimidine Tract-Binding Protein) and miR-329-3p in Pulmonary Arterial Hypertension Rats.
    Title: Reduced CircSMOC1 Level Promotes Metabolic Reprogramming via PTBP1 (Polypyrimidine Tract-Binding Protein) and miR-329-3p in Pulmonary Arterial Hypertension Rats.
  3. PTBP1 Targets ILK to Regulate the Hypoxia-Induced Phenotypic Transformation of Pulmonary Artery Smooth Muscle Cells.
    Title: PTBP1 Targets ILK to Regulate the Hypoxia-Induced Phenotypic Transformation of Pulmonary Artery Smooth Muscle Cells.
  4. Results suggest that PTB and hnRNP L are positive regulators of Cat-1 mRNA translation via the IRES under stress conditions that cause a global decrease of protein synthesis.
    Title: The hnRNA-binding proteins hnRNP L and PTB are required for efficient translation of the Cat-1 arginine/lysine transporter mRNA during amino acid starvation.
  5. Beta-cell stimulation induces the nucleocytoplasmic translocation of polypyrimidine tract-binding protein (PTB). Activated cytosolic PTB binds and stabilizes mRNAs encoding proteins of secretory granules, thus increasing their translation.
    Title: Polypyrimidine tract-binding protein promotes insulin secretory granule biogenesis.
  6. RRM RNA-binding domain role in RNA splicing
    Title: Mutations in RRM4 uncouple the splicing repression and RNA-binding activities of polypyrimidine tract binding protein.
  7. analysis of the splicing repressor domain in polypyrimidine tract-binding protein
    Title: A splicing repressor domain in polypyrimidine tract-binding protein.
  8. Besides degrading single-stranded circular DNA, structure-specific endonuclease activity purified from this Ptb-like testis protein nicks supercoiled plasmid DNA to generate relaxed DNA and does not act on linear single-stranded or double-stranded DNA.
    Title: A novel structure-specific endonuclease activity associated with polypyrimidine-tract binding (PTB) related protein from rat testis.
  9. identification and characterization of a fourth rodent PTB paralog that is expressed at high levels in a number of smooth muscle tissues, localized to the nucleus, bound to RNA, and able to regulate alternative splicing
    Title: A novel polypyrimidine tract-binding protein paralog expressed in smooth muscle cells.
  10. PTB1 is a common downstream target of glucose and GLP-1 for the posttranscriptional upregulation of granule biogenesis in beta cells.
    Title: cAMP-dependent phosphorylation of PTB1 promotes the expression of insulin secretory granule proteins in beta cells.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

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 protein dephosphorylation ISO
Inferred from Sequence Orthology
more info
  
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

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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)

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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_001271057.1 → NP_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
    ENSRNOP00000043256.5, ENSRNOT00000044865.8
    Conserved Domains (1) summary
    TIGR01649
    Location:56 → 556
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

  2. NM_022516.5 → NP_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
    Related
    ENSRNOP00000048322.3, ENSRNOT00000041277.6
    Conserved Domains (1) summary
    TIGR01649
    Location:56 → 530
    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_039078590.2 → XP_038934518.1  polypyrimidine tract-binding protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8J8YFZ4
    Conserved Domains (1) summary
    TIGR01649
    Location:60 → 560
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

  2. XM_039078591.2 → XP_038934519.1  polypyrimidine tract-binding protein 1 isoform X2

    UniProtKB/TrEMBL
    D3ZB30
    Related
    ENSRNOP00000077281.1
    Conserved Domains (1) summary
    TIGR01649
    Location:60 → 534
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

RNA

  1. XR_010052946.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q00438.2 GenPept UniProtKB/Swiss-Prot:Q00438

Gene LinkOut

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