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

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, Nov 2024]
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

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_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Inhibition of IGF2BP1 attenuates the progression of endometriosis through PTBP1.
Title: Inhibition of IGF2BP1 attenuates the progression of endometriosis through PTBP1.
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.
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.
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.
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.
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.
analysis of the splicing repressor domain in polypyrimidine tract-binding protein
Title: A splicing repressor domain in polypyrimidine tract-binding protein.
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.
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.
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.

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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

RH129173 (e-PCR)
- UniSTS:212481

NoName (e-PCR)
- UniSTS:236919

Ptb (e-PCR), detects polymorphism
- UniSTS:144286

RH128371 (e-PCR)
- UniSTS:211679

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

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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)

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

ENSRNOP00000043256.6, ENSRNOT00000044865.9

Conserved Domains (1) summary

TIGR01649
Location:56 → 556

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
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

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

NC_086025.1 Reference GRCr8

Range

10493199..10502957 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A8J8YFZ4

Related

ENSRNOP00000076206.3, ENSRNOT00000093362.3

Conserved Domains (1) summary

TIGR01649
Location:60 → 560

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
XM_039078591.2 → XP_038934519.1 polypyrimidine tract-binding protein 1 isoform X2

UniProtKB/TrEMBL

D3ZB30

Related

ENSRNOP00000077281.2, ENSRNOT00000100764.2

Conserved Domains (1) summary

TIGR01649
Location:60 → 534

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family