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Ptbp3 polypyrimidine tract binding protein 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 83515, updated on 2-May-2024

Summary

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Official Symbol
Ptbp3provided by RGD
Official Full Name
polypyrimidine tract binding protein 3provided by RGD
Primary source
RGD:621671
See related
Ensembl:ENSRNOG00000016334 AllianceGenome:RGD:621671
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
Rod1
Summary
Predicted to enable mRNA binding activity. Involved in regulation of cell differentiation. Predicted to be active in nucleus. Orthologous to human PTBP3 (polypyrimidine tract binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 502.1), Thymus (RPKM 470.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
5q24
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (79108376..79194533, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (74313367..74399439, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (76670074..76756196, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102551074 Neighboring gene sushi domain containing 1 Neighboring gene uncharacterized LOC134486940 Neighboring gene small nucleolar RNA SNORA68 Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 39 Neighboring gene small nucleolar RNA SNORD75 Neighboring gene hydroxysteroid dehydrogenase like 2

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. Isolation of a mammalian homologue of a fission yeast differentiation regulator. Yamamoto H, et al. Mol Cell Biol, 1999 May. PMID 10207106, Free PMC Article
  2. Expression of human nPTB is limited by extreme suboptimal codon content. Robinson F, et al. PLoS One, 2008 Mar 12. PMID 18335065, Free PMC Article
  3. A broadly applicable high-throughput screening strategy identifies new regulators of Dlg4 (Psd-95) alternative splicing. Zheng S, et al. Genome Res, 2013 Jun. PMID 23636947, Free PMC Article
  4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in erythrocyte maturation IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of RNA splicing IEA
Inferred from Electronic Annotation
more info
  
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 regulation of RNA splicing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
polypyrimidine tract-binding protein 3
Names
ROD1 regulator of differentiation 1
regulator of differentiation (in S. pombe) 1
regulator of differentiation 1

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_031346.3 → NP_112636.1  polypyrimidine tract-binding protein 3

    See identical proteins and their annotated locations for NP_112636.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/Swiss-Prot
    Q9Z118
    UniProtKB/TrEMBL
    A0A8L2UJS5
    Related
    ENSRNOP00000069354.2, ENSRNOT00000089251.2
    Conserved Domains (1) summary
    TIGR01649
    Location:28 → 523
    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_086023.1 Reference GRCr8

    Range
    79108376..79194533 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039110848.2 → XP_038966776.1  polypyrimidine tract-binding protein 3 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AIH3, A6KDW6
    Related
    ENSRNOP00000092713.1
    Conserved Domains (1) summary
    TIGR01649
    Location:1 → 457
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

  2. XM_006238207.5 → XP_006238269.3  polypyrimidine tract-binding protein 3 isoform X2

  3. XM_006238206.5 → XP_006238268.3  polypyrimidine tract-binding protein 3 isoform X1

  4. XM_063288481.1 → XP_063144551.1  polypyrimidine tract-binding protein 3 isoform X3

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Z118.1 GenPept UniProtKB/Swiss-Prot:Q9Z118

Gene LinkOut

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