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Ptbp3 polypyrimidine tract binding protein 3 [ Mus musculus (house mouse) ]

Gene ID: 230257, updated on 31-Jan-2019

Summary

Official Symbol
Ptbp3provided by MGI
Official Full Name
polypyrimidine tract binding protein 3provided by MGI
Primary source
MGI:MGI:1923334
See related
Ensembl:ENSMUSG00000028382
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rod1; C86549; AA407443; AI462022; AW107884; 5830471K22Rik
Expression
Ubiquitous expression in placenta adult (RPKM 36.2), liver E14 (RPKM 17.5) and 27 other tissues See more
Orthologs

Genomic context

See Ptbp3 in Genome Data Viewer
Location:
4; 4 B3
Exon count:
16
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 4 NC_000070.6 (59471868..59549377, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (59484740..59562236, complement)

Chromosome 4 - NC_000070.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 35578 Neighboring gene sushi domain containing 1 Neighboring gene zinc finger, MYND domain containing 19 pseudogene Neighboring gene RIKEN cDNA E130308A19 gene Neighboring gene hydroxysteroid dehydrogenase like 2

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 

Pathways from BioSystems

  • mRNA processing, organism-specific biosystem (from WikiPathways)
    mRNA processing, organism-specific biosystemAdapted from Reactome, see: [http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=REACT_1675.1 REACT 1675.1] This process describes the conversion of precursor messenger RNA into mature messenge...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC11742

Gene Ontology Provided by MGI

Function Evidence Code Pubs
RNA binding IEA
Inferred from Electronic Annotation
more info
 
nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
RNA splicing IEA
Inferred from Electronic Annotation
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
erythrocyte maturation IEA
Inferred from Electronic Annotation
more info
 
mRNA processing IEA
Inferred from Electronic Annotation
more info
 
negative regulation of RNA splicing ISO
Inferred from Sequence Orthology
more info
 
negative regulation of mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
polypyrimidine tract-binding protein 3
Names
ROD1 regulator of differentiation 1
regulator of differentiation 1

NCBI Reference Sequences (RefSeq)

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_144904.2NP_659153.2  polypyrimidine tract-binding protein 3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK033732, AL824704, BY119845, CJ101924, CJ103126
    Consensus CDS
    CCDS18220.2
    UniProtKB/Swiss-Prot
    Q8BHD7
    UniProtKB/TrEMBL
    G8JL74
    Related
    ENSMUSP00000099947.4, ENSMUST00000102883.10
    Conserved Domains (5) summary
    cd12693
    Location:178273
    RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    cd12703
    Location:471551
    RRM4_ROD1; RNA recognition motif 4 in vertebrate regulator of differentiation 1 (Rod1)
    cd12779
    Location:53142
    RRM1_ROD1; RNA recognition motif 1 in vertebrate regulator of differentiation 1 (Rod1)
    TIGR01649
    Location:56551
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    cl17169
    Location:358450
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_178164.3NP_835458.1  polypyrimidine tract-binding protein 3 isoform 2

    See identical proteins and their annotated locations for NP_835458.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in its 5' end which results in the use of an in-frame downstream start codon and also uses an alternate splice site in its 5' coding region, compared to variant 1. The encoded protein (isoform 2) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK033732, AL824704, CJ101924
    Consensus CDS
    CCDS18221.1
    UniProtKB/Swiss-Prot
    Q8BHD7
    Related
    ENSMUSP00000030076.5, ENSMUST00000030076.11
    Conserved Domains (5) summary
    cd12693
    Location:150245
    RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    cd12703
    Location:443523
    RRM4_ROD1; RNA recognition motif 4 in vertebrate regulator of differentiation 1 (Rod1)
    cd12779
    Location:25114
    RRM1_ROD1; RNA recognition motif 1 in vertebrate regulator of differentiation 1 (Rod1)
    TIGR01649
    Location:28523
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    cl17169
    Location:330422
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000070.6 Reference GRCm38.p4 C57BL/6J

    Range
    59471868..59549377 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006537854.3XP_006537917.1  polypyrimidine tract-binding protein 3 isoform X3

    See identical proteins and their annotated locations for XP_006537917.1

    UniProtKB/Swiss-Prot
    Q8BHD7
    Related
    ENSMUSP00000122840.2, ENSMUST00000148331.8
    Conserved Domains (5) summary
    cd12693
    Location:147242
    RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    cd12703
    Location:440520
    RRM4_ROD1; RNA recognition motif 4 in vertebrate regulator of differentiation 1 (Rod1)
    cd12779
    Location:22111
    RRM1_ROD1; RNA recognition motif 1 in vertebrate regulator of differentiation 1 (Rod1)
    TIGR01649
    Location:25520
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    cl17169
    Location:327419
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. XM_006537852.3XP_006537915.1  polypyrimidine tract-binding protein 3 isoform X2

    UniProtKB/TrEMBL
    G3UXA6
    Related
    ENSMUSP00000133612.1, ENSMUST00000174586.7
    Conserved Domains (5) summary
    cd12693
    Location:181276
    RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    cd12703
    Location:474554
    RRM4_ROD1; RNA recognition motif 4 in vertebrate regulator of differentiation 1 (Rod1)
    cd12779
    Location:56145
    RRM1_ROD1; RNA recognition motif 1 in vertebrate regulator of differentiation 1 (Rod1)
    TIGR01649
    Location:59554
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    cl17169
    Location:361453
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. XM_006537851.3XP_006537914.1  polypyrimidine tract-binding protein 3 isoform X1

    Conserved Domains (5) summary
    cd12693
    Location:183278
    RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
    cd12703
    Location:476556
    RRM4_ROD1; RNA recognition motif 4 in vertebrate regulator of differentiation 1 (Rod1)
    cd12779
    Location:58147
    RRM1_ROD1; RNA recognition motif 1 in vertebrate regulator of differentiation 1 (Rod1)
    TIGR01649
    Location:61556
    hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
    cl17169
    Location:363455
    RRM_SF; RNA recognition motif (RRM) superfamily
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