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Pabpc1 poly(A) binding protein, cytoplasmic 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 171350, updated on 11-Apr-2024

Summary

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Official Symbol
Pabpc1provided by RGD
Official Full Name
poly(A) binding protein, cytoplasmic 1provided by RGD
Primary source
RGD:619838
See related
Ensembl:ENSRNOG00000008639 AllianceGenome:RGD:619838
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Pabp; Pabp1; PABP 1
Summary
Enables mRNA binding activity. Predicted to be involved in gene silencing by RNA; positive regulation of viral genome replication; and regulation of mRNA catabolic process. Located in dendrite. Part of messenger ribonucleoprotein complex. Orthologous to several human genes including PABPC1 (poly(A) binding protein cytoplasmic 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 2043.7), Testes (RPKM 698.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pabpc1 in Genome Data Viewer
Location:
7q22
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (69662513..69674806, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (67777438..67789731, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (75409581..75421874, complement)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479895 Neighboring gene ankyrin repeat domain 46 Neighboring gene sorting nexin 31 Neighboring gene uncharacterized LOC134479712 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta

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. Long noncoding RNA-dependent regulation of vascular smooth muscle cell proliferation and migration in hypertension. Tan J, et al. Int J Biochem Cell Biol, 2020 Jan. PMID 31743794
  2. Vasopressin mRNA localization in nerve cells: characterization of cis-acting elements and trans-acting factors. Mohr E, et al. Proc Natl Acad Sci U S A, 2001 Jun 19. PMID 11416190, Free PMC Article
  3. Insulin receptor substrate-1 (IRS-1) forms a ribonucleoprotein complex associated with polysomes. Ozoe A, et al. FEBS Lett, 2013 Aug 2. PMID 23770097
  4. Molecular composition of staufen2-containing ribonucleoproteins in embryonic rat brain. Maher-Laporte M, et al. PLoS One, 2010 Jun 28. PMID 20596529, Free PMC Article
  5. Comparative peptide binding studies of the PABC domains from the ubiquitin-protein isopeptide ligase HYD and poly(A)-binding protein. Implications for HYD function. Lim NS, et al. J Biol Chem, 2006 May 19. PMID 16554297

See all (45) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Long noncoding RNA-dependent regulation of vascular smooth muscle cell proliferation and migration in hypertension.
    Title: Long noncoding RNA-dependent regulation of vascular smooth muscle cell proliferation and migration in hypertension.
  2. PABC domains from the ubiquitin-protein isopeptide ligase HYD and poly(A)-binding protein
    Title: Comparative peptide binding studies of the PABC domains from the ubiquitin-protein isopeptide ligase HYD and poly(A)-binding protein. Implications for HYD function.
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

Clone Names

  • MGC91496

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA 3'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA 3'-UTR binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables mRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables poly(A) binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables poly(A) binding ISO
Inferred from Sequence Orthology
more info
  
enables poly(A) binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables poly(U) RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables poly(U) RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in CRD-mediated mRNA stabilization ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of cytoplasmic translation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of viral genome replication ISO
Inferred from Sequence Orthology
more info
  
involved_in regulatory ncRNA-mediated gene silencing ISO
Inferred from Sequence Orthology
more info
  
involved_in regulatory ncRNA-mediated gene silencing ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
located_in cell leading edge ISO
Inferred from Sequence Orthology
more info
  
located_in cell leading edge ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytoplasmic stress granule IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasmic stress granule ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasmic stress granule ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in dendrite IDA
Inferred from Direct Assay
more info
 PubMed 
located_in lamellipodium IEA
Inferred from Electronic Annotation
more info
  
part_of mCRD-mediated mRNA stability complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
  
part_of ribonucleoprotein complex ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
polyadenylate-binding protein 1
Names
PABP-1
poly(A)-binding protein 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_134353.3 → NP_599180.1  polyadenylate-binding protein 1

    See identical proteins and their annotated locations for NP_599180.1

    Status: PROVISIONAL

    Source sequence(s)
    AJ298278
    UniProtKB/Swiss-Prot
    Q9EPH8
    UniProtKB/TrEMBL
    A0A0G2JZS2, A6HR30
    Related
    ENSRNOP00000012775.5, ENSRNOT00000012775.8
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 615
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
    cd12378
    Location:12 → 91
    RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
    cd12379
    Location:97 → 172
    RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
    cd12380
    Location:190 → 269
    RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
    cd12381
    Location:293 → 370
    RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
    pfam00658
    Location:547 → 614
    PABP; Poly-adenylate binding protein, unique domain

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
    69662513..69674806 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9EPH8.1 GenPept UniProtKB/Swiss-Prot:Q9EPH8

Gene LinkOut

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