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Pabpc4 poly(A) binding protein, cytoplasmic 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 298510, updated on 5-Mar-2024

Summary

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Official Symbol
Pabpc4provided by RGD
Official Full Name
poly(A) binding protein, cytoplasmic 4provided by RGD
Primary source
RGD:1305015
See related
Ensembl:ENSRNOG00000015642 AllianceGenome:RGD:1305015
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
Summary
Predicted to enable mRNA 3'-UTR binding activity; poly(A) binding activity; and poly(U) RNA binding activity. Predicted to act upstream of or within myeloid cell development and regulation of mRNA stability. Predicted to be located in cytoplasm. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasmic stress granule; cytosol; and nucleus. Orthologous to human PABPC4 (poly(A) binding protein cytoplasmic 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Muscle (RPKM 482.2), Heart (RPKM 321.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
5q36
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (140847835..140864089)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (135563142..135578985)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (140978893..140994732)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene 5'-nucleotidase, cytosolic IA Neighboring gene uncharacterized LOC108351027 Neighboring gene hes-related family bHLH transcription factor with YRPW motif-like Neighboring gene small nucleolar RNA SNORA55 Neighboring gene small nucleolar RNA SNORA55 Neighboring gene bone morphogenetic protein 8a Neighboring gene 3-oxoacid CoA transferase 2A Neighboring gene ribosomal protein S14, pseudogene 5

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. Cytoplasmic poly(A) binding protein C4 serves a critical role in erythroid differentiation. Kini HK, et al. Mol Cell Biol, 2014 Apr. PMID 24469397, Free PMC Article
  2. iPABP, an inducible poly(A)-binding protein detected in activated human T cells. Yang H, et al. Mol Cell Biol, 1995 Dec. PMID 8524242, Free PMC Article
  3. Nuclear relocalisation of cytoplasmic poly(A)-binding proteins PABP1 and PABP4 in response to UV irradiation reveals mRNA-dependent export of metazoan PABPs. Burgess HM, et al. J Cell Sci, 2011 Oct 1. PMID 21940797, Free PMC Article
  4. Molecular composition of IMP1 ribonucleoprotein granules. Jønson L, et al. Mol Cell Proteomics, 2007 May. PMID 17289661
  5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables mRNA 3'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
NOT enables poly(C) RNA binding ISO
Inferred from Sequence Orthology
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
  
Process Evidence Code Pubs
acts_upstream_of_or_within myeloid cell development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of mRNA stability ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm 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
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol 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 ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
polyadenylate-binding protein 4
Names
poly(A) binding protein, cytoplasmic 4 (inducible form)

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_001100538.1 → NP_001094008.1  polyadenylate-binding protein 4

    See identical proteins and their annotated locations for NP_001094008.1

    Status: PROVISIONAL

    Source sequence(s)
    BC166452
    UniProtKB/TrEMBL
    A0A8J8XGC4, A6IS24
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 624
    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:556 → 623
    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_086023.1 Reference GRCr8

    Range
    140847835..140864089
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006238799.4 → XP_006238861.1  polyadenylate-binding protein 4 isoform X2

    See identical proteins and their annotated locations for XP_006238861.1

    UniProtKB/TrEMBL
    A6IS24, A6IS25
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 640
    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:572 → 639
    PABP; Poly-adenylate binding protein, unique domain

  2. XM_039109613.2 → XP_038965541.1  polyadenylate-binding protein 4 isoform X5

    UniProtKB/TrEMBL
    A6IS24
    Conserved Domains (1) summary
    TIGR01628
    Location:11 → 611
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

  3. XM_063287433.1 → XP_063143503.1  polyadenylate-binding protein 4 isoform X3

  4. XM_063287434.1 → XP_063143504.1  polyadenylate-binding protein 4 isoform X7

  5. XM_006238798.4 → XP_006238860.1  polyadenylate-binding protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006238860.1

    UniProtKB/TrEMBL
    A6IS24, A6IS26, B2GUY3, G3V9N0
    Related
    ENSRNOP00000053432.4
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 640
    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:572 → 639
    PABP; Poly-adenylate binding protein, unique domain

  6. XM_006238800.4 → XP_006238862.1  polyadenylate-binding protein 4 isoform X4

    UniProtKB/TrEMBL
    A6IS24
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 611
    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:543 → 610
    PABP; Poly-adenylate binding protein, unique domain

  7. XM_006238801.4 → XP_006238863.1  polyadenylate-binding protein 4 isoform X6

    UniProtKB/TrEMBL
    A6IS24
    Conserved Domains (6) summary
    TIGR01628
    Location:11 → 595
    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:527 → 594
    PABP; Poly-adenylate binding protein, unique domain

  8. XM_039109614.2 → XP_038965542.1  polyadenylate-binding protein 4 isoform X8

    UniProtKB/TrEMBL
    Q5I0G7
    Conserved Domains (1) summary
    TIGR01628
    Location:1 → 418
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
Nucleotide Protein Strain
Heading Accession and Version

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