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    Pabpc5 poly A binding protein, cytoplasmic 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 688518, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Pabpc5provided by RGD
    Official Full Name
    poly A binding protein, cytoplasmic 5provided by RGD
    Primary source
    RGD:1587661
    See related
    Ensembl:ENSRNOG00000003354 AllianceGenome:RGD:1587661
    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 be part of ribonucleoprotein complex. Predicted to be active in cytoplasmic stress granule; cytosol; and nucleus. Orthologous to human PABPC5 (poly(A) binding protein cytoplasmic 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 12.6), Heart (RPKM 1.7) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pabpc5 in Genome Data Viewer
    Location:
    Xq31
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (89858502..89862454)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (85637763..85641235)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (92130292..92133756)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene TPX2, microtubule nucleation factor, pseudogene 1 Neighboring gene ATP synthase F1 subunit epsilon, pseudogene 1 Neighboring gene pescadillo ribosomal biogenesis factor 1, pseudogene 2 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene

    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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    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 poly(A) binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(U) RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    polyadenylate-binding protein 5

    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_001110366.2 → NP_001103836.1  polyadenylate-binding protein 5

      See identical proteins and their annotated locations for NP_001103836.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473969
      UniProtKB/TrEMBL
      A6IVB9, D4A5H0
      Related
      ENSRNOP00000004462.5, ENSRNOT00000004462.7
      Conserved Domains (5) summary
      cd12378
      Location:22 → 98
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:104 → 179
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:198 → 277
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      TIGR01661
      Location:29 → 271
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      cl17169
      Location:301 → 377
      RRM_SF; RNA recognition motif (RRM) superfamily

    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_086039.1 Reference GRCr8

      Range
      89858502..89862454
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008773376.4 → XP_008771598.1  polyadenylate-binding protein 5 isoform X1

      See identical proteins and their annotated locations for XP_008771598.1

      UniProtKB/TrEMBL
      A6IVB9, D4A5H0
      Conserved Domains (5) summary
      cd12378
      Location:22 → 98
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:104 → 179
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:198 → 277
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      TIGR01661
      Location:29 → 271
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      cl17169
      Location:301 → 377
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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