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    Pcbp3 poly(rC) binding protein 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294336, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pcbp3provided by RGD
    Official Full Name
    poly(rC) binding protein 3provided by RGD
    Primary source
    RGD:1307430
    See related
    EnsemblRapid:ENSRNOG00000001245 AllianceGenome:RGD:1307430
    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
    Summary
    Predicted to enable C-rich single-stranded DNA binding activity and mRNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II. Predicted to be active in cytoplasm and nucleus. Orthologous to human PCBP3 (poly(rC) binding protein 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 84.0), Thymus (RPKM 62.1) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pcbp3 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (11635579..11877721)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (11678218..11878210)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (12429255..12629985)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene collagen type XVIII alpha 1 chain Neighboring gene peptidylprolyl cis/trans isomerase, NIMA-interacting 4, pseudogene 5 Neighboring gene solute carrier family 19 member 1 Neighboring gene adenosylhomocysteinase, pseudogene 1 Neighboring gene uncharacterized LOC120098922 Neighboring gene collagen type VI alpha 1 chain

    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. Novel dual-binding function of a poly (C)-binding protein 3, transcriptional factor which binds the double-strand and single-stranded DNA sequence. Kang DH, et al. Gene, 2012 Jun 10. PMID 22521865
    2. Regulators of Iron Homeostasis: New Players in Metabolism, Cell Death, and Disease. Bogdan AR, et al. Trends Biochem Sci, 2016 Mar. PMID 26725301, Free PMC Article
    3. Cellular iron uptake, trafficking and metabolism: Key molecules and mechanisms and their roles in disease. Lane DJ, et al. Biochim Biophys Acta, 2015 May. PMID 25661197
    4. Cell array-based intracellular localization screening reveals novel functional features of human chromosome 21 proteins. Hu YH, et al. BMC Genomics, 2006 Jun 16. PMID 16780588, Free PMC Article
    5. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article

    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 C-rich single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    poly(rC)-binding protein 3

    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_001011945.2 → NP_001011945.2  poly(rC)-binding protein 3

      Status: VALIDATED

      Source sequence(s)
      BC079196, JAXUCZ010000020
      UniProtKB/TrEMBL
      F7F4P9
      Conserved Domains (3) summary
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:266 → 340
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    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_086038.1 Reference GRCr8

      Range
      11635579..11877721
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279058.1 → XP_063135128.1  poly(rC)-binding protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A8I5Y0N5, A6JKB2
      Related
      ENSRNOP00000077332.2, ENSRNOT00000104059.2

    2. XM_039098578.2 → XP_038954506.1  poly(rC)-binding protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A8I5Y0N5
      Conserved Domains (3) summary
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:285 → 359
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cl00098
      Location:38 → 114
      KH-I; K homology (KH) RNA-binding domain, type I

    3. XM_039098577.2 → XP_038954505.1  poly(rC)-binding protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A8I5Y0N5, A6JKB2
      Related
      ENSRNOP00000102769.1, ENSRNOT00000159135.1
      Conserved Domains (3) summary
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:286 → 360
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cl00098
      Location:38 → 114
      KH-I; K homology (KH) RNA-binding domain, type I

    4. XM_039098572.2 → XP_038954500.1  poly(rC)-binding protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y0N5
      Conserved Domains (4) summary
      pfam03154
      Location:181 → 314
      Atrophin-1; Atrophin-1 family
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:308 → 382
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    5. XM_006256283.5 → XP_006256345.1  poly(rC)-binding protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006256345.1

      UniProtKB/TrEMBL
      A0A8I5Y0N5
      Conserved Domains (4) summary
      pfam03154
      Location:181 → 315
      Atrophin-1; Atrophin-1 family
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:309 → 383
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    6. XM_039098575.2 → XP_038954503.1  poly(rC)-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      F7F4P9
      Related
      ENSRNOP00000001675.6, ENSRNOT00000001675.6
      Conserved Domains (3) summary
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:289 → 363
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    7. XM_039098576.2 → XP_038954504.1  poly(rC)-binding protein 3 isoform X4

      UniProtKB/TrEMBL
      F7F4P9
      Conserved Domains (4) summary
      pfam03154
      Location:181 → 298
      Atrophin-1; Atrophin-1 family
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:288 → 362
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    8. XM_039098580.2 → XP_038954508.1  poly(rC)-binding protein 3 isoform X9

      UniProtKB/TrEMBL
      F7F4P9
      Conserved Domains (3) summary
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22522
      Location:265 → 339
      KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cl00098
      Location:38 → 114
      KH-I; K homology (KH) RNA-binding domain, type I

    9. XM_063279064.1 → XP_063135134.1  poly(rC)-binding protein 3 isoform X12

    10. XM_063279065.1 → XP_063135135.1  poly(rC)-binding protein 3 isoform X14

    11. XM_063279062.1 → XP_063135132.1  poly(rC)-binding protein 3 isoform X10

      UniProtKB/TrEMBL
      A0A8I5Y0N5

    12. XM_063279063.1 → XP_063135133.1  poly(rC)-binding protein 3 isoform X11

    13. XM_039098583.2 → XP_038954511.1  poly(rC)-binding protein 3 isoform X13

      Conserved Domains (2) summary
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    14. XM_039098585.2 → XP_038954513.1  poly(rC)-binding protein 3 isoform X16

      Conserved Domains (2) summary
      cd22516
      Location:38 → 114
      KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cd22519
      Location:125 → 203
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

    15. XM_039098584.2 → XP_038954512.1  poly(rC)-binding protein 3 isoform X15

      Conserved Domains (2) summary
      cd22519
      Location:125 → 202
      KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
      cl00098
      Location:38 → 114
      KH-I; K homology (KH) RNA-binding domain, type I

    16. XM_063279056.1 → XP_063135126.1  poly(rC)-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y0N5
      Related
      ENSRNOP00000076709.2, ENSRNOT00000103785.2

    17. XM_063279057.1 → XP_063135127.1  poly(rC)-binding protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A8I5Y0N5, A6JKB2
      Related
      ENSRNOP00000082318.2, ENSRNOT00000098898.2

    18. XM_063279061.1 → XP_063135131.1  poly(rC)-binding protein 3 isoform X8

      UniProtKB/TrEMBL
      F7F4P9

    19. XM_063279059.1 → XP_063135129.1  poly(rC)-binding protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A8I5Y0N5

    20. XM_063279060.1 → XP_063135130.1  poly(rC)-binding protein 3 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZWT0

    RNA

    1. XR_010060648.1 RNA Sequence

    2. XR_005497206.2 RNA Sequence

    3. XR_010060649.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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