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    Gpbp1 GC-rich promoter binding protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294734, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Gpbp1provided by RGD
    Official Full Name
    GC-rich promoter binding protein 1provided by RGD
    Primary source
    RGD:1305492
    See related
    EnsemblRapid:ENSRNOG00000013002 AllianceGenome:RGD:1305492
    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
    Also known as
    RGD1305492
    Summary
    Predicted to enable DNA binding activity and DNA-binding transcription factor activity. Predicted to be involved in regulation of transcription, DNA-templated. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; intracellular membrane-bounded organelle; and plasma membrane. Predicted to be active in nucleus. Orthologous to human GPBP1 (GC-rich promoter binding protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 340.7), Spleen (RPKM 330.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gpbp1 in Genome Data Viewer
    Location:
    2q14
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (44756861..44824281, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (43023504..43091146, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (43002041..43070236, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene phosphoglycerate kinase 1 like 1 Neighboring gene actin, beta-like 2 Neighboring gene transfer RNA proline (anticodon AGG) 68 Neighboring gene uncharacterized LOC134485835

    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 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. Rat Mcs1b is concordant to the genome-wide association-identified breast cancer risk locus at human 5q11.2 and MIER3 is a candidate cancer susceptibility gene. denDekker AD, et al. Cancer Res, 2012 Nov 15. PMID 22993404, Free PMC Article
    2. The murine G+C-rich promoter binding protein mGPBP is required for promoter-specific transcription. Hsu LC, et al. Mol Cell Biol, 2003 Dec. PMID 14612417, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. 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 DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle 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
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    vasculin

    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_001106410.2 → NP_001099880.1  vasculin isoform 1

      See identical proteins and their annotated locations for NP_001099880.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      A0A0G2K5K6, A6I5M9, F1M562, H9BFG8
      Related
      ENSRNOP00000073461.2, ENSRNOT00000090616.3
      Conserved Domains (1) summary
      pfam15337
      Location:398 → 477
      Vasculin; Vascular protein family Vasculin-like 1

    2. NM_001408813.1 → NP_001395742.1  vasculin isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      B1WBV9
      Related
      ENSRNOP00000038526.6, ENSRNOT00000036658.8

    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_086020.1 Reference GRCr8

      Range
      44756861..44824281 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017590710.2 → XP_017446199.1  vasculin isoform X4

      Conserved Domains (1) summary
      pfam15337
      Location:253 → 332
      Vasculin; Vascular protein family Vasculin-like 1

    2. XM_017590709.2 → XP_017446198.1  vasculin isoform X3

      Conserved Domains (1) summary
      pfam15337
      Location:273 → 352
      Vasculin; Vascular protein family Vasculin-like 1

    3. XM_063281510.1 → XP_063137580.1  vasculin isoform X2

      UniProtKB/TrEMBL
      B1WBV9

    4. XM_017590708.2 → XP_017446197.1  vasculin isoform X1

      UniProtKB/TrEMBL
      A0A0G2K5K6, A6I5M9, F1M562, H9BFG8
      Conserved Domains (1) summary
      pfam15337
      Location:398 → 477
      Vasculin; Vascular protein family Vasculin-like 1

    5. XM_039101935.2 → XP_038957863.1  vasculin isoform X1

      UniProtKB/TrEMBL
      A0A0G2K5K6, A6I5M9, F1M562, H9BFG8
      Conserved Domains (1) summary
      pfam15337
      Location:398 → 477
      Vasculin; Vascular protein family Vasculin-like 1

    6. XM_063281512.1 → XP_063137582.1  vasculin isoform X2

      UniProtKB/TrEMBL
      B1WBV9

    7. XM_063281513.1 → XP_063137583.1  vasculin isoform X2

      UniProtKB/TrEMBL
      B1WBV9

    8. XM_063281509.1 → XP_063137579.1  vasculin isoform X1

      UniProtKB/TrEMBL
      A0A0G2K5K6, A6I5M9, F1M562, H9BFG8

    9. XM_039101936.1 → XP_038957864.1  vasculin isoform X3

      Conserved Domains (1) summary
      pfam15337
      Location:273 → 352
      Vasculin; Vascular protein family Vasculin-like 1

    10. XM_063281514.1 → XP_063137584.1  vasculin isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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