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    Prdm11 PR/SET domain 11 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 690358, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Prdm11provided by RGD
    Official Full Name
    PR/SET domain 11provided by RGD
    Primary source
    RGD:1597330
    See related
    EnsemblRapid:ENSRNOG00000008674 AllianceGenome:RGD:1597330
    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
    RGD1305673
    Summary
    Predicted to enable chromatin binding activity. Predicted to be involved in several processes, including negative regulation of cell growth; positive regulation of fibroblast apoptotic process; and regulation of DNA-templated transcription. Predicted to be located in cytosol and nucleus. Orthologous to human PRDM11 (PR/SET domain 11). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 60.5), Lung (RPKM 30.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Prdm11 in Genome Data Viewer
    Location:
    3q31
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (99381093..99460805, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (78925654..79005495, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (81862737..81942203, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120101600 Neighboring gene uncharacterized LOC102546895 Neighboring gene synaptotagmin 13 Neighboring gene uncharacterized LOC134486127 Neighboring gene uncharacterized LOC134486128 Neighboring gene ribosomal oxygenase 2, pseudogene 5 Neighboring gene tumor protein p53 inducible protein 11

    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. Loss of PRDM11 promotes MYC-driven lymphomagenesis. Fog CK, et al. Blood, 2015 Feb 19. PMID 25499759
    2. 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 chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of fibroblast apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    PR domain-containing protein 11
    Names
    PR domain 11
    PR domain containing 11

    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_001271530.2 → NP_001258459.1  PR domain-containing protein 11

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      D4A985
      Related
      ENSRNOP00000061592.3, ENSRNOT00000066526.5
      Conserved Domains (1) summary
      smart00317
      Location:129 → 230
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) 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_086021.1 Reference GRCr8

      Range
      99381093..99460805 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105882.2 → XP_038961810.1  PR domain-containing protein 11 isoform X2

      Conserved Domains (1) summary
      cd19195
      Location:249 → 375
      PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins

    2. XM_017592049.3 → XP_017447538.1  PR domain-containing protein 11 isoform X1

      UniProtKB/TrEMBL
      D4A985
      Conserved Domains (1) summary
      smart00317
      Location:129 → 230
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    3. XM_017592048.3 → XP_017447537.1  PR domain-containing protein 11 isoform X1

      UniProtKB/TrEMBL
      D4A985
      Conserved Domains (1) summary
      smart00317
      Location:129 → 230
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    4. XM_063284582.1 → XP_063140652.1  PR domain-containing protein 11 isoform X3

    5. XM_063284583.1 → XP_063140653.1  PR domain-containing protein 11 isoform X4

      Related
      ENSRNOP00000053840.5, ENSRNOT00000057007.5
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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