U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Prdm11 PR domain containing 11 [ Mus musculus (house mouse) ]

    Gene ID: 100042784, updated on 9-May-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Prdm11provided by MGI
    Official Full Name
    PR domain containing 11provided by MGI
    Primary source
    MGI:MGI:2685553
    See related
    Ensembl:ENSMUSG00000075028 AllianceGenome:MGI:2685553
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Gm707; Gm29694; 8030443D09Rik
    Summary
    Enables 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 transcription, DNA-templated. Predicted to act upstream of or within methylation. Predicted to be located in cytosol. Predicted to be active in nucleus. Is expressed in embryo and head. Orthologous to human PRDM11 (PR/SET domain 11). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 2.4), adrenal adult (RPKM 2.0) and 26 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Prdm11 in Genome Data Viewer
    Location:
    2; 2 E1
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (92795496..92876825, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (92965151..93046165, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 39880 Neighboring gene predicted gene 13791 Neighboring gene STARR-seq mESC enhancer starr_05153 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:92786015-92786280 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:92786303-92786486 Neighboring gene synaptotagmin XIII Neighboring gene RIKEN cDNA 4631405J19 gene Neighboring gene STARR-positive B cell enhancer ABC_E9521 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:92889256-92889439 Neighboring gene predicted gene, 54114 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:92972327-92972528 Neighboring gene STARR-seq mESC enhancer starr_05158 Neighboring gene RIKEN cDNA 1700055L01 gene Neighboring gene predicted gene, 32627 Neighboring gene predicted gene, 32683

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. PRDM11 is dispensable for the maintenance and function of hematopoietic stem and progenitor cells. Thoren LA, et al. Stem Cell Res, 2013 Nov. PMID 23978475
    2. Cox4i2, Ifit2, and Prdm11 Mutant Mice: Effective Selection of Genes Predisposing to an Altered Airway Inflammatory Response from a Large Compendium of Mutant Mouse Lines. Horsch M, et al. PLoS One, 2015. PMID 26263558, Free PMC Article
    3. Loss of PRDM11 promotes MYC-driven lymphomagenesis. Fog CK, et al. Blood, 2015 Feb 19. PMID 25499759
    4. PEG3 binds to H19-ICR as a transcriptional repressor. Ye A, et al. Epigenetics, 2016 Dec. PMID 27824289, Free PMC Article
    5. Prdm proto-oncogene transcription factor family expression and interaction with the Notch-Hes pathway in mouse neurogenesis. Kinameri E, et al. PLoS One, 2008. PMID 19050759, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (2)  1 citation

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    		  
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    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
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    PR domain-containing protein 11
    Names
    zinc finger protein 862 pseudogene

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001177536.2 → NP_001171007.1  PR domain-containing protein 11 isoform 3

      See identical proteins and their annotated locations for NP_001171007.1

      Status: VALIDATED

      Source sequence(s)
      AL713913
      Consensus CDS
      CCDS50647.1
      UniProtKB/Swiss-Prot
      A2AGX2, A2AGX3, A2AGX4
      Related
      ENSMUSP00000136795.2, ENSMUST00000178666.8
      Conserved Domains (1) summary
      smart00317
      Location:129 → 230
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    2. NM_001368848.1 → NP_001355777.1  PR domain-containing protein 11 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AL713913
      Consensus CDS
      CCDS89522.1
      UniProtKB/TrEMBL
      A0A5F8MPE3
      Related
      ENSMUSP00000158933.2, ENSMUST00000238863.2
      Conserved Domains (2) summary
      pfam18445
      Location:75 → 101
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19195
      Location:109 → 235
      PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins

    3. NM_001368849.1 → NP_001355778.1  PR domain-containing protein 11 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL713913
      Conserved Domains (1) summary
      smart00317
      Location:129 → 230
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      92795496..92876825 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030245942.2 → XP_030101802.1  PR domain-containing protein 11 isoform X2

      UniProtKB/TrEMBL
      A0A5F8MPE3
      Conserved Domains (2) summary
      pfam18445
      Location:75 → 101
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19195
      Location:109 → 235
      PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins

    2. XM_030245934.2 → XP_030101794.1  PR domain-containing protein 11 isoform X1

      Conserved Domains (2) summary
      pfam18445
      Location:101 → 127
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19195
      Location:135 → 261
      PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins

    3. XM_030245944.2 → XP_030101804.1  PR domain-containing protein 11 isoform X2

      UniProtKB/TrEMBL
      A0A5F8MPE3
      Conserved Domains (2) summary
      pfam18445
      Location:75 → 101
      zf_PR_Knuckle; PR zinc knuckle motif
      cd19195
      Location:109 → 235
      PR-SET_PRDM11; PR-SET domain found in PR domain zinc finger protein 11 (PRDM11) and similar proteins

    4. XM_030245943.1 → XP_030101803.1  PR domain-containing protein 11 isoform X3

      Conserved Domains (1) summary
      cl40432
      Location:52 → 104
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    5. XM_030245948.1 → XP_030101808.1  PR domain-containing protein 11 isoform X4

    RNA

    1. XR_004936964.1 RNA Sequence

    2. XR_004936966.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A2AGX3.1 GenPept UniProtKB/Swiss-Prot:A2AGX3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous