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

Gene ID: 100042784, updated on 8-Mar-2024

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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Preferred Names
PR domain-containing protein 11
Names
zinc finger protein 862 pseudogene

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_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

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