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Prdm9 Gene Detail
Summary
  • Symbol
    Prdm9
  • Name
    PR domain containing 9
  • Synonyms
    Dsbc1, G1-419-29, Meisetz, MGC:21428, Rcr1, repro7
  • Feature Type
    protein coding gene
  • IDs
    MGI:2384854
    NCBI Gene: 213389
  • Gene Overview
    MyGene.info: PRDM9
  • Alliance
Location & Maps
more
  • Sequence Map
    Chr17:15545119-15564354 bp, - strand
  • From VEGA annotation of GRCm38

    Mouse Genome Browser

  • Download
    Sequence
      19236 bp   ±  kb flank

  • Genome Browsers
  • Genetic Map
    Chromosome 17, 8.95 cM
  • Mapping Data
    7 experiments
Homology
more
  • Human Ortholog
    PRDM9, PR/SET domain 9
  • Vertebrate Orthologs
    7
  • Human Ortholog
    PRDM9, PR/SET domain 9
    Orthology source: HomoloGene, HGNC
  • Synonyms
    KMT8B, MEISETZ, MSBP3, PFM6, ZNF899
  • Links
    NCBI Gene ID: 56979
    neXtProt AC: NX_Q9NQV7
    UniProt: Q9NQV7

  • Chr Location
    5p14.2; chr5:23507609-23528597 (+)  GRCh38.p7

Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    20 phenotypes from 4 alleles in 4 genetic backgrounds
    1 images
    26 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele show decreased oocyte number, azoospermia, and sterility in both sexes due to severe impairment of the double-stranded break repair pathway, deficient pairing of homologous chromosomes, and impaired sex body formation.
Gene Ontology
(GO)
Classifications
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  • All GO Annotations
  • GO References
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
receptor binding
RNA binding
transcription
transferase
transporter
Biological Process

nucleic acid-templated transcription
carbohydrate derivative metabolism
cell death
cell differentiation
cell proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
synapse
vacuole
Click cells to view annotations.
Expression
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  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
    less
    Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic OTTMUSG00000032999 VEGA Gene Model | MGI Sequence Detail 19236 C57BL/6J ±  kb
    transcript OTTMUST00000082303 VEGA | MGI Sequence Detail 1447 Not Applicable  
    polypeptide OTTMUSP00000044100 VEGA | MGI Sequence Detail 283 Not Applicable  
    For the selected sequence
    Polymorphisms
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    • SNPs within 2kb
      43 from dbSNP Build 142
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 14
      Genomic 3
      cDNA 10
      Primer pair 1

      Microarray probesets 2
    Other
    Accession IDs
    less
    MGI:3512775, MGI:3801504, MGI:3839351
    References
    more
    • Summaries
      All 54
      Developmental Gene Expression 3
      Gene Ontology 9
      Phenotypes 26
    • Earliest
      J:214361 Shiroishi T, et al., A new wild-derived H-2 haplotype enhancing K-IA recombination. Nature. 1982 Nov 25;300(5890):370-2
    • Latest
      J:233373 Powers NR, et al., The Meiotic Recombination Activator PRDM9 Trimethylates Both H3K36 and H3K4 at Recombination Hotspots In Vivo. PLoS Genet. 2016 Jun;12(6):e1006146

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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    last database update
    06/19/2018
    MGI 6.12
    The Jackson Laboratory