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Prdm6 Gene Detail
Summary
  • Symbol
    Prdm6
  • Name
    PR domain containing 6
  • Synonyms
    LOC225518, PRISM
  • Feature Type
    protein coding gene
  • IDs
    MGI:2684938
    NCBI Gene: 225518
  • Alliance
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:53463583-53575904 bp, + strand
  • From NCBI annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 18, 29.04 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    726 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2684938
protein coding gene Chr18:53463583-53575907 (+)
129S1/SvImJ MGP_129S1SvImJ_G0024436
protein coding gene Chr18:52646742-52759994 (+)
A/J MGP_AJ_G0024402
protein coding gene Chr18:50608666-50712247 (+)
AKR/J MGP_AKRJ_G0024372
protein coding gene Chr18:52019520-52127911 (+)
BALB/cJ MGP_BALBcJ_G0024402
protein coding gene Chr18:50794924-50898469 (+)
C3H/HeJ MGP_C3HHeJ_G0024169
protein coding gene Chr18:52161925-52268112 (+)
C57BL/6NJ MGP_C57BL6NJ_G0024848
protein coding gene Chr18:54402526-54515447 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022280
protein coding gene Chr18:50378069-50480434 (+)
CAST/EiJ MGP_CASTEiJ_G0023643
protein coding gene Chr18:52138426-52255256 (+)
CBA/J MGP_CBAJ_G0024139
protein coding gene Chr18:56014396-56130277 (+)
DBA/2J MGP_DBA2J_G0024269
protein coding gene Chr18:50310434-50423615 (+)
FVB/NJ MGP_FVBNJ_G0024236
protein coding gene Chr18:49737608-49840936 (+)
LP/J MGP_LPJ_G0024354
protein coding gene Chr18:52666144-52773065 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0024266
protein coding gene Chr18:57749776-57895599 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0024895
protein coding gene Chr18:52053047-52163135 (+)
PWK/PhJ MGP_PWKPhJ_G0023387
protein coding gene Chr18:50326347-50433285 (+)
SPRET/EiJ MGP_SPRETEiJ_G0023193
protein coding gene Chr18:52224027-52331737 (+)
WSB/EiJ MGP_WSBEiJ_G0023706
protein coding gene Chr18:51974674-52092730 (+)



Homology
more
  • Human Ortholog
    PRDM6, PR/SET domain 6
  • Vertebrate Orthologs
    10
  • Human Ortholog
    PRDM6, PR/SET domain 6
    Orthology source: HomoloGene, HGNC
  • Synonyms
    KMT8C, PDA3, PRISM
  • Links
    NCBI Gene ID: 93166
    neXtProt AC: NX_Q9NQX0
    UniProt: Q9NQX0

  • Chr Location
    5q23.2; chr5:123089146-123194266 (+)  GRCh38.p7

  • HomoloGene
    Vertebrate Homology Class 79756
    1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
  • HCOP
    human homology predictions: PRDM6
  • Gene Tree
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    11 phenotypes from 2 alleles in 2 genetic backgrounds
    3 images
    2 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
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele exhibit cardiovascular development defects.
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
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell death
cell differentiation
cell population proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
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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Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
    less
    Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 225518 NCBI Gene Model | MGI Sequence Detail 112322 C57BL/6J ±  kb
    transcript NM_001033281 RefSeq | MGI Sequence Detail 2601 C57BL/6  
    polypeptide Q3UZD5 UniProt | EBI | MGI Sequence Detail 596 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 16
      cDNA 13
      Primer pair 2
      Other 1

      Microarray probesets 2
    References
    more
    • Summaries
      All 27
      Developmental Gene Expression 6
      Gene Ontology 6
      Phenotypes 2
    • Earliest
      J:99680 The FANTOM Consortium and RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group), The Transcriptional Landscape of the Mammalian Genome. Science. 2005;309(5740):1559-1563
    • Latest
      J:252161 Li N, et al., Mutations in the Histone Modifier PRDM6 Are Associated with Isolated Nonsyndromic Patent Ductus Arteriosus. Am J Hum Genet. 2016 Jun 2;98(6):1082-1091

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB), Gene Ontology (GO)
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    last database update
    10/08/2019
    MGI 6.14
    The Jackson Laboratory