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Kdm3a Gene Detail
Summary
  • Symbol
    Kdm3a
  • Name
    lysine (K)-specific demethylase 3A
  • Synonyms
    1700105C21Rik, C230043E16Rik, Jmjd1, Jmjd1a, mKIAA0742, Tsga
  • Feature Type
    protein coding gene
  • IDs
    MGI:98847
    NCBI Gene: 104263
  • Alliance
    gene page
  • Transcription Start Sites
    8 TSS
Location &
Maps
more
  • Sequence Map
    Chr6:71565954-71609963 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 6, 32.18 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    777 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_98847
 protein coding gene Chr6:71565954-71609974 (-)
129S1/SvImJ MGP_129S1SvImJ_G0030861
 protein coding gene Chr6:72075601-72122018 (-)
A/J MGP_AJ_G0030831
 protein coding gene Chr6:69304762-69351573 (-)
AKR/J MGP_AKRJ_G0030760
 protein coding gene Chr6:71312617-71357859 (-)
BALB/cJ MGP_BALBcJ_G0030842
 protein coding gene Chr6:69336022-69382442 (-)
C3H/HeJ MGP_C3HHeJ_G0030870
 protein coding gene Chr6:112892450-112937691 (+)
C57BL/6NJ MGP_C57BL6NJ_G0031300
 protein coding gene Chr6:73983870-74031092 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0028489
 protein coding gene Chr6:68489070-68532595 (-)
CAST/EiJ MGP_CASTEiJ_G0029950
 protein coding gene Chr6:71162035-71206758 (-)
CBA/J MGP_CBAJ_G0030529
 protein coding gene Chr6:76928826-76980454 (-)
DBA/2J MGP_DBA2J_G0030681
 protein coding gene Chr6:68688024-68734097 (-)
FVB/NJ MGP_FVBNJ_G0030634
 protein coding gene Chr6:68045897-68090617 (-)
LP/J MGP_LPJ_G0030760
 protein coding gene Chr6:72001455-72050095 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0030669
 protein coding gene Chr6:80409085-80455298 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0031326
 protein coding gene Chr6:71141044-71185819 (-)
PWK/PhJ MGP_PWKPhJ_G0029666
 protein coding gene Chr6:67563890-67608438 (-)
SPRET/EiJ MGP_SPRETEiJ_G0029494
 protein coding gene Chr6:69860044-69905521 (-)
WSB/EiJ MGP_WSBEiJ_G0030032
 protein coding gene Chr6:71494183-71539498 (-)



Homology
more
  • Human Ortholog
    KDM3A, lysine demethylase 3A
  • Vertebrate Orthologs
    2
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    KDM3A, lysine demethylase 3A
  • Synonyms
    JHDM2A, JHMD2A, JMJD1, JMJD1A, TSGA
  • Links
    NCBI Gene ID: 55818
    neXtProt AC: NX_Q9Y4C1
    UniProt: Q9Y4C1

  • Chr Location
    2p11.2; chr2:86437044-86492716 (+)  GRCh38
Human Diseases
more
  • Diseases
    1 with Kdm3a mouse models; 2 with human KDM3A associations

Human Disease Mouse Models
      
IDs
 View 1 model
      
IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    1 with disease annotations
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    57 phenotypes from 5 alleles in 6 genetic backgrounds
    2 images
    36 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.
Male mice homozygous for a hypomorphic allele display infertility, oligoasthenoteratozoospermia, small testis, and impaired spermiogenesis. Mice homozygous for a null allele exhibit abnormal spermatogenesis and obesity associated with hyperlipidemia.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    45
  • GO References
    13
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 differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
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
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
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
    719
  • Tissues
    7
  • cDNA Data
    276
  • Literature Summary
    15
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 104263 NCBI Gene Model | MGI Sequence Detail 44010 C57BL/6J ±  kb
    transcript NM_173001 RefSeq | MGI Sequence Detail 4857 C57BL/6  
    polypeptide Q6PCM1 UniProt | EBI | MGI Sequence Detail 1323 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 279
      cDNA 277
      Primer pair 2

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-15272, MGI:1920820, MGI:2444882
    References
    more
    • Summaries
      All 86
      Developmental Gene Expression 15
      Diseases 1
      Gene Ontology 13
      Phenotypes 36
    • Earliest
      J:11619 Hoog C, et al., Analysis of a murine male germ cell-specific transcript that encodes a putative zinc finger protein. Mol Reprod Dev. 1991 Nov;30(3):173-81
    • Latest
      J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136
    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)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    10/22/2024
    MGI 6.24     		The Jackson Laboratory