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Kdm5d Gene Detail
Summary
  • Symbol
    Kdm5d
  • Name
    lysine demethylase 5D
  • Synonyms
    HY, Jarid1d, Smcy
  • Feature Type
    protein coding gene
  • IDs
    MGI:99780
    NCBI Gene: 20592
  • Alliance
    gene page
  • Transcription Start Sites
    3 TSS
Location &
Maps
more
  • Sequence Map
    ChrY:897566-943813 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome Y, cytoband p
  • Mapping Data
    8 experiments
Strain
Comparison
more
  • SNPs within 2kb
    40 from dbSNP Build 142
  • Strain Annotations
    1
  • PCR
    1
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_99780
 protein coding gene ChrY:897566-956786 (+)
129S1/SvImJ no annotation
A/J no annotation
AKR/J no annotation
BALB/cJ no annotation
C3H/HeJ no annotation
C57BL/6NJ no annotation
CAROLI/EiJ no annotation
CAST/EiJ no annotation
CBA/J no annotation
DBA/2J no annotation
FVB/NJ no annotation
LP/J no annotation
NOD/ShiLtJ no annotation
NZO/HlLtJ no annotation
PWK/PhJ no annotation
SPRET/EiJ no annotation
WSB/EiJ no annotation



Homology
more
  • Human Ortholog
    KDM5D, lysine demethylase 5D
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    KDM5D, lysine demethylase 5D
  • Synonyms
    HY, HYA, JARID1D, SMCY
  • Links
    NCBI Gene ID: 8284
    neXtProt AC: NX_Q9BY66
    UniProt: Q9BY66

  • Chr Location
    Yq11.223; chrY:19703865-19744939 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    1 phenotype from 1 allele in 1 genetic background
    7 phenotype references
Male mice hemizygous for a null allele exhibit normal fertility.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    16
  • GO References
    7
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
    832
  • Tissues
    74
  • cDNA Data
    39
  • Literature Summary
    14
Sequences &
Gene Models
less
Representative SequencesLengthStrain/SpeciesFlank
genomic 20592 NCBI Gene Model | MGI Sequence Detail 46248 C57BL/6J ±  kb
transcript NM_011419 RefSeq | MGI Sequence Detail 7976 ZRU/MplStud  
polypeptide Q62240 UniProt | EBI | MGI Sequence Detail 1548 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 66
    Genomic 13
    cDNA 43
    Primer pair 7
    Other 3

    Microarray probesets 5
Other
Accession IDs
less
MGD-MRK-16566
References
more
  • Summaries
    All 58
    Developmental Gene Expression 14
    Gene Ontology 7
    Phenotypes 7
  • Earliest
    J:23697 Burgoyne PS, et al., Spermatogenic failure in male mice lacking H-Y antigen. Nature. 1986 Mar 13-19;320(6058):170-2
  • Latest
    J:340087 Li J, et al., Histone demethylase KDM5D upregulation drives sex differences in colon cancer. Nature. 2023 Jul;619(7970):632-639
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
04/23/2024
MGI 6.23 		The Jackson Laboratory