Kdm6b Gene Detail

Summary

• Symbol
  Kdm6b
• Name
  KDM1 lysine (K)-specific demethylase 6B
• Synonyms
  Jmjd3, mKIAA0346

• Feature Type
  protein coding gene
• IDs
  MGI:2448492
  NCBI Gene: 216850

Location & Maps

• Sequence Map
  Chr11:69398508-69413675 bp, - strand
• From VEGA annotation of GRCm38
  

  Mouse Genome Browser
  
  

• Download
  Sequence
    15168 bp   ±  kb flank
  
  
• Genome Browsers
  VEGA | Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 11, 42.60 cM
• Mapping Data
  1 experiment

Homology

• Human Ortholog
  KDM6B, lysine demethylase 6B

• Vertebrate Orthologs
  7

• Human Ortholog
  KDM6B, lysine demethylase 6B
  Orthology source: HomoloGene, HGNC
• Synonyms
  JMJD3
• Links
  HGNC:29012

  NCBI Gene ID: 23135

  neXtProt AC: NX_O15054

  UniProt: O15054

  
  
• Chr Location
  17p13.1; chr17:7834210-7854800 (+)  GRCh38.p7

---

• HomoloGene
  Vertebrate Homology Class 18945
  1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 macaque, rhesus
  
• HCOP
  human homology predictions: KDM6B
• Gene Tree
  Kdm6b
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  38 phenotypes from 8 alleles in 6 genetic backgrounds
  2 phenotypes from multigenic genotypes
  1 images
  24 phenotype references
  

• All Mutations and Alleles
  39
• Chemically induced (other)
  1
• Gene trapped
  21
• Targeted
  16
• Transgenic
  1
• Genomic Mutations
  1 involving Kdm6b
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  33 strains or lines available

Mice homozygous for a null allele show perinatal death, thick alveolar septum, and absence of air space in the lungs. Mice homozygous for a different null allele die neonatally displaying abnormal lung development, dwarfism, kyphosis, short limbs, and a severe delay in endochondral ossification.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  26
• GO References
  8

• External Resources
  FuncBase

Expression

• Assay Results
  1
• Tissues
  1
• cDNA Data
  7
• Literature Summary
  9

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase kdm6b
  ZFIN kdm6ba, kdm6bb

Interactions

• Kdm6b interacts with 204 markers (Mir7-2, Mir7b, Mir9-1, ...) View All

Sequences &
Gene Models

• All Sequences
  37
• RefSeq
  14
• UniProt
  3
• CCDS
  CCDS24895.1

• VEGA
  OTTMUSG00000005979 (Evidence)
• Ensembl
  ENSMUSG00000018476 (Evidence)
• NCBI Gene
  216850

Representative Sequences			Length	Strain/Species
genomic	OTTMUSG00000005979	VEGA Gene Model | MGI Sequence Detail	15168	C57BL/6J
transcript	OTTMUST00000013375	VEGA | MGI Sequence Detail	6654	Not Applicable
polypeptide	OTTMUSP00000006193	VEGA | MGI Sequence Detail	1641	Not Applicable

Polymorphisms

• SNPs within 2kb
  78 from dbSNP Build 142

Protein
Information

• UniProt
  3 Sequences
• Protein Ontology
  PR:000009217 lysine-specific demethylase 6B
  (term hierarchy)
• PDB
  4EYU, 4EZ4, 4EZH
• EC
  1.14.11.-
• InterPro Domains
  IPR003347 JmjC domain
  IPR029518 Lysine-specific demethylase 6B
  IPR011990 Tetratricopeptide-like helical domain

Molecular
Reagents

• All nucleic 8

  cDNA 7

  Other 1

  
  

  Microarray probesets 4

References

• Summaries
  All 68

  Developmental Gene Expression 9

  Gene Ontology 8

  Phenotypes 24
• Earliest
  J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
• Latest
  J:236600 Dahl JA, et al., Broad histone H3K4me3 domains in mouse oocytes modulate maternal-to-zygotic transition. Nature. 2016 Sep 14;537(7621):548-552