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

  
  
• Chr Location
  17p13.1; chr17:7834200-7854800 (+)  GRCh38.p2

---

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

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  20 phenotypes from 7 alleles in 5 genetic backgrounds
  2 phenotypes from multigenic genotypes
  1 images
  22 phenotype references
  

• All Mutations and Alleles
  37
• Chemically induced (other)
  1
• Gene trapped
  21
• Targeted
  14
• Transgenic
  1
• Genomic Mutations
  1 involving Kdm6b
• Incidental Mutations
  Mutagenetix , APF , CvDC

Mice homozygous for a knock-out allele exhibit perinatal lethality associated with thick alveolar septum and absences of air space in the lungs. Bone marrow chimera mice derived from fetal liver cells exhibit impaired eosinophil recruitment and abnormal response to helminth infection.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  34
• GO References
  9

• External Resources
  FuncBase

Expression

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

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
• 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
• 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 64

  Developmental Gene Expression 7

  Gene Ontology 9

  Phenotypes 22
• Earliest
  J:86686 Okazaki N, et al., Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. DNA Res. 2003 Aug 31;10(4):167-80
• Latest
  J:234488 Merkwirth C, et al., Two Conserved Histone Demethylases Regulate Mitochondrial Stress-Induced Longevity. Cell. 2016 May 19;165(5):1209-23