About   Help   FAQ
Lhx6 Gene Detail
Summary
  • Symbol
    Lhx6
  • Name
    LIM homeobox protein 6
  • Feature Type
    protein coding gene
  • IDs
    MGI:1306803
    NCBI Gene: 16874
  • Alliance
    gene page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:35971965-35995420 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 24.17 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    413 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1306803
 protein coding gene Chr2:35971962-35996004 (-)
129S1/SvImJ MGP_129S1SvImJ_G0025660
 protein coding gene Chr2:34762315-34785762 (-)
A/J MGP_AJ_G0025637
 protein coding gene Chr2:33279999-33303461 (-)
AKR/J MGP_AKRJ_G0025607
 protein coding gene Chr2:34448044-34472292 (-)
BALB/cJ MGP_BALBcJ_G0025634
 protein coding gene Chr2:33395076-33418621 (-)
C3H/HeJ MGP_C3HHeJ_G0025394
 protein coding gene Chr2:34351563-34375052 (-)
C57BL/6NJ MGP_C57BL6NJ_G0026078
 protein coding gene Chr2:35746515-35769971 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0023487
 protein coding gene Chr2:31970952-31994445 (-)
CAST/EiJ MGP_CASTEiJ_G0024856
 protein coding gene Chr2:34343091-34366471 (-)
CBA/J MGP_CBAJ_G0025372
 protein coding gene Chr2:37139394-37164070 (-)
DBA/2J MGP_DBA2J_G0025505
 protein coding gene Chr2:33051394-33074904 (-)
FVB/NJ MGP_FVBNJ_G0025467
 protein coding gene Chr2:32959013-32982500 (-)
LP/J MGP_LPJ_G0025591
 protein coding gene Chr2:34684123-34708515 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0025498
 protein coding gene Chr2:36596875-36620391 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0026136
 protein coding gene Chr2:34345696-34370220 (-)
PWK/PhJ MGP_PWKPhJ_G0024604
 protein coding gene Chr2:32970156-32993773 (-)
SPRET/EiJ MGP_SPRETEiJ_G0024404
 protein coding gene Chr2:34517704-34541222 (-)
WSB/EiJ MGP_WSBEiJ_G0024925
 protein coding gene Chr2:34542349-34565809 (-)



Homology
more
  • Human Ortholog
    LHX6, LIM homeobox 6
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    LHX6, LIM homeobox 6
  • Synonyms
    hLHX6, LHX6.1
  • Links
    NCBI Gene ID: 26468
    neXtProt AC: NX_Q9UPM6
    UniProt: Q9UPM6

  • Chr Location
    9q33.2; chr9:122202577-122229626 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    20 phenotypes from 4 alleles in 4 genetic backgrounds
    3 phenotypes from multigenic genotypes
    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.
Homozygous mutation of this gene results in impaired migration and specification of cortical interneurons, postnatal lethality and weakness.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    23
  • GO References
    9
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
membraneless 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
    1363
  • Tissues
    394
  • cDNA Data
    23
  • Literature Summary
    210
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000026890 Ensembl Gene Model | MGI Sequence Detail 23456 C57BL/6J ±  kb
    transcript ENSMUST00000112960 Ensembl | MGI Sequence Detail 3345 Not Applicable  
    polypeptide ENSMUSP00000108584 Ensembl | MGI Sequence Detail 392 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 51
      cDNA 27
      Primer pair 5
      Other 19

      Microarray probesets 4
    References
    more
    • Summaries
      All 259
      Developmental Gene Expression 210
      Gene Ontology 9
      Phenotypes 36
    • Earliest
      J:48134 Grigoriou M, et al., Expression and regulation of Lhx6 and Lhx7, a novel subfamily of LIM homeodomain encoding genes, suggests a role in mammalian head development. Development. 1998 Jun;125(11):2063-74
    • Latest
      J:349166 Lozovaya N, et al., Basal Forebrain Cholinergic Neurons Have Specific Characteristics during the Perinatal Period. eNeuro. 2024 May;11(5):ENEURO.0538-23.2024
    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
    Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
    Send questions and comments to User Support.     		last database update
    11/12/2024
    MGI 6.24     		The Jackson Laboratory