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Lhx1 Gene Detail
Summary
  • Symbol
    Lhx1
  • Name
    LIM homeobox protein 1
  • Synonyms
    Lim1
  • Feature Type
    protein coding gene
  • IDs
    MGI:99783
    NCBI Gene: 16869
  • Alliance
    gene page
  • Transcription Start Sites
    4 TSS
Location &
Maps
more
  • Sequence Map
    Chr11:84409110-84416361 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 11, 51.31 cM
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    55 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    3
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_99783
 protein coding gene Chr11:84408801-84416361 (-)
129S1/SvImJ MGP_129S1SvImJ_G0018870
 protein coding gene Chr11:85939901-85947133 (-)
A/J MGP_AJ_G0018837
 protein coding gene Chr11:82671188-82678420 (-)
AKR/J MGP_AKRJ_G0018807
 protein coding gene Chr11:85119245-85126491 (-)
BALB/cJ MGP_BALBcJ_G0018810
 protein coding gene Chr11:83056334-83063585 (-)
C3H/HeJ MGP_C3HHeJ_G0018624
 protein coding gene Chr11:85176710-85183942 (-)
C57BL/6NJ MGP_C57BL6NJ_G0019262
 protein coding gene Chr11:88557716-88564967 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0016895
 protein coding gene Chr11:79757164-79761810 (-)
CAST/EiJ MGP_CASTEiJ_G0018179
 protein coding gene Chr11:85800183-85807188 (-)
CBA/J MGP_CBAJ_G0018595
 protein coding gene Chr11:92329714-92336946 (-)
DBA/2J MGP_DBA2J_G0018703
 protein coding gene Chr11:82252023-82259310 (-)
FVB/NJ MGP_FVBNJ_G0018692
 protein coding gene Chr11:81733466-81740717 (-)
LP/J MGP_LPJ_G0018773
 protein coding gene Chr11:86478718-86485950 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0018719
 protein coding gene Chr11:92478487-92485738 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0019302
 protein coding gene Chr11:85400196-85407448 (-)
PWK/PhJ MGP_PWKPhJ_G0017948
 protein coding gene Chr11:83015954-83023340 (-)
SPRET/EiJ MGP_SPRETEiJ_G0017740
 protein coding gene Chr11:84944986-84952249 (-)
WSB/EiJ MGP_WSBEiJ_G0018230
 protein coding gene Chr11:85245770-85253001 (-)



Homology
more
  • Human Ortholog
    LHX1, LIM homeobox 1
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    LHX1, LIM homeobox 1
  • Synonyms
    LIM1, LIM-1
  • Links
    NCBI Gene ID: 3975
    neXtProt AC: NX_P48742
    UniProt: P48742

  • Chr Location
    17q12; chr17:36936785-36944612 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    80 phenotypes from 8 alleles in 11 genetic backgrounds
    13 phenotypes from multigenic genotypes
    59 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.
Homozygotes for targeted null mutations are small, fail to develop head structures anterior to rhombomere 3 in the hindbrain, lack kidneys and gonads, and show aberrant trajectories of limb motor axons. Most mutants die around embryonic day 10.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    99
  • GO References
    27
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
    2561
  • Tissues
    671
  • cDNA Data
    41
  • Literature Summary
    522
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000018698 Ensembl Gene Model | MGI Sequence Detail 7252 C57BL/6J ±  kb
    transcript ENSMUST00000018842 Ensembl | MGI Sequence Detail 3846 Not Applicable  
    polypeptide ENSMUSP00000018842 Ensembl | MGI Sequence Detail 406 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 95
      Genomic 3
      cDNA 49
      Primer pair 14
      Other 29

      Microarray probesets 4
    Other
    Accession IDs
    less
    MGD-MRK-16569
    References
    more
    • Summaries
      All 589
      Developmental Gene Expression 522
      Gene Ontology 27
      Phenotypes 59
    • Earliest
      J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
    • Latest
      J:344102 Racedo SE, et al., Dgcr8 functions in the secondary heart field for outflow tract and right ventricle development in mammals. Dev Biol. 2024 Feb;506:72-84
    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
    04/16/2024
    MGI 6.23     		The Jackson Laboratory