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Msx1 Gene Detail
Summary
  • Symbol
    Msx1
  • Name
    msh homeobox 1
  • Synonyms
    Hox-7, Hox7, Hox7.1, msh, muscle-segment homeobox
  • Feature Type
    protein coding gene
  • IDs
    MGI:97168
    NCBI Gene: 17701
  • Alliance
    gene page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr5:37977835-37981929 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 5, 20.21 cM
  • Mapping Data
    28 experiments
Strain
Comparison
more
  • SNPs within 2kb
    136 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    7
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_97168
 protein coding gene Chr5:37977829-37981929 (-)
129S1/SvImJ MGP_129S1SvImJ_G0029504
 protein coding gene Chr5:36207946-36212043 (-)
A/J MGP_AJ_G0029470
 protein coding gene Chr5:35004479-35008552 (-)
AKR/J MGP_AKRJ_G0029420
 protein coding gene Chr5:36324955-36329032 (-)
BALB/cJ MGP_BALBcJ_G0029481
 protein coding gene Chr5:35494614-35498687 (-)
C3H/HeJ MGP_C3HHeJ_G0029204
 protein coding gene Chr5:36315842-36319909 (-)
C57BL/6NJ MGP_C57BL6NJ_G0029935
 protein coding gene Chr5:38147604-38151702 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0027173
 protein coding gene Chr5:32691677-32695688 (-)
CAST/EiJ MGP_CASTEiJ_G0028612
 protein coding gene Chr5:35485296-35489297 (-)
CBA/J MGP_CBAJ_G0029171
 protein coding gene Chr5:39033978-39038055 (-)
DBA/2J MGP_DBA2J_G0029318
 protein coding gene Chr5:35122456-35126553 (-)
FVB/NJ MGP_FVBNJ_G0029277
 protein coding gene Chr5:34599812-34603910 (-)
LP/J MGP_LPJ_G0029404
 protein coding gene Chr5:36658512-36662600 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0029307
 protein coding gene Chr5:39767354-39771446 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0029968
 protein coding gene Chr5:35820019-35824085 (-)
PWK/PhJ MGP_PWKPhJ_G0028336
 protein coding gene Chr5:34296278-34300294 (-)
SPRET/EiJ MGP_SPRETEiJ_G0028170
 protein coding gene Chr5:35282860-35286854 (-)
WSB/EiJ MGP_WSBEiJ_G0028693
 protein coding gene Chr5:35898474-35902549 (-)



Homology
more
  • Human Ortholog
    MSX1, msh homeobox 1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    MSX1, msh homeobox 1
  • Synonyms
    ECTD3, HOX7, HYD1, STHAG1
  • Links
    NCBI Gene ID: 4487
    neXtProt AC: NX_P28360
    UniProt: P28360

  • Chr Location
    4p16.2; chr4:4859665-4863936 (+)  GRCh38
Human Diseases
more
  • Diseases
    2 with Msx1 mouse models; 6 with human MSX1 associations

Human Disease Mouse Models
      
IDs
 View 3 models
      
IDs
 View 1 model
      
IDs
IDs
IDs
IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    2 with disease annotations
  • References
    4 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    57 phenotypes from 6 alleles in 10 genetic backgrounds
    99 phenotypes from multigenic genotypes
    121 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.
Mutants affect craniofacial neural crest-derived mesenchyme by controlling cell cycle progression. Homozygous null mutants die at birth with multiple craniofacial defects including cleft palate, reduced mandible and maxilla, and retarded tooth development.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    119
  • GO References
    42
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
    2667
  • Tissues
    1009
  • cDNA Data
    70
  • Literature Summary
    600
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 17701 NCBI Gene Model | MGI Sequence Detail 4095 C57BL/6J ±  kb
    transcript NM_010835 RefSeq | MGI Sequence Detail 1931 ZRU/MplStud  
    polypeptide P13297 UniProt | EBI | MGI Sequence Detail 303 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 190
      Genomic 15
      cDNA 84
      Primer pair 20
      Other 71

      Microarray probesets 4
    Other
    Accession IDs
    less
    MGD-MRK-10867, MGD-MRK-12570, MGI:2140786, MGI:2140836
    References
    more
    • Summaries
      All 759
      Developmental Gene Expression 600
      Diseases 4
      Gene Ontology 42
      Phenotypes 121
    • Earliest
      J:5021 Batchelor AL, et al., A comparison of the mutagenic effectiveness of chronic neutron- and gamma-irradiation of mouse spermatogonia. Mutat Res. 1966 Jun;3(3):218-29
    • Latest
      J:357409 Padmanabhan A, et al., A genome-wide CRISPR screen identifies BRD4 as a regulator of cardiomyocyte differentiation. Nat Cardiovasc Res. 2024 Mar;3(3):317-331
    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
    11/12/2024
    MGI 6.24     		The Jackson Laboratory