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Scx Gene Detail
Summary
  • Symbol
    Scx
  • Name
    scleraxis scleraxis bHLH transcription factor
  • Synonyms
    bHLHa41, Scl
  • Feature Type
    protein coding gene
  • IDs
    MGI:102934
    NCBI Gene: 20289
  • Alliance
    genome feature page
  • Transcription Start Sites
    1 TSS
Location &
Maps
more
  • Sequence Map
    Chr15:76341652-76343658 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 15, 35.92 cM
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    54 from dbSNP Build 142
  • Strain Annotations
    18
  • PCR
    1
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_102934
 protein coding gene Chr15:76341594-76343668 (+)
129S1/SvImJ ENSMUSG00200050805
 protein coding gene Chr15:73455524-73459094 (+)
A/J ENSMUSG00195050502
 protein coding gene Chr15:73429995-73433565 (+)
AKR/J ENSMUSG00220048063
 protein coding gene Chr15:73440998-73444568 (+)
BALB/cJ ENSMUSG00180051587
 protein coding gene Chr15:73255134-73258704 (+)
C3H/HeJ ENSMUSG00175051883
 protein coding gene Chr15:73618559-73622129 (+)
C57BL/6NJ ENSMUSG00215048452
 protein coding gene Chr15:73347362-73350932 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0019929
 protein coding gene Chr15:70408009-70410041 (+)
CAST/EiJ ENSTCUG00005044558
 protein coding gene Chr15:72960981-72964551 (+)
CBA/J ENSMUSG00210037358
 protein coding gene Chr15:73393768-73397338 (+)
DBA/2J ENSMUSG00185049119
 protein coding gene Chr15:73370961-73374531 (+)
FVB/NJ ENSMUSG00205044207
 protein coding gene Chr15:73123252-73126822 (+)
JF1/MsJ ENSUMUG00000049872
 protein coding gene Chr15:73023487-73027125 (+)
LP/J ENSMUSG00230052557
 protein coding gene Chr15:76736496-76740066 (+)
NOD/ShiLtJ ENSMUSG00190052041
 protein coding gene Chr15:73377027-73379395 (+)
NZO/HlLtJ ENSMUSG00225050404
 protein coding gene Chr15:77042204-77045774 (+)
PWK/PhJ ENSLUMG00010049376
 protein coding gene Chr15:73315193-73318846 (+)
SPRET/EiJ no annotation
WSB/EiJ ENSIUOG00005037132
 protein coding gene Chr15:73443209-73446771 (+)



Homology
more
  • Human Ortholog
    SCX, scleraxis bHLH transcription factor
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SCX, scleraxis bHLH transcription factor
  • Synonyms
    bHLHa48, SCXA, SCXB
  • Links
    NCBI Gene ID: 642658
    UniProt: Q7RTU7

  • Chr Location
    8q24.3; chr8:144266453-144268481 (+)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    13 phenotypes from 5 alleles in 3 genetic backgrounds
    11 phenotypes from multigenic genotypes
    80 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 a targeted mutation develop normally up to E6.0-E6.5, but become arrested and fail to gastrulate and form mesodermal cells. In chimeric embryos, mutant cells are excluded from sclerotome-derived chondrogenic lineages but contribute to other cell types, including mesodermal tissues.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    66
  • GO References
    20
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
    1114
  • Tissues
    212
  • cDNA Data
    22
  • Literature Summary
    140
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000034161 Ensembl Gene Model | MGI Sequence Detail 2007 C57BL/6J ±  kb
    transcript ENSMUST00000043089 Ensembl | MGI Sequence Detail 1035 Not Applicable  
    polypeptide ENSMUSP00000043668 Ensembl | MGI Sequence Detail 207 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      3 Sequences
    • Protein Ontology
      PR:000014546 basic helix-loop-helix transcription factor scleraxis
      (term hierarchy)
    • InterPro Domains
      IPR050283 E-box Binding Transcriptional Regulators
      IPR036638 Helix-loop-helix DNA-binding domain superfamily
      IPR011598 Myc-type, basic helix-loop-helix (bHLH) domain
    Molecular
    Reagents
    less
    • All nucleic 53
      cDNA 24
      Primer pair 10
      Other 19

      Microarray probesets 4
    Other
    Accession IDs
    less
    MGD-MRK-23768, MGI:2146261
    References
    more
    • Summaries
      All 259
      Developmental Gene Expression 140
      Diseases 1
      Gene Ontology 20
      Phenotypes 80
    • Earliest
      J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
    • Latest
      J:390120 Trowe MO, et al., Mesenchymal WNT signaling coordinates epithelial and mesenchymal differentiation in the developing murine ureter. Cell Commun Signal. 2026 Jul 21;24(1)
    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
    09/08/2026
    MGI 6.24     		The Jackson Laboratory