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Hoxc4 Gene Detail
Summary
  • Symbol
    Hoxc4
  • Name
    homeobox C4
  • Synonyms
    Hox-3.5
  • Feature Type
    protein coding gene
  • IDs
    MGI:96195
    NCBI Gene: 15423
  • Member of
    Hoxc cluster
  • Alliance
    gene page
  • Transcription Start Sites
    4 TSS
Location &
Maps
more
  • Sequence Map
    Chr15:102927366-102945278 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 15, 58.08 cM
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    280 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_96195
 protein coding gene Chr15:102926531-102945281 (+)
129S1/SvImJ MGP_129S1SvImJ_G0022432
 protein coding gene Chr15:105254223-105274265 (+)
A/J MGP_AJ_G0022394
 protein coding gene Chr15:101098025-101116465 (+)
AKR/J MGP_AKRJ_G0022369
 protein coding gene Chr15:104168413-104186315 (+)
BALB/cJ MGP_BALBcJ_G0022398
 protein coding gene Chr15:101146154-101164258 (+)
C3H/HeJ MGP_C3HHeJ_G0022165
 protein coding gene Chr15:104246230-104266435 (+)
C57BL/6NJ MGP_C57BL6NJ_G0022847
 protein coding gene Chr15:109150065-109168505 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0020370
 protein coding gene Chr15:96867392-96884980 (+)
CAST/EiJ MGP_CASTEiJ_G0021691
 protein coding gene Chr15:105120536-105141440 (+)
CBA/J MGP_CBAJ_G0022134
 protein coding gene Chr15:112985558-113008382 (+)
DBA/2J MGP_DBA2J_G0022265
 protein coding gene Chr15:100368608-100386847 (+)
FVB/NJ MGP_FVBNJ_G0022241
 protein coding gene Chr15:99437545-99455448 (+)
LP/J MGP_LPJ_G0022334
 protein coding gene Chr15:105390860-105409894 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0022263
 protein coding gene Chr15:116499197-116519858 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0022859
 protein coding gene Chr15:104207344-104227467 (+)
PWK/PhJ MGP_PWKPhJ_G0021431
 protein coding gene Chr15:100548353-100567189 (+)
SPRET/EiJ MGP_SPRETEiJ_G0021263
 protein coding gene Chr15:104038091-104057993 (+)
WSB/EiJ MGP_WSBEiJ_G0021741
 protein coding gene Chr15:104820461-104841819 (+)



Homology
more
  • Human Ortholog
    HOXC4, homeobox C4
  • Vertebrate Orthologs
    2
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    HOXC4, homeobox C4
  • Synonyms
    cp19, HOX3, HOX3E
  • Links
    NCBI Gene ID: 3221
    neXtProt AC: NX_P09017
    UniProt: P09017

  • Chr Location
    12q13.13; chr12:54016888-54056030 (+)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    27 phenotypes from 3 alleles in 3 genetic backgrounds
    33 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.
Mice homozygous for a knock-out allele exhibit some postnatal lethality (in the case of one allele but no the other), transformations of thoracic vertebrae, and abnormal rib attachment and sternebra morphology.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    21
  • GO References
    6
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
    830
  • Tissues
    80
  • cDNA Data
    16
  • Literature Summary
    45
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000075394 Ensembl Gene Model | MGI Sequence Detail 17913 C57BL/6J ±  kb
    transcript ENSMUST00000100164 Ensembl | MGI Sequence Detail 1983 Not Applicable  
    polypeptide ENSMUSP00000097740 Ensembl | MGI Sequence Detail 264 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 35
      Genomic 7
      cDNA 17
      Primer pair 6
      Other 5

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-10843, MGD-MRK-10896
    References
    more
    • Summaries
      All 97
      Developmental Gene Expression 45
      Diseases 1
      Gene Ontology 6
      Phenotypes 33
    • Earliest
      J:7688 Lane PW, et al., Association of megacolon with a new dominant spotting gene (Dom) in the mouse. J Hered. 1984 Nov-Dec;75(6):435-9
    • Latest
      J:338694 Kumar S, et al., Sf3b4 regulates chromatin remodeler splicing and Hox expression. Differentiation. 2023 May-Jun;131:59-73
    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
    11/19/2024
    MGI 6.24     		The Jackson Laboratory