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Cdx1 Gene Detail
Summary
  • Symbol
    Cdx1
  • Name
    caudal type homeobox 1
  • Synonyms
    Cdx, Cdx-1
  • Feature Type
    protein coding gene
  • IDs
    MGI:88360
    NCBI Gene: 12590
  • Alliance
    genome feature page
  • Transcription Start Sites
    4 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:61151934-61169271 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 34.41 cM
  • Mapping Data
    6 experiments
Strain
Comparison
more
  • SNPs within 2kb
    549 from dbSNP Build 142
  • Strain Annotations
    19
  • RFLP
    3
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_88360
 protein coding gene Chr18:61151934-61169292 (-)
129S1/SvImJ ENSMUSG00200031724
 protein coding gene Chr18:58314768-58333990 (-)
A/J ENSMUSG00195005285
 protein coding gene Chr18:58382549-58399893 (-)
AKR/J ENSMUSG00220016070
 protein coding gene Chr18:58368099-58385425 (-)
BALB/cJ ENSMUSG00180011906
 protein coding gene Chr18:58949666-58967010 (-)
C3H/HeJ ENSMUSG00175032767
 protein coding gene Chr18:58564656-58582000 (-)
C57BL/6NJ ENSMUSG00215038555
 protein coding gene Chr18:57884545-57901886 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0022317
 protein coding gene Chr18:57807824-57825233 (-)
CAST/EiJ ENSTCUG00005026798
 protein coding gene Chr18:57586004-57603432 (-)
CBA/J ENSMUSG00210031423
 protein coding gene Chr18:58512309-58529654 (-)
DBA/2J ENSMUSG00185014768
 protein coding gene Chr18:58411944-58429283 (-)
FVB/NJ ENSMUSG00205014379
 protein coding gene Chr18:57896848-57914231 (-)
JF1/MsJ ENSUMUG00000019847
 protein coding gene Chr18:58285847-58303449 (-)
LP/J ENSMUSG00230011454
 protein coding gene Chr18:60474395-60493618 (-)
NOD/ShiLtJ ENSMUSG00190029777
 protein coding gene Chr18:58165617-58183229 (-)
NZO/HlLtJ ENSMUSG00225035170
 protein coding gene Chr18:60349102-60366719 (-)
PWK/PhJ ENSLUMG00010007626
 protein coding gene Chr18:58696088-58713724 (-)
SPRET/EiJ ENSMSPG00010017432
 protein coding gene Chr18:58941041-58958541 (-)
WSB/EiJ ENSIUOG00005008885
 protein coding gene Chr18:58038883-58056242 (-)



Homology
more
  • Human Ortholog
    CDX1, caudal type homeobox 1
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    CDX1, caudal type homeobox 1
  • Links
    NCBI Gene ID: 1044
    UniProt: P47902

  • Chr Location
    5q32; chr5:150166778-150184558 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    18 phenotypes from 4 alleles in 6 genetic backgrounds
    14 phenotypes from multigenic genotypes
    43 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 abnormalities of the basiocciptal bone, vertebrae, and ribs.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    39
  • GO References
    12
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
    983
  • Tissues
    197
  • cDNA Data
    41
  • Literature Summary
    65
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000024619 Ensembl Gene Model | MGI Sequence Detail 17338 C57BL/6J ±  kb
    transcript ENSMUST00000025521 Ensembl | MGI Sequence Detail 1750 Not Applicable  
    polypeptide ENSMUSP00000025521 Ensembl | MGI Sequence Detail 268 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 66
      Genomic 5
      cDNA 42
      Primer pair 11
      Other 8
      Antibodies 6

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-1888, MGD-MRK-1889, MGD-MRK-1893
    References
    more
    • Summaries
      All 158
      Developmental Gene Expression 65
      Gene Ontology 12
      Phenotypes 43
    • Earliest
      J:9557 Duprey P, et al., A mouse gene homologous to the Drosophila gene caudal is expressed in epithelial cells from the embryonic intestine. Genes Dev. 1988 Dec;2(12A):1647-54
    • Latest
      J:371855 Harland LTG, et al., A spatiotemporal atlas of mouse gastrulation and early organogenesis to explore axial patterning and project in vitro models onto in vivo space. Cell Rep. 2025 Aug 26;44(8):116047
    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)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/01/2026
    MGI 6.24     		The Jackson Laboratory