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Cdx4 caudal type homeobox 4 [ Mus musculus (house mouse) ]

Gene ID: 12592, updated on 11-Jun-2025
Official Symbol
Cdx4provided by MGI
Official Full Name
caudal type homeobox 4provided by MGI
Primary source
MGI:MGI:88362
See related
Ensembl:ENSMUSG00000031326 AllianceGenome:MGI:88362
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Cdx3; Cdx-3; Cdx-4
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including blood vessel development; labyrinthine layer development; and negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in several structures, including embryo mesenchyme; extraembryonic component; genitourinary system; gut; and neural tube. Orthologous to human CDX4 (caudal type homeobox 4). [provided by Alliance of Genome Resources, Jun 2025]
Expression
Low expression observed in reference dataset See more
Orthologs
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See Cdx4 in Genome Data Viewer
Location:
X D; X 46.06 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (102365004..102373830)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (103321398..103330224)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930519F16 gene Neighboring gene ribosomal protein L18A pseudogene Neighboring gene UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_47686 Neighboring gene STARR-seq mESC enhancer starr_47688 Neighboring gene predicted gene 9516 Neighboring gene cysteine-rich hydrophobic domain 1 Neighboring gene testis specific X-linked gene

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
Products Interactant Other Gene Complex Source Pubs Description

Markers

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in anterior/posterior axis specification IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in anterior/posterior pattern specification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within anterior/posterior pattern specification IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within blood vessel development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in digestive tract development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in embryonic pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within labyrinthine layer development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within placenta development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
homeobox protein CDX-4
Names
caudal type homeo box 4
caudal-type homeobox protein 4

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_007674.3NP_031700.1  homeobox protein CDX-4

    See identical proteins and their annotated locations for NP_031700.1

    Status: PROVISIONAL

    Source sequence(s)
    AL669964
    Consensus CDS
    CCDS30328.1
    UniProtKB/Swiss-Prot
    Q07424
    UniProtKB/TrEMBL
    Q78Z64
    Related
    ENSMUSP00000033689.3, ENSMUST00000033689.3
    Conserved Domains (2) summary
    pfam00046
    Location:175227
    Homeobox; Homeobox domain
    pfam04731
    Location:13160
    Caudal_act; Caudal like protein activation region

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    102365004..102373830
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)