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Cdx2 caudal type homeobox 2 [ Mus musculus (house mouse) ]

Gene ID: 12591, updated on 13-Feb-2024

Summary

Official Symbol
Cdx2provided by MGI
Official Full Name
caudal type homeobox 2provided by MGI
Primary source
MGI:MGI:88361
See related
Ensembl:ENSMUSG00000029646 AllianceGenome:MGI:88361
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
Cdx-2
Summary
Enables DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in intestinal epithelial cell differentiation; positive regulation of transcription by RNA polymerase II; and regulation of somitogenesis. Acts upstream of or within several processes, including endosome to lysosome transport; establishment or maintenance of epithelial cell apical/basal polarity; and in utero embryonic development. Located in condensed nuclear chromosome. Part of transcription repressor complex. Is expressed in several structures, including central nervous system; early conceptus; embryo mesoderm; genitourinary system; and gut. Orthologous to human CDX2 (caudal type homeobox 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in duodenum adult (RPKM 141.5), colon adult (RPKM 135.9) and 2 other tissues See more
Orthologs
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Genomic context

See Cdx2 in Genome Data Viewer
Location:
5 G3; 5 86.86 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (147237710..147244059, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (147300900..147307249, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene microRNA 7k Neighboring gene predicted gene, 35112 Neighboring gene ureidoimidazoline (2-oxo-4-hydroxy-4-carboxy-5) decarboxylase Neighboring gene predicted gene, 29778

Genomic regions, transcripts, and products

Expression

  • 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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (13)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables methyl-CpG binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in anterior/posterior axis specification IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within anterior/posterior pattern specification IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within blastocyst development IMP
Inferred from Mutant Phenotype
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 embryo development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within endosome to lysosome transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within establishment or maintenance of epithelial cell apical/basal polarity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intestinal epithelial cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within labyrinthine layer development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within pattern specification process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within placenta development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of somitogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within somatic stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of trophectodermal cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within trophectodermal cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within trophectodermal cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in condensed nuclear chromosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription repressor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
homeobox protein CDX-2
Names
caudal type homeo box 2
caudal-type homeobox protein 2

NCBI Reference Sequences (RefSeq)

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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_007673.3NP_031699.2  homeobox protein CDX-2

    See identical proteins and their annotated locations for NP_031699.2

    Status: PROVISIONAL

    Source sequence(s)
    AK049566
    Consensus CDS
    CCDS19878.1
    UniProtKB/Swiss-Prot
    P43241
    UniProtKB/TrEMBL
    Q543L9, Q8BQI5
    Related
    ENSMUSP00000031650.4, ENSMUST00000031650.4
    Conserved Domains (2) summary
    pfam00046
    Location:189241
    Homeobox; Homeobox domain
    pfam04731
    Location:13170
    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_000071.7 Reference GRCm39 C57BL/6J

    Range
    147237710..147244059 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)