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CDX1 caudal type homeobox 1 [ Homo sapiens (human) ]

Gene ID: 1044, updated on 17-Jun-2019

Summary

Official Symbol
CDX1provided by HGNC
Official Full Name
caudal type homeobox 1provided by HGNC
Primary source
HGNC:HGNC:1805
See related
Ensembl:ENSG00000113722 MIM:600746
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene is a member of the caudal-related homeobox transcription factor gene family. The encoded DNA-binding protein regulates intestine-specific gene expression and enterocyte differentiation. It has been shown to induce expression of the intestinal alkaline phosphatase gene, and inhibit beta-catenin/T-cell factor transcriptional activity. [provided by RefSeq, Jul 2008]
Expression
Biased expression in colon (RPKM 56.3), small intestine (RPKM 34.1) and 2 other tissues See more
Orthologs

Genomic context

See CDX1 in Genome Data Viewer
Location:
5q32
Exon count:
3
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (150166778..150184558)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (149546344..149564121)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene colony stimulating factor 1 receptor Neighboring gene CSF1R promoter E1 Neighboring gene ribosomal protein L7 pseudogene 1 Neighboring gene platelet derived growth factor receptor beta Neighboring gene solute carrier family 6 member 7 Neighboring gene calcium/calmodulin dependent protein kinase II alpha

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC116915

Gene Ontology Provided by GOA

Process Evidence Code Pubs
animal organ morphogenesis TAS
Traceable Author Statement
more info
PubMed 
anterior/posterior axis specification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
bone morphogenesis IEA
Inferred from Electronic Annotation
more info
 
cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of somitogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
homeobox protein CDX-1
Names
caudal type homeo box transcription factor 1
caudal type homeobox transcription factor 1
caudal-type homeobox protein 1
caudal-type homeobox protein CDX1

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_046970.1 RefSeqGene

    Range
    5001..22778
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001804.3NP_001795.2  homeobox protein CDX-1

    See identical proteins and their annotated locations for NP_001795.2

    Status: REVIEWED

    Source sequence(s)
    AC005895, AF239666
    Consensus CDS
    CCDS4304.1
    UniProtKB/Swiss-Prot
    P47902
    Related
    ENSP00000231656.7, ENST00000231656.12
    Conserved Domains (2) summary
    pfam00046
    Location:158210
    Homeobox; Homeobox domain
    pfam04731
    Location:13138
    Caudal_act; Caudal like protein activation region

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    150166778..150184558
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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