cdx1 caudal type homeobox 1 [Xenopus tropicalis (tropical clawed frog)] - Gene

Summary

Official Symbol: cdx1provided by Xenbase
Official Full Name: caudal type homeobox 1provided by Xenbase
Primary source: Xenbase:XB-GENE-485396
See related: Ensembl:ENSXETG00000010282 AllianceGenome:Xenbase:XB-GENE-485396
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus tropicalis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as: cdx-1; xcad2; xtcad2
Summary: Predicted to enable DNA-binding transcription factor activity; RNA polymerase II transcription regulatory region sequence-specific DNA binding activity; and methyl-CpG binding activity. Predicted to be involved in several processes, including anterior/posterior axis specification; digestive tract development; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in nervous system. Orthologous to human CDX1 (caudal type homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 3

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
104	current	UCB_Xtro_10.0 (GCF_000004195.4)	3	NC_030679.2 (21131624..21149943, complement)
103	previous assembly	Xenopus_tropicalis_v9.1 (GCF_000004195.3)	3	NC_030679.1 (7356348..7374654)

Chromosome 3 - NC_030679.2 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results suggest that Ventx1.1 negatively regulates its own transcription in competition with Xcad2, thereby fine-tuning its own expression levels during dorsoventral patterning of Xenopus early embryo.
Title: Ventx1.1 competes with a transcriptional activator Xcad2 to regulate negatively its own expression.
during amphibian development the overall landscape of Cdx activity in the embryo is more important than the specific function of individual Cdx proteins
Title: Overlapping functions of Cdx1, Cdx2, and Cdx4 in the development of the amphibian Xenopus tropicalis.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by Xenbase

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, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables methyl-CpG binding	ISS Inferred from Sequence or Structural Similarity more info
enables transcription cis-regulatory region binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in anterior/posterior axis specification	IBA Inferred from Biological aspect of Ancestor more info
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 positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within 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
acts_upstream_of_or_within 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

General protein information

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Preferred Names: homeobox protein CDX-1

Names: cad2; caudal type homeo box transcription factor 1; caudal type homeobox transcription factor 1

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)

NM_204085.1 → NP_989416.1 homeobox protein CDX-1

See identical proteins and their annotated locations for NP_989416.1

Status: PROVISIONAL

Source sequence(s)

AF417198

UniProtKB/Swiss-Prot

Q90X89

UniProtKB/TrEMBL

B7ZUR8, F6ZM30

Related

ENSXETP00000022650.4, ENSXETT00000022650.5

Conserved Domains (2) summary

pfam00046
Location:153 → 205

Homeobox; Homeobox domain

pfam04731
Location:13 → 133

Caudal_act; Caudal like protein activation region