cdx1.S caudal type homeobox 1 S homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: cdx1.S
Official Full Name: caudal type homeobox 1 S homeolog
Primary source: Xenbase:XB-GENE-864834
Locus tag: XELAEV_18020055mg
See related: EnsemblRapid:ENSXLAG00005020634 AllianceGenome:Xenbase:XB-GENE-864834
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: cad2; cdx1; cdx-1; xCAD2; xtcad2
Summary: Predicted to enable methyl-CpG binding activity and transcription cis-regulatory region binding activity. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Is expressed in ectoderm; endoderm; and nervous system. Orthologous to human CDX1 (caudal type homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

Location:: chromosome: 3S

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	3S	NC_054376.1 (16163853..16179944, complement)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	3S	NC_030729.1 (15878589..15894677, complement)

Chromosome 3S - NC_054376.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Oct3/4 initiates its own negative autoregulation through Cdx1 up-regulation to begin the repression of pluripotency in preparation for the onset of gastrulation and germ layer differentiation.
Title: Negative autoregulation of Oct3/4 through Cdx1 promotes the onset of gastrulation.

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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, RNA polymerase II-specific	IEA Inferred from Electronic Annotation 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
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
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: homeobox protein CDX-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_001087706.1 → NP_001081175.1 homeobox protein CDX-1

See identical proteins and their annotated locations for NP_001081175.1

Status: PROVISIONAL

Source sequence(s)

U04302

UniProtKB/Swiss-Prot

Q91622

UniProtKB/TrEMBL

A0A974D706, A6H8J8

Related

ENSXLAP00005060488.1, ENSXLAT00005061937.1

Conserved Domains (2) summary

pfam00046
Location:154 → 206

Homeobox; Homeobox domain

pfam04731
Location:13 → 131

Caudal_act; Caudal like protein activation region

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054376.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

16163853..16179944 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)