otx2 orthodenticle homeobox 2 [Xenopus tropicalis (tropical clawed frog)] - Gene

Summary

Official Symbol: otx2provided by Xenbase
Official Full Name: orthodenticle homeobox 2provided by Xenbase
Primary source: Xenbase:XB-GENE-485220
See related: Ensembl:ENSXETG00000015687 AllianceGenome:Xenbase:XB-GENE-485220
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: otxA; Xotx2; otx-2; Xotx-2; mcops5; otx2-a; otx2-b
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including brain development; cellular response to alcohol; and retinal pigment epithelium development. Predicted to be active in nucleus. Is expressed in ectoderm; nervous system; sensory system; and visual system. Human ortholog(s) of this gene implicated in panhypopituitarism and syndromic microphthalmia 5. Orthologous to human OTX2 (orthodenticle homeobox 2). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 8

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
104	current	UCB_Xtro_10.0 (GCF_000004195.4)	8	NC_030684.2 (104113601..104120481)
103	previous assembly	Xenopus_tropicalis_v9.1 (GCF_000004195.3)	8	NC_030684.1 (83828653..83836427)

Chromosome 8 - NC_030684.2 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Otx2 upregulate or downregulate a large battery of target genes in the head organizer.
Title: Occupancy of tissue-specific cis-regulatory modules by Otx2 and TLE/Groucho for embryonic head specification.
A small 'specificity box' is necessary to confer on XOTX2 and XOTX5b their distinct activities in the developing frog retina and to convert the neutral orthologous OTD protein of Drosophila into a positive and specific XOTX-like retinal regulator.
Title: A specific box switches the cell fate determining activity of XOTX2 and XOTX5b in the Xenopus retina.
The obligate integration of inputs of a field-selector (Otx2) and localized signaling (Notch) within target cis-regulatory elements might be a general mechanism of organ-field specification in vertebrates (as it is in Drosophila).
Title: Convergence of a head-field selector Otx2 and Notch signaling: a mechanism for lens specification.

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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	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 cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to alcohol	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebellum development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hindbrain development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within midbrain development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within midbrain-hindbrain boundary development	IEA Inferred from Electronic Annotation 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 retinal pigment epithelium development	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 OTX2

Names: orthodenticle 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)

NM_001016177.2 → NP_001016177.1 homeobox protein OTX2

See identical proteins and their annotated locations for NP_001016177.1

Status: PROVISIONAL

Source sequence(s)

CR761863

UniProtKB/Swiss-Prot

A4II69, Q28FN6

Conserved Domains (2) summary

pfam00046
Location:42 → 94

Homeobox; Homeobox domain

pfam03529
Location:153 → 234

TF_Otx; Otx1 transcription factor