rx1 retinal homeobox gene 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rx1provided by ZNC
Official Full Name: retinal homeobox gene 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-236
See related: Ensembl:ENSDARG00000071684 AllianceGenome:ZFIN:ZDB-GENE-990415-236
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
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. Acts upstream of or within camera-type eye photoreceptor cell differentiation and retina layer formation. Predicted to be located in nucleus. Is expressed in eye; optic cup; optic primordium; and optic vesicle. Human ortholog(s) of this gene implicated in age related macular degeneration 6; cone-rod dystrophy 11; isolated microphthalmia 3; and retinitis pigmentosa. Orthologous to several human genes including RAX2 (retina and anterior neural fold homeobox 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 22

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	22	NC_007133.7 (4999256..5006774, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	22	NC_007133.6 (4614881..4622399, complement)

Chromosome 22 - NC_007133.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

rx1 is required for retinal neurogenesis and photoreceptor differentiation in embryonic zebrafish.
Title: Retinal homeobox 1 is required for retinal neurogenesis and photoreceptor differentiation in embryonic zebrafish.

Submit: New GeneRIF Correction

General gene information

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Markers

AF001907 (e-PCR)
- UniSTS:187029

AF001907 (e-PCR)
- UniSTS:205515

Gene Ontology Provided by ZFIN

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 camera-type eye photoreceptor cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within camera-type eye photoreceptor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural retina development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	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 retina layer formation	IMP Inferred from Mutant Phenotype more info	PubMed

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

General protein information

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Preferred Names: retinal homeobox protein Rx1

Names: etID309857.22

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.