ZFIN Gene: rx3

ZFIN ID: ZDB-GENE-990415-238

ZFIN ID: ZDB-GENE-990415-238

Gene Name:

retinal homeobox gene 3

Gene Symbol:

rx3 Nomenclature History

Previous Names:

chk, chokh, eyes missing (1), eym (1)

Gene Type:

protein_coding_gene

Location:

Chr: 21 Mapping Details/Browsers

Description:

Predicted to have sequence-specific DNA binding activity. Involved in animal organ development and cell fate specification. Predicted to localize to nucleus. Is expressed in several structures, including forebrain; neural keel; neural plate; presumptive neural plate; and retina. Human ortholog(s) of this gene implicated in isolated microphthalmia 3. Orthologous to human RAX (retina and anterior neural fold homeobox).

Genome Resources:

Alliance (1), Gene:30474 (1), Ensembl(GRCz11):ENSDARG00000052893 (2)

GENE EXPRESSION
All Expression Data:	80 figures from 48 publications
Wild-type Stages, Structures:	Gastrula:Shield (6.0h-8.0h) to Adult (90d-730d, breeding adult)
	anterior neural plate anterior neural rod caudal hypothalamic zone diencephalon ventral region diencephalon forebrain ventral region forebrain forebrain neural keel forebrain neural plate hypothalamus anterior region hypothalamus immature eye lateral recess anatomical region lateral recess neural keel neural plate optic primordium optic stalk optic vesicle preoptic area presumptive brain presumptive diencephalon ventral region presumptive diencephalon presumptive neural plate retina multi fate stem cell retina retinal inner nuclear layer telencephalon third ventricle anatomical region third ventricle unspecified whole organism
High Throughput Expression:	GEO (1) , Expression Atlas (1)

MUTATIONS AND SEQUENCE TARGETING REAGENTS

Allele	Type	Localization	Consequence	Mutagen	Suppliers
hu499	Point Mutation	Unknown	Missense	ENU
ne2611	Point Mutation	Exon 2	Missense	ENU
rx3_unspecified	Unspecified	Unknown	Unknown
s399	Point Mutation	Unknown	Premature Stop	ENU
sa29528	Point Mutation	Unknown	Splice Site	ENU
t25181	Point Mutation	Unknown	Missense	ENU	European Zebrafish Resource Center (EZRC) (order this)
t25327	Point Mutation	Unknown	Premature Stop	ENU	European Zebrafish Resource Center (EZRC) (order this)
w29	Point Mutation	Exon 2	Premature Stop	ENU	Zebrafish International Resource Center (ZIRC) (order this)

Sequence Targeting Reagents

Targeting Reagent	Created Alleles	Publications
CRISPR1-rx3		1
CRISPR2-rx3		1
MO1-rx3	N/A	3
MO2-rx3	N/A	2
MO3-rx3	N/A	2

PHENOTYPE

Data:

20 figures from 10 publications

Observed in:

DISEASE ASSOCIATED WITH rx3 HUMAN ORTHOLOG

Disease Ontology Term	Multi-Species Data	OMIM Term	OMIM Phenotype ID
isolated microphthalmia 3	Alliance	Microphthalmia, isolated 3	611038

DISEASE ASSOCIATED WITH rx3 VIA EXPERIMENTAL MODELS No data available

GENE ONTOLOGY

Ontology	GO Term
Biological Process	adenohypophysis development (more)
Cellular Component	nucleus (more)
Molecular Function	DNA binding (more)

GO Terms (all 15)

PROTEIN FAMILIES, DOMAINS AND SITES No links to external sites available

TRANSCRIPTS
Type	Name	Length (nt)	Analysis
mRNA	rx3-201 (1)	1411	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT

Browsers: UCSC, NCBI, Ensembl, ZFIN

INTERACTIONS AND PATHWAYS

ANTIBODIES No data available

PLASMIDS No data available

CONSTRUCTS WITH SEQUENCES FROM rx3

Construct	Regulatory Regions	Coding Sequences	Species	Tg Lines	Publications
Tg(rx3:Kaede)	rx3	Kaede	Danio rerio	1	1

MARKER RELATIONSHIPS

rx3 Contained in:	[BAC] CH211-233A1 (1)
rx3 Encodes:	[cDNA] MGC:195183 (1), MGC:195186 (1)

SEQUENCE INFORMATION

Type	Accession #	Length (nt/aa)	Analysis
RNA	RefSeq:NM_131227 (1)	1322 nt	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT
Genomic	GenBank:BX248399 (1)	158884 nt	Select Tool MegaBLAST Ensembl
Polypeptide	UniProtKB:A8E7H4 (1)	292 aa	Select Tool ZFIN BLAST SIB BLAST Ensembl Protein Blast

Sequence Information (all 16)

ORTHOLOGY for rx3 ( Chr: 21 )

CITATIONS (117)

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