roraa RAR-related orphan receptor A, paralog a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: roraaprovided by ZNC
Official Full Name: RAR-related orphan receptor A, paralog aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-060306-2
See related: Ensembl:ENSDARG00000031768 AllianceGenome:ZFIN:ZDB-GENE-060306-2
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
Also known as: rora2; RORalpha-B; gb:dq017624
Summary: Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Acts upstream of or within cerebellum morphogenesis and positive regulation of gene expression. Predicted to be active in nucleus. Is expressed in brain and eye. Orthologous to human RORA (RAR related orphan receptor A). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 25

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	25	NC_007136.7 (33501643..33969724)
105	previous assembly	GRCz10 (GCF_000002035.5)	25	NC_007136.6 (33121834..33479194)

Chromosome 25 - NC_007136.7 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?

study reports cloning and expression pattern of zebrafish ROR alpha orthologues rora1 and rora2; both rora1 and rora2 are spatially expressed in the retina and tectum; expression of rora2 was further observed in the cerebellum
Title: Expression of zebrafish ROR alpha gene in cerebellar-like structures.

Submit: New GeneRIF Correction

General gene information

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Markers

G38936 (e-PCR)
- UniSTS:46145

G47245 (e-PCR)
- UniSTS:108028

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	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
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor activity	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cerebellum morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of gene expression	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within rhythmic process	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: nuclear receptor ROR-alpha A; nuclear receptor ROR-alpha

Names: NR1F1-B; retinoid-related orphan receptor alpha 2; retinoid-related orphan receptor-alpha A; rora

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_001110167.1 → NP_001103637.1 nuclear receptor ROR-alpha A

See identical proteins and their annotated locations for NP_001103637.1

Status: PROVISIONAL

Source sequence(s)

AB298802

UniProtKB/TrEMBL

A7VL70

Related

ENSDARP00000106236.2, ENSDART00000121449.3

Conserved Domains (2) summary

cd06939
Location:217 → 456

NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily

cd06968
Location:11 → 105

NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers