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GeneName rho
Aliases ENSDARG:ENSDARG00000002193; Rh, zfrho, wu:fi06d11, opsin-like gene, rod opsin, zfo2, fi06d11
Description Rhodopsin.
GenomicLocation chromosome 8 55706885-55708411 reverse strand
ExternalIDs Entrez:30295; EMBL:BC045288; UniGene:354; ZFIN:ZDB-GENE-990415-271;
TranscriptID ENSDART:ENSDART00000027000;
mRNA NCBI:NM_131084
GeneDescription Rho, is intron less, unlike the rod opsin genes of other vertebrate classes which possess a five exon/four intron structure. Rho is expressed uniquely in the retina. The intronless rho may have arisen through an ancient retrotransposition of a mature mRNA originating from errlo.
GeneFunction Jiang-Yu et al. (2007) stated that the effects of light on MAPK and PKA signaling and their roles in the regulation of rhodopsin promoter expression in zebrafish rod photoreceptor cells. This study was carried out with transgenic zebrafish that express short-half-life GFP under the transcriptional control of rhodopsin promoter. It was found that MAPK and PKA signal pathways (which can be activated by blue and white light exposures, respectively) both have a role in the regulation of rhodopsin promoter expression. Blue light regulates rhodopsin promoter expression via PKCdependent MAPK signal transduction. White light, by contrast, regulates rhodopsin promoter expression via dopamine receptor-coupled cAMP-dependent PKA pathways
GeneCloning rho Contained in: [Fosmid] CH1073-268B21, CH1073-274H22
GeneStructure Rho consist of a single transcript ENSDART00000027000 which consists 1 exon and is 1527 bps in length. The protein product (ENSDARP00000011562) consists of 354 residues.
Protein ENSDARP:ENSDARP00000011562;
ProteinDomainandFamilies InterPro:IPR000276; InterPro:IPR000732; InterPro:IPR001760; InterPro:IPR017452; InterPro:IPR019477; InterPro:IPR027430;
Motifs Prosite:PS00237; Prosite:PS00238; Prosite:PS50262; PFAM:PF00001; PFAM:PF10413; UniProtKB:Q8AV67;
Expression ArrayExpress:ENSDARG00000002193;
GeneOntology GO:0016021; GO:0016020; GO:0005579; GO:0007186; GO:0007601; GO:0007602; GO:0018298; GO:0007165; GO:0009586; GO:0001584; GO:0004871; GO:0004872; GO:0009881; GO:0016918;
Orthologs Entrez:6010;
VariationAndRepeats RSID:rs41180265; RSID:rs40767859; RSID:rs40905277; RSID:rs40903735; RSID:rs40685466; RSID:rs40609372; RSID:rs41105309; RSID:rs41061130; RSID:rs40625793; RSID:rs40856644; RSID:rs40975403; RSID:rs41149972; RSID:rs41249701; RSID:rs40992193; RSID:rs41096114; RSID:rs40747441; RSID:rs40870229; RSID:rs41097693; RSID:rs40733876; RSID:rs40727936; RSID:rs40602500; RSID:rs41183831; RSID:rs41076222; RSID:rs40926083; RSID:rs40735571; RSID:rs40746633; RSID:rs40918999; RSID:rs40814329; RSID:rs40747170; RSID:rs41015190; RSID:rs40966017; RSID:rs40950705; RSID:rs41188114; RSID:rs40694116; RSID:rs40603932; RSID:rs41215105; RSID:rs40868507; RSID:rs3729490; RSID:rs41078890; RSID:rs40632417; RSID:rs41084252; RSID:rs40697683

RelatedPubMedArticles Chuan-Jiang Yu, Yan Gao, Callie L. Willis, Ping Li, Joseph P. Tiano, Paul A. Nakamura, David R. Hyde, and Lei Li ; Mitogen-Associated Protein Kinase- and Protein Kinase A-Dependent Regulation of Rhodopsin Promoter Expression in Zebrafish Rod Photoreceptor Cells, (2007), Journal of Neuroscience Research 85:488496. PMID:17183589 . James Bellingham, Emma E. Tarttelin, R G. Foster and Dominic J. Wells ; Structure and Evolution of the Teleost Extraretinal Rod-Like Opsin (errlo) and Ocular Rod Opsin (rho) Genes: Is Teleost rho a Retrogene? , (2003), Journal of experimental Zoology (MOL DEV EVOL) 297B:110. PMID:17183589 . NCBI Resource Coordinators.: Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 41(Database issue):D8-D20. 2013. PMID:23193264
Kersey, P. J.; Allen, J. E.; Christensen, M.; et al.: Ensembl Genomes 2013: scaling up access to genome-wide data. Nucleic Acids Res. 2013. PMID:24163254
Sigrist, C. J. A.; de, Castro, E; Cerutti, L; Cuche, B. A.; Hulo, N.; Bridge, A.; Bougueleret, L. Xenarios, I.: New and continuing developments at PROSITE. Nucleic Acids Res. doi: 10.1093/nar/gks1067. 2012. PMID:23161676
Punta, M.; Coggill, P. C.; Eberhardt, et al.: The Pfam protein families database. Nucleic Acids Res. 40(Database Issue):D290-D301. 2012. PMID:22127870
Hunter, S.; Jones P.; Mitchell A.; et al.: Interpro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res. doi: 10.1093/nar/gkr948. 2011. PMID:22096229
Carbon, S.; Ireland, A.; Mungall, C. J.; Shu, S.; Marshall, B.; Lewis, S.; AMIGO Hub; Web Presence Working Group.: AMIGO: online access to ontology and annotation data. Bioinformatics. 25(2):288-9. 2009. PMID:19033274
Ashburner, M.; Ball, C. A.; Blake, J. A.; et al. The Gene Ontology Consortium.: Gene ontology: tool for the unification of biology. Nat. Genet. 25(1):25-9. 2000. PMID:10802651
Sherry, S. T.; Ward, M. H.; Kholodov, M.; Baker, J.; Phan, L.; Smigielski, E. M.; Sirotkin, K.: dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 1;29(1):308-11. 2001. PMID:11125122
Bradford, Y.; Conlin, T.; Dunn, N.; et al.: ZFIN: enhancements and updates to the zebrafish model organism database. Nucleic Acids Res. 39(suppl 1):D822-D829. 2011. PMID:21036866
Kapushesky, M.; Adamusiak, T.; Burdett, T.; et al.: Gene Expression Atlas update--a value-added database of microarray and sequencing-based functional genomics experiments. Nucleic Acids Res. 40(Database isue):D1077-81. 2012. PMID:22064864

Web resources:
NCBI: http://www.ncbi.nlm.nih.gov/
PFAM: http://pfam.sanger.ac.uk/
PROSITE: http://prosite.expasy.org/
Interpro: http://www.ebi.ac.uk/interpro/
ZFIN: http://zfin.org/
Expression Atlas (EMBL): http://www.ebi.ac.uk/gxa/
Ensembl: http://asia.ensembl.org/Danio_rerio/
Database of Single Nucleotide Polymorphisms (dbSNP). Bethesda (MD): National Center for Biotechnology Information, National Library of Medicine.: http://www.ncbi.nlm.nih.gov/SNP/
PRINTS from Genomenet: http://www.genome.jp/
European Nucleotide Archive: http://www.ebi.ac.uk/ena/home
UNIGENE: http://www.ncbi.nlm.nih.gov/unigene/
AMIGO Gene Ontology: http://amigo.geneontology.org
Topic revision: r4 - 2013-09-02 - SubburajK
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