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notch1b

notch homolog 1b

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GeneInformationForm
GeneName notch1b
Aliases ENSDARG:ENSDARG00000052094; etID309871.5, wu:fc55e11
Description notch homolog 1b
GenomicLocation chromosome 5 68668258-68771448 reverse strand
ExternalIDs Entrez:30565; UniGene:115135; ZFIN:ZDB-GENE-990415-183;
TranscriptID ENSDART:ENSDART00000130888; ENSDART:ENSDART00000050855; ENSDART:ENSDART00000050856
mRNA NCBI:NM_131302
GeneDescription notch1b is an essential component of the Notch-signaling pathway. There are five known members of the notch family of genes in zebrafish namely, notch1a, notch1b, notch2, notch3 and notchl.
GeneFunction Raya et al. (2003) suggested a role for the Notch pathway in the activation of the heart regenerative process using zebrafish as model system.Milan et al. (2006) showed that notch1b and neuregulin are necessary for the development of atrioventricular conduction tissue. They find that zebrafish notch1b is expressed in the AV ring endocardium during the formation of AV conduction tissue and the knockdown of notch1b expression results in a failure of AV conduction tissue development in 25-28% of embryos. Mehta et al. (2008) demonstrated that 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) alters the localization of endothelial cells at the AV and BV junctions as well as the localized expression of bmp4 and notch1b transcripts that are normally associated with the nascent valves. Importantly, TCDD exposure produces severe alterations in valve development, leading to blood regurgitation and failing circulation in the developing zebrafish.
GeneCloning The gene is contained in BAC clones DKEY-157G20 (Vector: pIndigoBAC-536) and RP71-31M18 (Vector: pTARBAC2).
GeneStructure This gene encodes three transcripts. ENSDART00000050855 consists of 34 exons and is 7,798 bps in length. The protein product (ENSDARP00000050854) consists of 2,436 residues.ENSDART00000050856 consists of 34 exons and is 7,781 bps in length. The protein product ENSDARP00000050854 consists of 2465 residues. ENSDART00000050856 consists of 22 exons and is 5454 bps in length. The protein product ENSDARP00000050855 consists of 1817 residues.
Protein ENSDARP00000105460 ENSDARP00000050854 ENSDARP00000050855
ProteinDomainandFamilies has domain InterPro:IPR001881; InterPro:IPR006210; InterPro:IPR000742; InterPro:IPR011656; InterPro:IPR002110; InterPro:IPR008297; InterPro:IPR000800; InterPro:IPR013032; InterPro:IPR000152; InterPro:IPR001438; InterPro:IPR013091; InterPro:IPR006209; InterPro:IPR010660;
Motifs has motif Prosite:PS00010; Prosite:PS00022; Prosite:PS01186; Prosite:PS01187; PFAM:PF00008; PFAM:PF00023; PFAM:PF00066; PFAM:PF06816; PFAM:PF07645; PFAM:PF07684; PFAM:PF07974; PRINTS:PR00010; PRINTS:PR00011; PRINTS:PR01415; PRINTS:PR01452;
Expression ArrayExpress:ENSDARG00000052094;
GeneOntology GO:0016021; GO:0016020; GO:0030154; GO:0007219; GO:0007275; GO:0001568; GO:0004872;
Orthologs

VariationAndRepeats

DisordersAndMutations

RelatedPubMedArticles Raya, A.; Koth, C.M.; Büscher, D.; Kawakami, Y.; Itoh, T.; Raya, R.M.; Sternik, G.; Tsai, H.J.; Rodríguez-Esteban, C.; Izpisúa-Belmonte, J.C.: Activation of Notch signaling pathway precedes heart regeneration in zebrafish. Proc Natl Acad Sci U S A. 100: 11889-11895, 2003. PMID:12909711 Milan, D.J.; Giokas, A.C.; Serluca, F.C.; Peterson, R.T.; MacRae, C.A.: Notch1b and neuregulin are required for specification of central cardiac conduction tissue. Development. 133: 1125-1132, 2006. PMID:16481353 Mehta, V.; Peterson, R.E.; Heideman, W.: 2,3,7,8-Tetrachlorodibenzo-p-dioxin exposure prevents cardiac valve formation in developing zebrafish. Toxicol Sci. 104: 303-311, 2008. PMID:18477685 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: r3 - 2013-07-06 - RamcharanAngom
 
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