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her12

hairy-related 12

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GeneInformationForm
GeneName her12
Aliases ENSDARG:ENSDARG00000032963
Description hairy-related 12
GenomicLocation chromosome 23 21739064-21741127 reverse strand
ExternalIDs Entrez:402914; EMBL:BC071465; UniGene:29089; ZFIN:ZDB-GENE-040824-5;
TranscriptID ENSDART:ENSDART00000044080; ENSDART:ENSDART00000112929
mRNA NCBI:NM_205619
GeneDescription Her12 is a member of hairy and Enhancer of split (E(spl))-related (h/E(spl)) family of transcriptional repressors which are conserved components and show a unique expression via Delta-Notch signalling pathway.
GeneFunction Ninkovic et al. (2005) analysed the gene pair him-her5 and found the reminiscent head-to-head association of genomic organization of her7-her1. They also suggested another gene pair her4/her12 to be located on the chromosome fragment ctg10516 ESTs BM023698 and AL716753. Thus, they proposed paired organization to be a conserved feature among Zebrafish her genes. Shankaran et al. (2007) analysed the expression of her15 with paralogous her12 gene and the other cyclic h/E (spl) genes in zebrafish. The her15 gene pair and her12 displayed novel and distinct expression features, including caudally restricted oscillatory domain and dynamic stripes of expression in the rostral PSM.
GeneCloning her12 gene is contained in BAC clone CH73-21G5 (Vector: pTARBAC2).
GeneStructure Her12 encodes for 2 transcripts.Transcript ENSDART00000044080 consists of 2 exons and is 1,050 bps in length. The protein product (ENSDARP00000044079) consists of 155 residues.Transcript ENSDART00000112929 consists of 3 exons and is 1,006 bps in length. The protein product (ENSDARP00000099379) consists of 155 residues.
Protein ENSDARP00000044079 ENSDARP00000099379
ProteinDomainandFamilies has domain InterPro:IPR003650; InterPro:IPR011598;
Motifs has motif Prosite:PS51054; Prosite:PS50888; PFAM:PF00010;
Expression ArrayExpress:ENSDARG00000032963;
GeneOntology GO:0005634; GO:0045449; GO:0006355; GO:0001756; GO:0007219; GO:0007420; GO:0030528; GO:0003677;
Orthologs

VariationAndRepeats RSID:rs179713879; RSID:rs179713866; RSID:rs179713853;
DisordersAndMutations Shankaran et al. (2007) analysed the morpholino-mediated her12 knockdown. The sequences of the her12 MO are: 5′-AGG CGA GTG TGG CTG AGT GGG GTG C-3′ (her12-ORF) and5′-CGA ATG CAT GTG ACA GGG AGG TCA T-3′ (her12 control) Her12 knockdown disrupted cyclic gene expression, indicating the non-redundant core component of the segmentation clock. Over-expression of her12, her15 or her7 disrupted cyclic gene expression and somite border formation.
RelatedPubMedArticles Ninkovic, J.; Tallafuss, A.; Leucht, C.; Topczewski, J.; Tannhäuser, B.; Solnica-Krezel, L.; Bally-Cuif, L.: Inhibition of neurogenesis at the zebrafish midbrain-hindbrain boundary by the combined and dose-dependent activity of a new hairy/E(spl) gene pair. Development. 2005 Jan;132(1):75-88. PMID:15590746 Shankaran, S. S.; Sieger, D.; Schröter, C.; Czepe, C.; Pauly, M. C.; Laplante, M. A.; Becker, T. S.; Oates, A. C.; Gajewski, M.: Completing the set of h/E(spl) cyclic genes in zebrafish: her12 and her15 reveal novel modes of expression and contribute to the segmentation clock. Dev Biol. 2007 Apr 15;304(2):615-32. Epub 2007 Jan 9. PMID:17274976 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 - 2013-08-31 - AnkitSabharwal
 
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