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dbx2

developing brain homeobox 2

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GeneInformationForm
GeneName dbx2
Aliases ENSDARG:ENSDARG00000039510; hlx3, H2.0-like homeobox 3, zgc:110519
Description developing brain homeobox 2
GenomicLocation chromosome Zv9_scaffold3556 4519-13947 reverse strand
ExternalIDs Entrez:30417; EMBL:BC091853; UniGene:107144; ZFIN:ZDB-GENE-000128-13;
TranscriptID ENSDART:ENSDART00000057730
mRNA NCBI:NM_131179
GeneDescription Dbx are homeodomain proteins which are known to play important roles in spinal cord dorsal/ventral patterning and also in the production of multiple spinal cord cell types.
GeneFunction Seo et al. (1999) described three zebrafish hlx1, hlx2 and hlx3 (dbx2) which were related to murine dbx genes.They further reported that hlx3 (dbx2) is related to Murine Dbx2, but it is too diverged to be orthologous Gribble et al.(2007) examined the regulation and function of Dbx genes in zebrafish. They found that in the absence of Hh signaling, dbx 2, 1a and 1b are expanded ventrall with concomitant increases in post-mitotic neurons. They also reported that retinoic acid signaling is not required for induction of Dbx expression. They further compared the expression patterns of dbx 2, 1a,and 1b at different time points during the spinal cord development. They showed that their expression domain occupies a constant 2-3 cell diameter stripe in the intermediate spinal cord, there are differences in the timing of expression.Dbx2 expression did begin until 24 h although dbx1a and dbx1b expressionwas observed at 15h stage. Dbx2 expression does not span the rostral/caudal axis until 28 hpf. By 48 hpf dbx 1a and 1b are still expressed but dbx2 expression was not observed. They also reported that dbx1 knockdown causes a dorsal expansion of nkx6.2.
GeneCloning

GeneStructure This gene encodes a single transcript: (ENSDART00000057730) that contains 5 exons with the transcript length of 591 bps and has a protein product (ENSDARP00000057729) which consists 196 residues.
Protein ENSDARP00000057729
ProteinDomainandFamilies has domain InterPro:IPR000047; InterPro:IPR012287; InterPro:IPR001356;
Motifs has motif Prosite:PS00027; PFAM:PF00046; PRINTS:PR00024; PRINTS:PR00031;
Expression

GeneOntology GO:0005634; GO:0006355; GO:0045449; GO:0003700; GO:0043565; GO:0003677; GO:0030528;
Orthologs Entrez:440097;
VariationAndRepeats

DisordersAndMutations

RelatedPubMedArticles Seo, H.C.; Nilsen, F.; Fjose, A.:Three structurally and functionally conserved Hlx genes in zebrafish. Biochem Biophys Acta. 1489(2-3):323-35, 1999. PMID:10673033 Gribble, S.L.; Nikolaus, O.B.; Dorsky, RI.: Regulation and function of Dbx genes in the zebrafish spinal cord. Dev Dyn. 236(12):3472-83,2007. PMID:17994542 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 - 2013-07-27 - PrernaBudakoti
 
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