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irx1b

Iroquois homeobox Protein 1, b

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GeneInformationForm
GeneName irx1b
Aliases ENSDARG:ENSDARG00000056594; ziro1 , iro1
Description Iroquois homeobox Protein 1, b
GenomicLocation chromosome 19 28613319-28616331 reverse strand
ExternalIDs Entrez:114430;UniGene:77235 ZFIN:ZDB-GENE-010716-1;
TranscriptID ENSDART:ENSDART00000079114; ENSDART:ENSDART00000130922
mRNA NCBI:NM_131823
GeneDescription iro7 is expressed during gastrulation along with iro1 in a compartment of the dorsal ectoderm that includes the prospective midbrain-hindbrain domain, the adjacent neural crest and the trigeminal placodes in the epidermis
GeneFunction Glavis et al. (2004) analyzed the expression and function of Iro1 (irx1b)in zebrafish embryos.They also compared the expression with preplacodal and placodal markers.Their results indicated that iro1 genes are expressed in the preplacodal region.
Joseph et al. (2004) demonstrated that zebrafish irx1b is expressed in the restricted subset of ventricular myocytes within the embryonic zebrafish heart. They also reported that the expression of irx1b is altered in silent heart genetic mutant embryos. They further demonstrated that an injection of morpholino oligonucleotide directed against irx1b slowed the neart rate.
Schlopp et al. (2007) proposed that before zona limitans intrathalamica is induced by otx2 and that it is posteriorly restricted by irx1b.

GeneCloning It is contained in a clone MGC:100765 (Vector : pDNR-LIB)
GeneStructure This gene encodes a single transcript:

(ENSDART00000079114) consist of 4 exons and is 1,741 bps in length. The protein product (ENSDARP00000073569) consist of 445 residues.
Protein ENSDARP00000073569 ENSDARP00000111060
ProteinDomainandFamilies has domain InterPro:IPR012287; InterPro:IPR001356; InterPro:IPR003893;
Motifs has motif Prosite:PS50071; Prosite:PS00027; PFAM:PF00046;
Expression ArrayExpress:ENSDARG00000056594;
GeneOntology GO:0005634; GO:0006355; GO:0045449; GO:0006350; GO:0031564; GO:0006353; GO:0003700; GO:0043565; GO:0003677;
Orthologs Entrez:79192;
VariationAndRepeats RSID:rs40679967; RSID:rs40679967
DisordersAndMutations The irx1b gene function is altered in the silent heart mutant embryos.
Morpholino MO1-irx1b(5'-GCGTGGAGAGGACGGCATTACACCC - 3') was used against irx1b to study the effect on zebrafish embryos.

RelatedPubMedArticles Glavic, A.; Maris, Honoré S.; Gloria Feijóo, C.; Bastidas, F.; Allende, M.L.; Mayor, R.: Role of BMP signaling and the homeoprotein Iroquois in the specification of the cranial placodal field.Dev Biol.;272(1):89-103. 2004. PMID:15242793

Joseph, E.M.: Zebrafish IRX1b in the embryonic cardiac ventricle.Dev Dyn. ;231(4):720-6. 2004. PMID:15497138

Scholpp, S.; Foucher, I.; Staudt, N.; Peukert, D.; Lumsden, A.; Houart, C.: Otx1l, Otx2 and Irx1b establish and position the ZLI in the diencephalon Development.;134(17):3167-76. 2007. PMID:17670791
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 - 2011-11-22 - RajivRana
 
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