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    irx1a iroquois homeobox 1a [ Danio rerio (zebrafish) ]

    Gene ID: 403019, updated on 28-Oct-2024

    Summary

    Official Symbol
    irx1aprovided by ZNC
    Official Full Name
    iroquois homeobox 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040707-1
    See related
    Ensembl:ENSDARG00000101831 AllianceGenome:ZFIN:ZDB-GENE-040707-1
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    irx1; ziro1; ziro1a; zgc:109702; zgc:136490
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including central nervous system neuron differentiation; embryonic morphogenesis; and eye development. Predicted to be active in nucleus. Is expressed in several structures, including liver; nervous system; neural plate; pericardial region; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to human IRX1 (iroquois homeobox 1). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
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    Genomic context

    See irx1a in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (813574..817781)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (737662..741827)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487867 Neighboring gene iroquois homeobox 2a Neighboring gene A disintegrin and metalloproteinase with thrombospondin motifs 16 Neighboring gene regulation of nuclear pre-mRNA domain containing 2b

    Genomic regions, transcripts, and products

    Expression

    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Process Evidence Code Pubs
    involved_in cell development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within central nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within central nervous system neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic camera-type eye development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic pectoral fin morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within eye photoreceptor cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within inner ear morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within nervous system development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of cell cycle IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within retina development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within retina morphogenesis in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    iroquois-class homeodomain protein IRX-1a
    Names
    iroquois homeobox protein 1, a

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_207184.2NP_997067.2  iroquois-class homeodomain protein IRX-1a isoform 1

      Status: VALIDATED

      Source sequence(s)
      CABZ01062628
      Related
      ENSDARP00000137879.1, ENSDART00000162474.2
    2. NM_207185.2NP_997068.2  iroquois-class homeodomain protein IRX-1a isoform 2

      Status: VALIDATED

      Source sequence(s)
      CABZ01062628
      Related
      ENSDARP00000137032.1, ENSDART00000161774.2

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007127.7 Reference GRCz11 Primary Assembly

      Range
      813574..817781
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)