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    lhx1a LIM homeobox 1a [ Danio rerio (zebrafish) ]

    Gene ID: 30463, updated on 31-Mar-2019

    Summary

    Official Symbol
    lhx1aprovided by ZNC
    Official Full Name
    LIM homeobox 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-980526-347
    See related
    Ensembl:ENSDARG00000014018
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio
    Also known as
    LHX1; lim1; wu:fe25d04; wu:fj36b06

    Genomic context

    See lhx1a in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (27703409..27710353, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (27770533..27777477, complement)
    103 previous assembly Zv9 (GCF_000002035.4) 15 NC_007126.5 (27052293..27059237, complement)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103908842 Neighboring gene BRCA1 interacting protein C-terminal helicase 1 Neighboring gene uncharacterized LOC103908843 Neighboring gene dehydrogenase/reductase (SDR family) member 13a, duplicate 3

    Genomic regions, transcripts, and products

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    transcription corepressor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    S-shaped body morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cerebellar Purkinje cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    comma-shaped body morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dorsal spinal cord interneuron posterior axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dorsal/ventral pattern formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ectoderm formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    embryonic pattern specification ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    embryonic retina morphogenesis in camera-type eye ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    endoderm formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    forebrain regionalization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    head development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lateral motor column neuron migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    motor neuron axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription, DNA-templated ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nephric duct morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    paramesonephric duct development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of anterior head development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of branching involved in ureteric bud morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of embryonic development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of gastrulation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of nephron tubule epithelial cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription, DNA-templated ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    post-embryonic development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    primitive streak formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    renal vesicle morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    retina layer formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    spinal cord association neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ureteric bud development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein-containing complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    LIM/homeobox protein Lhx1
    Names
    LIM homeobox protein 1
    homeobox protein Lim-1
    lim1a

    NCBI Reference Sequences (RefSeq)

    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_131216.1NP_571291.1  LIM/homeobox protein Lhx1

      See identical proteins and their annotated locations for NP_571291.1

      Status: PROVISIONAL

      Source sequence(s)
      L37802
      UniProtKB/Swiss-Prot
      Q90476
      UniProtKB/TrEMBL
      B3DGH2
      Related
      ENSDARP00000021069.5, ENSDART00000005641.6
      Conserved Domains (3) summary
      cd09367
      Location:455
      LIM1_Lhx1_Lhx5; The first LIM domain of Lhx1 (also known as Lim1) and Lhx5
      cd09375
      Location:63118
      LIM2_Lhx1_Lhx5; The second LIM domain of Lhx1 (also known as Lim1) and Lhx5
      pfam00046
      Location:182235
      Homeobox; Homeobox domain

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007126.7 Reference GRCz11 Primary Assembly

      Range
      27703409..27710353 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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