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    Otx1 orthodenticle homeobox 1 [ Mus musculus (house mouse) ]

    Gene ID: 18423, updated on 9-Dec-2024

    Summary

    Official Symbol
    Otx1provided by MGI
    Official Full Name
    orthodenticle homeobox 1provided by MGI
    Primary source
    MGI:MGI:97450
    See related
    Ensembl:ENSMUSG00000005917 AllianceGenome:MGI:97450
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    jv; A730044F23Rik
    Summary
    This gene encodes a member of the bicoid subfamily of the paired homeobox transcription factor family. The encoded protein is critical to the maintenance and regionalization of the forebrain and midbrain during development. It may also have important functions in sense organ development, pituitary function, and in the regulation of blood cell production. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in CNS E11.5 (RPKM 7.7), CNS E14 (RPKM 4.1) and 5 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Otx1 in Genome Data Viewer
    Location:
    11 A3.2; 11 14.1 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (21944764..21954044, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (21994764..22001651, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L15, pseudogene 1 Neighboring gene STARR-seq mESC enhancer starr_28856 Neighboring gene ferritin light chain 1 pseudogene Neighboring gene predicted gene, 53673 Neighboring gene predicted gene, 51938 Neighboring gene EH domain binding protein 1 Neighboring gene STARR-seq mESC enhancer starr_28857 Neighboring gene STARR-positive B cell enhancer ABC_E584 Neighboring gene predicted gene, 53674 Neighboring gene DnaJ (Hsp40) homolog, subfamily A, member 1 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IC
    Inferred by Curator
    more info
    PubMed 

    General protein information

    Preferred Names
    homeobox protein OTX1
    Names
    orthodenticle homolog 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_011023.3NP_035153.1  homeobox protein OTX1

      See identical proteins and their annotated locations for NP_035153.1

      Status: REVIEWED

      Source sequence(s)
      BB652255, BC057105, BC058354
      Consensus CDS
      CCDS24468.1
      UniProtKB/Swiss-Prot
      P80205
      UniProtKB/TrEMBL
      Q5SS54, Q91ZJ3
      Related
      ENSMUSP00000006071.8, ENSMUST00000006071.14
      Conserved Domains (2) summary
      pfam00046
      Location:4295
      Homeobox; Homeobox domain
      pfam03529
      Location:180274
      TF_Otx; Otx1 transcription factor

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      21944764..21954044 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036156415.1XP_036012308.1  homeobox protein OTX1 isoform X1

      UniProtKB/Swiss-Prot
      P80205
      UniProtKB/TrEMBL
      Q5SS54, Q91ZJ3
      Conserved Domains (2) summary
      pfam00046
      Location:4295
      Homeobox; Homeobox domain
      pfam03529
      Location:180274
      TF_Otx; Otx1 transcription factor