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    Otp orthopedia homeobox [ Mus musculus (house mouse) ]

    Gene ID: 18420, updated on 9-Dec-2024

    Summary

    Official Symbol
    Otpprovided by MGI
    Official Full Name
    orthopedia homeoboxprovided by MGI
    Primary source
    MGI:MGI:99835
    See related
    Ensembl:ENSMUSG00000021685 AllianceGenome:MGI:99835
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within nervous system development and positive regulation of neuroblast proliferation. Predicted to be located in fibrillar center and nuclear body. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; respiratory system; and sensory organ. Orthologous to human OTP (orthopedia homeobox). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in whole brain E14.5 (RPKM 2.8), CNS E14 (RPKM 2.1) and 3 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Otp in Genome Data Viewer
    Location:
    13 C3; 13 49.22 cM
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (95012144..95021633)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (94875636..94885125)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46389 Neighboring gene STARR-seq mESC enhancer starr_35313 Neighboring gene tubulin cofactor A Neighboring gene STARR-seq mESC enhancer starr_35314 Neighboring gene STARR-seq mESC enhancer starr_35315 Neighboring gene STARR-seq mESC enhancer starr_35319 Neighboring gene STARR-seq mESC enhancer starr_35320 Neighboring gene predicted gene, 41024 Neighboring gene WD repeat domain 41 Neighboring gene predicted gene, 48350

    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)

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
     
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    homeobox protein orthopedia
    Names
    orthopedia homolog

    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_011021.5NP_035151.1  homeobox protein orthopedia

      See identical proteins and their annotated locations for NP_035151.1

      Status: VALIDATED

      Source sequence(s)
      AC140840, LXEJ02010047
      Consensus CDS
      CCDS26695.1
      UniProtKB/Swiss-Prot
      O09113
      Related
      ENSMUSP00000022195.10, ENSMUST00000022195.13
      Conserved Domains (2) summary
      pfam00046
      Location:107156
      Homeobox; Homeobox domain
      pfam03826
      Location:303320
      OAR; OAR domain

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      95012144..95021633
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006517567.5XP_006517630.1  homeobox protein orthopedia isoform X1

      See identical proteins and their annotated locations for XP_006517630.1

      Conserved Domains (2) summary
      pfam00046
      Location:94143
      Homeobox; Homeobox domain
      pfam03826
      Location:290307
      OAR; OAR domain
    2. XM_006517568.4XP_006517631.1  homeobox protein orthopedia isoform X2

      Conserved Domains (1) summary
      pfam03826
      Location:203221
      OAR; OAR domain