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    Hdx highly divergent homeobox [ Mus musculus (house mouse) ]

    Gene ID: 245596, updated on 9-Aug-2024

    Summary

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    Official Symbol
    Hdxprovided by MGI
    Official Full Name
    highly divergent homeoboxprovided by MGI
    Primary source
    MGI:MGI:2685226
    See related
    Ensembl:ENSMUSG00000034551 AllianceGenome:MGI:2685226
    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
    Also known as
    Gm380; D030011N01Rik
    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. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Is expressed in enteric nervous system. Orthologous to human HDX (highly divergent homeobox). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    human all
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    Genomic context

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    See Hdx in Genome Data Viewer
    Location:
    X E1; X 48.29 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (110484901..110606908, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (111575204..111697079, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene ribosomal protein S6 kinase polypeptide 6 Neighboring gene predicted gene 7340 Neighboring gene STARR-seq mESC enhancer starr_47775 Neighboring gene predicted gene, 52469 Neighboring gene guanosine diphosphate (GDP) dissociation inhibitor 2 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Hdac6 regulates Tip60-p400 function in stem cells. Chen PB, et al. Elife, 2013 Dec 3. PMID 24302573, Free PMC Article
    2. Phenotypic annotation of the mouse X chromosome. Cox BJ, et al. Genome Res, 2010 Aug. PMID 20548051, Free PMC Article
    3. Transcription and Signaling Regulators in Developing Neuronal Subtypes of Mouse and Human Enteric Nervous System. Memic F, et al. Gastroenterology, 2018 Feb. PMID 29031500, Free PMC Article
    4. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
    5. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Targeted (2) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    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 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 regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    highly divergent homeobox

    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_001080549.2 → NP_001074018.1  highly divergent homeobox isoform 1

      See identical proteins and their annotated locations for NP_001074018.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK083436, BC116300, CJ060144
      Consensus CDS
      CCDS41105.1
      UniProtKB/Swiss-Prot
      Q14B69, Q14B70
      Related
      ENSMUSP00000109049.3, ENSMUST00000113422.9
      Conserved Domains (2) summary
      smart00389
      Location:4 → 59
      HOX; Homeodomain
      cd00086
      Location:441 → 497
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

    2. NM_001290459.1 → NP_001277388.1  highly divergent homeobox isoform 2

      See identical proteins and their annotated locations for NP_001277388.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a portion of the 5' coding region and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AK083436, BC116300, CJ060144
      Consensus CDS
      CCDS72422.1
      UniProtKB/Swiss-Prot
      Q14B70
      Related
      ENSMUSP00000043482.6, ENSMUST00000038472.7
      Conserved Domains (1) summary
      cd00086
      Location:383 → 439
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

    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_000086.8 Reference GRCm39 C57BL/6J

      Range
      110484901..110606908 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036161960.1 → XP_036017853.1  highly divergent homeobox isoform X1

      Conserved Domains (2) summary
      smart00389
      Location:4 → 59
      HOX; Homeodomain
      cd00086
      Location:441 → 497
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q14B70.1 GenPept UniProtKB/Swiss-Prot:Q14B70

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
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