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    HDX highly divergent homeobox [ Homo sapiens (human) ]

    Gene ID: 139324, updated on 9-Dec-2024

    Summary

    Official Symbol
    HDXprovided by HGNC
    Official Full Name
    highly divergent homeoboxprovided by HGNC
    Primary source
    HGNC:HGNC:26411
    See related
    Ensembl:ENSG00000165259 MIM:300994; AllianceGenome:HGNC:26411
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CXorf43; 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 chromatin. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See HDX in Genome Data Viewer
    Location:
    Xq21.1
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (84317878..84502453, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (82754225..82938810, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (83572886..83757461, complement)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S6 kinase A6 Neighboring gene microRNA 548i-4 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:83643706-83644905 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20911 Neighboring gene NANOG hESC enhancer GRCh37_chrX:83968054-83968555 Neighboring gene testis expressed 16, pseudogene Neighboring gene SET pseudogene 4 Neighboring gene ubiquitin conjugating enzyme E2 D N-terminal like (pseudogene)

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ30678, MGC126769, MGC126771

    Gene Ontology Provided by GOA

    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 chromatin ISA
    Inferred from Sequence Alignment
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    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.

    Genomic

    1. NG_017158.2 RefSeqGene

      Range
      5027..189602
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001177478.2NP_001170949.1  highly divergent homeobox isoform 2

      See identical proteins and their annotated locations for NP_001170949.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AK055240, AL035552
      Consensus CDS
      CCDS55456.1
      UniProtKB/Swiss-Prot
      Q7Z353
      Related
      ENSP00000423670.2, ENST00000506585.6
      Conserved Domains (1) summary
      cd00086
      Location:381437
      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_001177479.2NP_001170950.1  highly divergent homeobox isoform 1

      See identical proteins and their annotated locations for NP_001170950.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL022160, AL035552, BC143522, DA719263
      Consensus CDS
      CCDS35342.1
      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
      Related
      ENSP00000362272.2, ENST00000373177.3
      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:439495
      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.
    3. NM_144657.5NP_653258.2  highly divergent homeobox isoform 1

      See identical proteins and their annotated locations for NP_653258.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and represents use of an alternate promoter, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL035552, BC101720, DA719263
      Consensus CDS
      CCDS35342.1
      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
      Related
      ENSP00000297977.5, ENST00000297977.9
      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:439495
      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_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      84317878..84502453 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017029275.2XP_016884764.1  highly divergent homeobox isoform X2

      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:421477
      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. XM_017029274.2XP_016884763.1  highly divergent homeobox isoform X1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:439495
      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.
    3. XM_047441827.1XP_047297783.1  highly divergent homeobox isoform X2

    4. XM_011530864.2XP_011529166.1  highly divergent homeobox isoform X1

      See identical proteins and their annotated locations for XP_011529166.1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:439495
      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.
    5. XM_047441828.1XP_047297784.1  highly divergent homeobox isoform X2

    6. XM_011530863.3XP_011529165.1  highly divergent homeobox isoform X1

      See identical proteins and their annotated locations for XP_011529165.1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
      Conserved Domains (2) summary
      smart00389
      Location:459
      HOX; Homeodomain
      cd00086
      Location:439495
      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.
    7. XM_047441829.1XP_047297785.1  highly divergent homeobox isoform X3

    RNA

    1. XR_001755653.2 RNA Sequence

    2. XR_001755652.2 RNA Sequence

    3. XR_938392.2 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      82754225..82938810 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054326473.1XP_054182448.1  highly divergent homeobox isoform X1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
    2. XM_054326474.1XP_054182449.1  highly divergent homeobox isoform X1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
    3. XM_054326475.1XP_054182450.1  highly divergent homeobox isoform X2

    4. XM_054326476.1XP_054182451.1  highly divergent homeobox isoform X2

    5. XM_054326477.1XP_054182452.1  highly divergent homeobox isoform X2

    6. XM_054326472.1XP_054182447.1  highly divergent homeobox isoform X1

      UniProtKB/Swiss-Prot
      A8K1Y5, B7ZL18, Q5JZB4, Q7Z353, Q96NK7
    7. XM_054326478.1XP_054182453.1  highly divergent homeobox isoform X3

    RNA

    1. XR_008485453.1 RNA Sequence

    2. XR_008485451.1 RNA Sequence

    3. XR_008485452.1 RNA Sequence