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    HDDC2 HD domain containing 2 [ Homo sapiens (human) ]

    Gene ID: 51020, updated on 5-Mar-2024

    Summary

    Official Symbol
    HDDC2provided by HGNC
    Official Full Name
    HD domain containing 2provided by HGNC
    Primary source
    HGNC:HGNC:21078
    See related
    Ensembl:ENSG00000111906 AllianceGenome:HGNC:21078
    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
    C6orf74; CGI-130; NS5ATP2; dJ167O5.2
    Summary
    Predicted to enable 5'-deoxynucleotidase activity. Predicted to be involved in dephosphorylation. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in adrenal (RPKM 20.8), brain (RPKM 17.5) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See HDDC2 in Genome Data Viewer
    Location:
    6q22.31
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (125275350..125301967, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (126463762..126490399, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (125596496..125623113, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901394 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:125444775-125445974 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:125475715-125476302 Neighboring gene TPD52 like 1 Neighboring gene uncharacterized LOC100126584 Neighboring gene MPRA-validated peak6105 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:125583541-125584054 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:125584055-125584568 Neighboring gene uncharacterized LOC124901395 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17517 Neighboring gene CRISPRi-validated cis-regulatory element chr6.4553 Neighboring gene CRISPRi-validated cis-regulatory element chr6.4554 Neighboring gene uncharacterized LOC107986640 Neighboring gene uncharacterized LOC102723341 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:125711176-125711724 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25026 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:125765831-125766344

    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

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    integrase gag-pol HIV-1 IN is identified to have a physical interaction with HD domain containing 2 (HDDC2) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC87330

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables 5'-deoxynucleotidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 

    General protein information

    Preferred Names
    5'-deoxynucleotidase HDDC2
    Names
    HCV NS5A-transactivated protein 2
    HD domain-containing protein 2
    hepatitis C virus NS5A-transactivated protein 2
    testicular tissue protein Li 83
    NP_057147.2
    XP_024302218.1
    XP_047274806.1
    XP_054211526.1

    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_016063.3NP_057147.2  5'-deoxynucleotidase HDDC2

      See identical proteins and their annotated locations for NP_057147.2

      Status: VALIDATED

      Source sequence(s)
      AL121938, BE743302, BP257644, DB447428
      Consensus CDS
      CCDS43503.1
      UniProtKB/Swiss-Prot
      Q5TDQ4, Q6NZ49, Q7Z4H3, Q9BTT2, Q9BV31, Q9Y3D1
      UniProtKB/TrEMBL
      A0A140VJK7
      Related
      ENSP00000381220.1, ENST00000398153.7
      Conserved Domains (1) summary
      pfam13023
      Location:24183
      HD_3; HD domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      125275350..125301967 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024446450.2XP_024302218.1  5'-deoxynucleotidase HDDC2 isoform X1

      Conserved Domains (1) summary
      cl21469
      Location:1131
      HDc; Metal dependent phosphohydrolases with conserved 'HD' motif
    2. XM_047418850.1XP_047274806.1  5'-deoxynucleotidase HDDC2 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      126463762..126490399 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054355551.1XP_054211526.1  5'-deoxynucleotidase HDDC2 isoform X2