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    HCP5 HLA complex P5 [ Homo sapiens (human) ]

    Gene ID: 10866, updated on 17-Sep-2024

    Summary

    Official Symbol
    HCP5provided by HGNC
    Official Full Name
    HLA complex P5provided by HGNC
    Primary source
    HGNC:HGNC:21659
    See related
    Ensembl:ENSG00000206337 MIM:604676; AllianceGenome:HGNC:21659
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    P5-1; 6S2650E; D6S2650E
    Expression
    Broad expression in spleen (RPKM 38.9), lymph node (RPKM 31.9) and 24 other tissues See more
    NEW
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    Genomic context

    See HCP5 in Genome Data Viewer
    Location:
    6p21.33
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (31463180..31465809)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (31316305..31318934)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31430957..31433586)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1149 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:31430252-31431451 Neighboring gene major histocompatibility complex, class I, X (pseudogene) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:31442899-31443399 Neighboring gene HLA complex group 26 Neighboring gene MICB divergent transcript Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31455304-31456014 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31456015-31456724 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31461392-31462273

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide association study of psoriasis and psoriatic arthritis identifies new disease loci.
    EBI GWAS Catalog
    A whole-genome association study of major determinants for allopurinol-related Stevens-Johnson syndrome and toxic epidermal necrolysis in Japanese patients.
    EBI GWAS Catalog
    Clozapine-induced agranulocytosis is associated with rare HLA-DQB1 and HLA-B alleles.
    EBI GWAS Catalog
    Common genetic variation and the control of HIV-1 in humans.
    EBI GWAS Catalog
    Genetic variation in the HLA region is associated with susceptibility to herpes zoster.
    EBI GWAS Catalog
    Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
    EBI GWAS Catalog
    Genome-wide association study of Stevens-Johnson Syndrome and Toxic Epidermal Necrolysis in Europe.
    EBI GWAS Catalog
    Genomewide association study of an AIDS-nonprogression cohort emphasizes the role played by HLA genes (ANRS Genomewide Association Study 02).
    EBI GWAS Catalog
    HLA-B*5701 genotype is a major determinant of drug-induced liver injury due to flucloxacillin.
    EBI GWAS Catalog
    Identification of novel genetic Loci associated with thyroid peroxidase antibodies and clinical thyroid disease.
    EBI GWAS Catalog
    Novel associations for hypothyroidism include known autoimmune risk loci.
    EBI GWAS Catalog
    The major genetic determinants of HIV-1 control affect HLA class I peptide presentation.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Other Names

    • HLA class I histocompatibility antigen protein P5
    • HLA complex P5 (non-protein coding)
    • HLA complex protein P5
    • MHC class I region ORF

    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.

    RNA

    1. NR_040662.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK290875, BX640979, DA501560, L06175
      Related
      ENST00000670109.1

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      31463180..31465809
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

      Range
      2940505..2943134
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

      Range
      2806319..2807782
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      2762429..2765058
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      31316305..31318934
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)