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Aliases for HCP5 Gene

Subcategory (RNA class) for HCP5 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for HCP5 Gene

  • HLA Complex P5 (Non-Protein Coding) 2 3 5
  • HLA Complex Protein P5 3 4
  • HLA Class I Histocompatibility Antigen Protein P5 3
  • MHC Class I Region ORF 3
  • HLA Complex P5 2
  • Protein P5-1 4
  • D6S2650E 3
  • 6S2650E 3
  • P5-1 3

External Ids for HCP5 Gene

Previous GeneCards Identifiers for HCP5 Gene

  • GC06P031201
  • GC06P031535
  • GC06P031538
  • GC01M241088
  • GC06P031430
  • GC06Pj31419
  • GC06P031372
  • GC06P031375

Summaries for HCP5 Gene

GeneCards Summary for HCP5 Gene

HCP5 (HLA Complex P5 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with HCP5 include Herpes Zoster and Severe Cutaneous Adverse Reaction.

Additional gene information for HCP5 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HCP5 Gene

Genomics for HCP5 Gene

GeneHancer (GH) Regulatory Elements for HCP5 Gene

Promoters and enhancers for HCP5 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I031398 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.8 +1.2 1210 5.8 MLX ZFP64 DMAP1 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC MEF2D MICA ENSG00000199332 GC06M031407 HCP5 MICA-AS1 DDX39B HLA-C DHX16 SKIV2L MICB
GH06I031352 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 7.2 -44.5 -44510 7 HDGF PKNOX1 ATF1 SMAD1 NSD2 ZNF2 IRF4 GLIS2 ZNF207 ZNF143 HLA-B ENSG00000271581 GC06M031409 GC06M031410 PIR40863 MIR6891 HLA-C DDX39B MICA LY6G5B
GH06I031567 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 4.2 +177.7 177717 22.2 HDGF PKNOX1 SMAD1 MLX ZFP64 ARID4B SIN3A DMAP1 YBX1 ZNF2 TNF LST1 GC06P031585 GC06P031586 GC06P031587 GC06P031598 GC06P031599 GC06P031612 GC06P031613 GC06P031616
GH06I031545 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 4.2 +146.8 146830 3.2 CLOCK MLX YBX1 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 NFKBIL1 ATP6V1G2 ATP6V1G2-DDX39B DDX39B DHX16 ATF6B LY6G5B LSM2 MDC1 TCF19
GH06I031461 Promoter/Enhancer 1.6 Ensembl ENCODE dbSUPER 0.2 +62.5 62539 2.7 ATF1 SMAD1 RB1 ARID4B ZNF76 BRCA1 ZNF48 RFX5 YY1 ZNF335 ENSG00000233902 HLA-X HLA-C MICB PSORS1C2 MICA HLA-B SKIV2L MICA-AS1 ENSG00000272501
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HCP5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HCP5 gene promoter:

Genomic Locations for HCP5 Gene

Genomic Locations for HCP5 Gene
76,805 bases
Plus strand

Genomic View for HCP5 Gene

Genes around HCP5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HCP5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HCP5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HCP5 Gene

Proteins for HCP5 Gene

  • Protein details for HCP5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    HLA class I histocompatibility antigen protein P5
    Protein Accession:
    Secondary Accessions:
    • Q04490

    Protein attributes for HCP5 Gene

    132 amino acids
    Molecular mass:
    14098 Da
    Quaternary structure:
    No Data Available
    • HCP5 is localized within the MHC class I region, but is not structurally related to MHC class I genes. HCP5 is related in sequence to human endogenous retroviruses HERV-L and HERV-16. It has sequence homology with retroviral Pol genes in HERV retroviral element; thus, it is itself a good candidate to interact with HIV-1, possibly through an antisense mechanism against retroviral transcript.
    • Variation Gly-112 is associated with low viral loads in untreated HIV patients. The level of circulating virus in the plasma of HIV patients (viral set point) varies among individuals during the nonsymptomatic phase preceding the progression to AIDS. This polymorphism explains 9.6% of the total variation in set point and is associated with the HLA-B*5701 allele, which has the strongest described protective impact on HIV disease progression. However, it is possible that HPC5 polymorphism, and not HLA-B*5701 allele, plays a direct role in the control in viremia in HIV patients.
    • Sequence=AAA59986.1; Type=Frameshift; Positions=58, 125; Evidence={ECO:0000305};

neXtProt entry for HCP5 Gene

Post-translational modifications for HCP5 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HCP5 Gene

Domains & Families for HCP5 Gene

Protein Domains for HCP5 Gene


Suggested Antigen Peptide Sequences for HCP5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with HCP5: view

No data available for Gene Families and UniProtKB/Swiss-Prot for HCP5 Gene

Function for HCP5 Gene

Phenotypes From GWAS Catalog for HCP5 Gene

Phenotypes for HCP5 Gene

genes like me logo Genes that share phenotypes with HCP5: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HCP5 Gene

Localization for HCP5 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for HCP5 Gene

Pathways & Interactions for HCP5 Gene

No Data Available

Interacting Proteins for HCP5 Gene

Gene Ontology (GO) - Biological Process for HCP5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006952 defense response TAS 8462994
genes like me logo Genes that share ontologies with HCP5: view

No data available for Pathways by source and SIGNOR curated interactions for HCP5 Gene

Drugs & Compounds for HCP5 Gene

No Compound Related Data Available

Transcripts for HCP5 Gene

Unigene Clusters for HCP5 Gene

HLA complex P5 (non-protein coding):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HCP5 Gene

No ASD Table

Relevant External Links for HCP5 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HCP5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HCP5 Gene

mRNA differential expression in normal tissues according to GTEx for HCP5 Gene

This gene is overexpressed in Whole Blood (x7.7) and Spleen (x5.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for HCP5 Gene

NURSA nuclear receptor signaling pathways regulating expression of HCP5 Gene:


SOURCE GeneReport for Unigene cluster for HCP5 Gene:


mRNA Expression by UniProt/SwissProt for HCP5 Gene:

Tissue specificity: Expressed in lymphoid tissues; Detected in spleen as well as in B-cell lines, NK cell lines and activated lymphocytes.
genes like me logo Genes that share expression patterns with HCP5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for HCP5 Gene

Orthologs for HCP5 Gene

Evolution for HCP5 Gene

Gene Tree for HCP5 (if available)
Gene Tree for HCP5 (if available)

No data available for Orthologs for HCP5 Gene

Paralogs for HCP5 Gene

No data available for Paralogs for HCP5 Gene

Variants for HCP5 Gene

Sequence variations from dbSNP and Humsavar for HCP5 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000188565 -- 31,466,265(+) C/T downstream_transcript_variant
rs1001390427 -- 31,462,872(+) A/G upstream_transcript_variant
rs1001437142 -- 31,463,162(+) T/C upstream_transcript_variant
rs1002414123 -- 31,461,192(+) A/G upstream_transcript_variant
rs1003992193 -- 31,463,930(+) A/T non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HCP5 Gene

Variant ID Type Subtype PubMed ID
dgv10393n54 CNV loss 21841781
dgv10403n54 CNV loss 21841781
dgv10404n54 CNV loss 21841781
dgv10453n54 CNV loss 21841781
dgv10454n54 CNV gain 21841781
dgv10457n54 CNV loss 21841781
dgv10458n54 CNV loss 21841781
dgv10459n54 CNV loss 21841781
dgv1098e199 CNV deletion 23128226
dgv1751e212 CNV gain 25503493
dgv1752e212 CNV loss 25503493
dgv213e55 CNV gain 17911159
dgv214e55 CNV gain 17911159
dgv215e55 CNV loss 17911159
dgv5942n100 CNV loss 25217958
dgv5943n100 CNV gain+loss 25217958
dgv5944n100 CNV loss 25217958
dgv747n27 CNV loss 19166990
dgv995e201 CNV deletion 23290073
esv2432528 CNV deletion 19546169
esv26480 CNV loss 19812545
esv2731822 CNV deletion 23290073
esv2752123 CNV gain 17911159
esv2759414 CNV gain+loss 17122850
esv2762584 CNV loss 21179565
esv2763959 CNV gain+loss 21179565
esv29968 CNV gain 17803354
esv3160 OTHER sequence alteration 18987735
esv33563 CNV gain+loss 17666407
esv34063 CNV loss 18971310
esv3411275 CNV duplication 20981092
esv34118 CNV loss 18971310
esv3576141 CNV gain 25503493
esv3608563 CNV loss 21293372
esv3890819 CNV loss 25118596
nsv1022499 CNV gain 25217958
nsv1030802 CNV gain 25217958
nsv1073969 CNV deletion 25765185
nsv10820 CNV gain+loss 18304495
nsv1112900 CNV deletion 24896259
nsv1126749 CNV deletion 24896259
nsv1161369 CNV deletion 26073780
nsv428140 CNV gain+loss 18775914
nsv435829 CNV deletion 17901297
nsv441990 CNV loss 18776908
nsv462854 CNV gain 19166990
nsv511868 CNV loss 21212237
nsv513736 CNV insertion 21212237
nsv517441 CNV gain+loss 19592680
nsv5246 CNV deletion 18451855
nsv601880 CNV gain+loss 21841781
nsv818409 CNV loss 17921354
nsv823497 CNV loss 20364138
nsv970363 CNV duplication 23825009

Additional Variant Information for HCP5 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for HCP5 Gene

Disorders for HCP5 Gene

MalaCards: The human disease database

(2) MalaCards diseases for HCP5 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
herpes zoster
  • herpes zona
severe cutaneous adverse reaction
  • severe cutaneous adverse reaction, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search HCP5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for HCP5

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with HCP5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HCP5 Gene

Publications for HCP5 Gene

  1. The P5 multicopy gene family in the MHC is related in sequence to human endogenous retroviruses HERV-L and HERV-16. (PMID: 10199916) Kulski JK … Dawkins RL (Immunogenetics 1999) 2 3 4 58
  2. A novel coding sequence belonging to a new multicopy gene family mapping within the human MHC class I region. (PMID: 8462994) Vernet C … Pontarotti P (Immunogenetics 1993) 2 3 4 58
  3. Use of the HCP5 single nucleotide polymorphism to predict hypersensitivity reactions to abacavir: correlation with HLA-B*5701. (PMID: 20534626) Rodríguez-Nóvoa S … Soriano V (The Journal of antimicrobial chemotherapy 2010) 3 44 58
  4. The major genetic determinants of HIV-1 control affect HLA class I peptide presentation. (PMID: 21051598) International HIV Controllers Study … Zhao M (Science (New York, N.Y.) 2010) 3 44 58
  5. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos LF … Criswell LA (PLoS genetics 2009) 3 44 58

Products for HCP5 Gene

Sources for HCP5 Gene

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