Aliases for HCP5 Gene

Subcategory (RNA class) for HCP5 Gene


Number of RNA Genes sources:

4 / 17

Aliases for HCP5 Gene

  • HLA Complex P5 2 3 5
  • HLA Class I Histocompatibility Antigen Protein P5 3 4
  • HLA Complex P5 (Non-Protein Coding) 2 3
  • HLA Complex Protein P5 3 4
  • D6S2650E 2 3
  • P5-1 2 3
  • HCP5 5 165
  • MHC Class I Region ORF 3
  • NONHSAG045923.2 91
  • NONHSAG046618.2 91
  • NONHSAG045739.2 91
  • NONHSAG046446.2 91
  • NONHSAG046255.2 91
  • NONHSAG046254.2 91
  • NONHSAG045740.2 91
  • NONHSAG046619.2 91
  • NONHSAG046615.2 91
  • NONHSAG045736.2 91
  • NONHSAG043479.2 91
  • HSALNG0049271 164
  • HSALNG0049264 164
  • Protein P5-1 4
  • 6S2650E 3

External Ids for HCP5 Gene

Additional 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) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with HCP5 include Acquired Immunodeficiency Syndrome and Thyroid Cancer, Nonmedullary, 2.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for HCP5 Gene

Genomics for HCP5 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for HCP5 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HCP5 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the HCP5 gene promoter:
  • AhR
  • AREB6
  • Arnt
  • c-Rel
  • Egr-1
  • Egr-4
  • Ik-1
  • Pax-2
  • Pax-2a

Genomic Locations for HCP5 Gene

Genomic Locations for HCP5 Gene
78,235 bases
Plus strand
76,805 bases
Plus strand

Genomic View for HCP5 Gene

Genes around HCP5 on UCSC Golden Path with GeneCards custom track
HCP5 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

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
    • Sequence=AAA59986.1; Type=Frameshift; Evidence={ECO:0000305};
    • 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.
    • 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.

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

Gene Families for HCP5 Gene

Protein Domains for HCP5 Gene


Suggested Antigen Peptide Sequences for HCP5 Gene

GenScript: Design optimal peptide antigens:
  • Protein P5-1 (HCP5_HUMAN)
genes like me logo Genes that share domains with HCP5: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for HCP5 Gene

Function for HCP5 Gene

Phenotypes From GWAS Catalog for HCP5 Gene

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

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HCP5

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

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HCP5 gene
Compartment Confidence
plasma membrane 1
extracellular 1
cytoskeleton 1
nucleus 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1

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

Pathways & Interactions for HCP5 Gene

PathCards logo

SuperPathways for HCP5 Gene

No Data Available

Interacting Proteins for HCP5 Gene

Gene Ontology (GO) - Biological Process for HCP5 Gene


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

Drugs & Compounds for HCP5 Gene

(2) Drugs for HCP5 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Carboplatin Approved Pharma Antitumor agent that forms platinum-DNA adducts., Platinum 2588
Gemcitabine Approved Pharma Ribonucleotide reductase and DNA synthesis inhibitor, Nucleoside Analogs 2451
genes like me logo Genes that share compounds with HCP5: view

Transcripts for HCP5 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for HCP5 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00001D61C5_9606 lncRNA 465 4

Ensembl: ENST00000460889 (view in UCSC) ,

LncBook: HSALNT0104358,

LNCipedia: HCP5:5, HCP5:8,


URS00008C1CF9_9606 lncRNA 461 3

Ensembl: ENST00000447631 (view in UCSC) ,

LncBook: HSALNT0104356,


URS00008C1257_9606 lncRNA 2544 2

Ensembl: ENST00000419355 (view in UCSC) ,


URS00008C1A0E_9606 lncRNA 2544 2

Ensembl: ENST00000423496 (view in UCSC) ,


URS000075AF59_9606 lncRNA 2539 2

HGNC: 21659,

RefSeq: NR_040662,

HCP5 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for HCP5 Gene

8 NCBI additional mRNA sequence :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for HCP5

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

No ASD Table

Relevant External Links for HCP5 Gene

GeneLoc Exon Structure for

Expression for HCP5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for HCP5

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, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for HCP5 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
rs17206855 - p.Trp32Arg
rs2255221 - p.Trp82Cys
rs2255223 - p.Gly93Glu
rs2395029 - p.Val112Gly
rs3130907 - p.His123Arg

Additional dbSNP identifiers (rs#s) for HCP5 Gene

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

(6) MalaCards diseases for HCP5 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
acquired immunodeficiency syndrome
  • aids
thyroid cancer, nonmedullary, 2
  • nmtc2
herpes zoster
  • herpes zona
skin carcinoma in situ
  • carcinoma in situ of skin
thyroid gland follicular carcinoma
  • follicular adenocarcinoma
- 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
Open Targets Platform
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
  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
  3. LncRNA HCP5 promotes triple negative breast cancer progression as a ceRNA to regulate BIRC3 by sponging miR-219a-5p. (PMID: 31215169) Wang L … Jiang W (Cancer medicine 2019) 2 3
  4. 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 41
  5. 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 41

Products for HCP5 Gene

Sources for HCP5 Gene