HCP5 HLA complex P5 [Homo sapiens (human)] - Gene

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
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

Genomic context

Location:: 6p21.33

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
109.20200522	current	GRCh38.p13 (GCF_000001405.39)	6	NC_000006.12 (31463180..31465809)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (31430957..31433586)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HCP5 is a SMAD3-responsive long non-coding RNA that promotes lung adenocarcinoma metastasis via miR-203/SNAI axis.
Title: HCP5 is a SMAD3-responsive long non-coding RNA that promotes lung adenocarcinoma metastasis via miR-203/SNAI axis.
HCP5 was found to be highly expressed in prostate cancer. Mechanistically, HCP5 was found to promote the proliferation of prostate cancer cells via sponging miR4656 to upregulate the expression of CEMIP. These results provide novel insight into clarifying the critical function of HCP5 in regulating the progression of prostate cancer.
Title: Long non‑coding RNA HCP5 promotes prostate cancer cell proliferation by acting as the sponge of miR‑4656 to modulate CEMIP expression.
High HCP5 expression is associated with childhood obesity.
Title: Long non-coding RNA HCP5 serves as a ceRNA sponging miR-17-5p and miR-27a/b to regulate the pathogenesis of childhood obesity via the MAPK signaling pathway.
HCP5 is a unique human-specific gene within the MHC class I genomic region that encodes a hybrid HLA class I endogenous retroviral lncRNA with peptide coding potential.
Title: Long Noncoding RNA HCP5, a Hybrid HLA Class I Endogenous Retroviral Gene: Structure, Expression, and Disease Associations.
This study showed that polymorphisms in MICA, but not in DEPDC5, HCP5 or PNPLA3, are associated with with chronic hepatitis C-related hepatocellular carcinoma development in Japanese patients with chronic hepatitis C virus infection.
Title: Polymorphisms in MICA, but not in DEPDC5, HCP5 or PNPLA3, are associated with chronic hepatitis C-related hepatocellular carcinoma.
The results of this study confirms the minor allele HCP5 is positively associated with allopurinol-induced drug hypersensitivity.
Title: The minor alleles HCP5 rs3099844 A and PSORS1C1 rs3131003 G are associated with allopurinol-induced severe cutaneous adverse reactions in Han Chinese: a multicentre retrospective case-control clinical study.
We confirmed the association of Sjogren's syndrome with the STAT4 and IL10 genes and we describe a novel association with HCP5.
Title: STAT4, TRAF3IP2, IL10, and HCP5 Polymorphisms in Sjögren's Syndrome: Association with Disease Susceptibility and Clinical Aspects.
we confirmed that SP1-induced upregulation of long non-coding RNA HCP5 promotes the development of osteosarcoma.
Title: SP1-induced upregulation of long non-coding RNA HCP5 promotes the development of osteosarcoma.
Six single-nucleotide polymorphisms (SNPs) in three loci were associated significantly with Kawasaki disease (KD) susceptibility, including the previously reported BLK locus. The other two loci were newly identified: NMNAT2 on chromosome 1q25.3 and the human leukocyte antigen (HLA) region on chromosome 6p21.3 (HLA-C, HLA-B, MICA and HCP5).
Title: A genome-wide association analysis identifies NMNAT2 and HCP5 as susceptibility loci for Kawasaki disease.
The minor alleles of rs2395029, rs9264942, and rs3689068 in the HCP5 and HLA-C, and ZNRD1 genes associate with lower viral loads (VL) among antiretroviral-naive individuals and with shorter time to first VL less 51 copies/ml during anti-HIV therapy.
Title: Impact of polymorphisms in the HCP5 and HLA-C, and ZNRD1 genes on HIV viral load.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

NHGRI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH46617 (e-PCR)
- UniSTS:25471

NoName (e-PCR)
- UniSTS:487045

RH17599 (e-PCR)
- UniSTS:14045

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)

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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.