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HLA complex P5 (non-protein coding)(Previous name: HLA complex P5 )
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Aliases
for HCP5 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
Subcategory (RNA class): processed_transcript
Quality score for this RNA gene is 3
| Aliases |
|---|
| HLA Complex P5 (Non-Protein Coding)1 2 | | HLA Complex P51 | | D6S2650E1 2 | | HLA Complex Protein P53 | | P5-11 2 | | Protein P5-13 | | 6S2650E2 5 | | |
Export aliases for HCP5 gene to outside databasesPrevious GC identifers: GC06P031201 GC06P031535 GC06P031538 GC01M241088 GC06P031430 GC06Pj31419 GC06P031372 |
Summaries
for HCP5 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for HCP5 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000006.11 NC_018917.1 NT_007592.15 NT_113891.2 NT_167247.1 NT_167249.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the HCP5 gene promoter:
AhR Egr-1 Pax-2 Pax-2a Arnt Egr-4 AREB6 c-Rel Ik-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for HCP5
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HCP5 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6p21.3 Ensembl cytogenetic band: 6p21.33 HGNC cytogenetic band: 6p21.3HCP5 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06P031375: view genomic region
(about GC identifiers)
Start:
|
31,368,479 bp from pter |
End:
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31,445,283 bp from pter |
Size:
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76,805 bases |
Orientation:
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plus strand |
3 alternative locations:
| Chr6+,ALT_REF_LOCI_5 31,423,327-31,424,790 | Chr6+,ALT_REF_LOCI_7 31,351,192-31,353,821 | Chr6+,ALT_REF_LOCI_2 31,418,402-31,460,224 | |
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Proteins
for HCP5 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: HCP5_HUMAN, Q6MZN7 (See
protein sequence)Recommended Name: HLA class I histocompatibility antigen protein P5 Size: 132 amino acids; 14098 Da
Miscellaneous: Variation Gly-112 is associated with low viral loads in untreated HIV patients. The level of circulatingvirus in the plasma of HIV patients (viral set point) varies among individuals during the nonsymptomatic phasepreceding the progression to AIDS. This polymorphism explains 9.6% of the total variation in set point and isassociated 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 inviremia in HIV patients
Miscellaneous: 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 withretroviral Pol genes in HERV retroviral element; thus, it is itself a good candidate to interact with HIV-1, possiblythrough an antisense mechanism against retroviral transcript
Sequence caution: Sequence=AAA59986.1; Type=Frameshift; Positions=58, 125;
Secondary accessions: Q04490Explore the universe of human proteins at neXtProt for HCP5: NX_Q6MZN7
HCP5 Protein expression data from MOPED and PaxDb: About this image 
Human Recombinant Protein Products for HCP5:
HCP5 Antibody Products:
Assay Products for HCP5: |
Protein
Domains /
Families
for HCP5 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| ProtoNet protein and cluster: Q6MZN7 |
Function
for HCP5 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Animal Models:
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: HCP5 (NM_006674) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for HCP5 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HCP5 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HCP5 |
|
Pathways & Interactions
for HCP5 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HCP5
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table
HCP5 for ontologies About GeneDecksing
|
Drugs & Compounds
for HCP5 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for HCP5
Search CenterWatch for drugs/clinical trials and news about HCP5
|
Transcripts
for HCP5 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
Unigene Cluster for HCP5: HLA complex P5 (non-protein coding) Hs.691948 [show with all ESTs]Unigene Representative Sequence: NR_0406624 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000414046(uc003ntl.3) ENST00000460889 ENST00000467369 ENST00000541196
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: HCP5 (NM_006674) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for HCP5 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HCP5 |
Additional cDNA sequence: AJ437509.2 AK093953.1 AK290875.1 BC106759.2 BC113853.1 BC114462.1 BX640979.1 L06175.1 L29367.1 NR_040662.1 10 DOTS entries: DT.97768739 DT.313725 DT.100688520 DT.92422376 DT.100688519 DT.92070423 DT.100020361 DT.100866984 DT.95340351 DT.95272356 24/109 AceView cDNA sequences (see all 109): AW188708 BI835464 AI911613 BU687810 BQ925322 BX640979 AI889617 AL555668 BQ943852 T28905 AA890242 AI872340 AJ437509 NM_006674 AI282556 AK093953 CR626077 BU620516 AA642585 AA149082 BM836915 AI624797 AA313338 BQ935363
GeneLoc Exon Structure
|
Expression
for HCP5 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| Expression evidence for HCP5:none
HCP5 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATGTTGTCAA
About this image
See HCP5 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for HCP5
SOURCE GeneReport for Unigene cluster: Hs.691948
UniProtKB/Swiss-Prot: HCP5_HUMAN, Q6MZN7Tissue specificity: Expressed in lymphoid tissues; Detected in spleen as well as in B-cell lines, NK cell lines andactivated lymphocytes
SABiosciences Custom PCR Arrays for HCP5
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HCP5
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat HCP5 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat HCP5 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HCP5 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HCP5 |
Orthologs
for HCP5 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
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ENSEMBL Gene Tree for HCP5 (if available)
TreeFam Gene Tree for HCP5 (if available) |
Paralogs
for HCP5 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for HCP5 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 6 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for HCP5 (31368479 - 31445283 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 25 variations for HCP5
15/24 CNVs (see all 24): 47978 8509 3601 36506 51892 8510 34591 2625 34518 64473 7564 93623 34623 32782 53986
1 Indel: 43716
Human Gene Mutation Database (HGMD): HCP5
| SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for HCP5 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
HCP5 for disorders About GeneDecksing
OMIM gene information: 604676
OMIM disorders: --
6  diseases for HCP5: About MalaCardssystemic lupus erythematosus lupus erythematosus psoriatic arthritis arthritis
psoriasis toxic epidermal necrolysis
Human Genome Epidemiology (HuGE) Navigator: HCP5 (15 documents)
Export disorders for HCP5 gene to outside databases
|
Publications
for HCP5 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for HCP5 gene, integrated from 9 sources (see all 32):
(articles sorted by number of sources associating them with HCP5) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The P5 multicopy gene family in the MHC is related in sequence to human endogenous retroviruses HERV-L and HERV-16. (PubMed id 10199916)1, 2, 3 Kulski J.K. and Dawkins R.L. (1999)
- A novel coding sequence belonging to a new multicopy gene family mapping within the human MHC class I region. (PubMed id 8462994)1, 2, 3 Vernet C....Pontarotti P. (1993)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- A whole-genome association study of major determinants for allopurinol-related Stevens-Johnson syndrome and toxic epidermal necrolysis in Japanese patients. (PubMed id 21912425)1 Tohkin M....Ikezawa Z. (2013)
- Novel associations for hypothyroidism include known au toimmune risk loci. (PubMed id 22493691)1 Eriksson N....Do C.B. (2012)
- Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. (PubMed id 22589738)1 Fox C.S....Borecki I.B. (2012)
- Association of the genetic marker for abacavir hypers ensitivity HLA-B*5701 with HCP5 rs2395029 in Mexican Mestizos. (PubMed id 21510768)1 Sanchez-Giron F....Carnevale A. (2011)
- Rising HIV-1 viral load set point at a population lev el coincides with a fading impact of host genetic factors on HIV-1 control. (PubMed id 21860345)1 van Manen D....Schuitemaker H. (2011)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- Genome-wide association study of Stevens-Johnson Synd rome and Toxic Epidermal Necrolysis in Europe. (PubMed id 21801394)1 GAcnin E....Mockenhaupt M. (2011)
|
External Searches for HCP5 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing HCP5 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing HCP5 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing HCP5 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for HCP5 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for HCP5 gene:
Search GeneIP for patents involving HCP5
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for HCP5 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for HCP5 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for HCP5 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HCP5 | | | OriGene Protein Over-expression Lysate for HCP5 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for HCP5 | | OriGene 3'-UTR Clone for HCP5 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HCP5 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| | | | Search Tocris compounds for HCP5 |
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 | | | HCP5 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HCP5 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HCP5 |
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