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HLA-S Gene

pseudogene   GIFtS: 17
GCID: GC06M031371

Major Histocompatibility Complex, Class I, S (Pseudogene)

  See HLA-S-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Major Histocompatibility Complex, Class I, S (Pseudogene)1 2
HLA-172

External Ids:    HGNC: 193951   Entrez Gene: 2670152   Ensembl: ENSG000002258517   

Export aliases for HLA-S gene to outside databases

Previous GC identifers: GC06U900019 GC06M031458 GC06M031350 GC06M031140 GC06M031356


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for HLA-S Gene:
HLA-S (major histocompatibility complex, class I, S (pseudogene)) is a pseudogene. Diseases associated with HLA-S include mesial temporal lobe epilepsy with hippocampal sclerosis, and granulocytopenia.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for HLA-S
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for HLA-S

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HLA-S


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: 6p21.3

HLA-S Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HLA-S gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M031371:  view genomic region     (about GC identifiers)

Start:
31,349,346 bp from pter      End:
31,350,264 bp from pter
Size:
919 bases      Orientation:
minus strand

4 alternative locations:
Chr6-,NT_167246 2,695,796-2,696,714      Chr6-,NT_167249 2,683,110-2,684,048      Chr6-,NT_113891.2 2,862,009-2,862,941     
Chr6-,NT_167248 2,642,854-2,643,762     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
HLA: Histocompatibility complex

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Animal Models:
   inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for HLA-S
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for HLA-S
Interactions:

    Search GeneGlobe Interaction Network for HLA-S

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for HLA-S

3 Novoseek inferred chemical compound relationships for HLA-S gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
cyclosporin a 12.1 1 11579507 (1)
cyclophosphamide 0 2 11579507 (1)
methotrexate 0 1 11579507 (1)



Find genes that share compounds with HLA-S           About GenesLikeMe



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000425174
miRNA
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Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat HLA-S
Primer
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  QuantiTect SYBR Green Assays in human, mouse, rat HLA-S
  QuantiFast Probe-based Assays in human, mouse, rat HLA-S

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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HLA-S expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
HLA-S Expression
About this image

HLA-S Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for HLA-S
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HLA-S

(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)
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  --

ENSEMBL Gene Tree for HLA-S (if available)
TreeFam Gene Tree for HLA-S (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Locus Specific Mutation Databases (LSDB): HLA-S

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing HLA-S
DNA2.0 Custom Variant and Variant Library Synthesis for HLA-S

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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7 diseases for HLA-S:    
About MalaCards
mesial temporal lobe epilepsy with hippocampal sclerosis    granulocytopenia    t-cell prolymphocytic leukemia    adult t-cell leukemia
pulmonary tuberculosis    influenza    cervical cancer


Find genes that share disorders with HLA-S           About GenesLikeMe

Selected Novoseek inferred disease relationships for HLA-S gene (see all 18)    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
leukemia prolymphocytic 51.4 1 8971584 (1)
hepatitis autoimmune 35.7 1 19098870 (1)
genetic susceptibility 34.8 1 1630637 (1)
autoimmune diseases 32.3 3 19098870 (1), 11310485 (1), 10431166 (1)
hepatitis c 17.1 3 11398104 (1), 19931565 (1), 17603847 (1)
sarcoidosis 17.1 2 11588003 (1), 12233061 (1)
cervical cancer 16.3 1 11097225 (1)
nephrotic syndrome 8.13 1 11297154 (1)
virus infection 8 2 8642677 (1), 19252466 (1)
immunodeficiency 5.28 2 8568315 (1), 11133384 (1)

Genetic Association Database (GAD): HLA-S

Export disorders for HLA-S gene to outside databases

(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)
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PubMed articles for HLA-S gene, integrated from 10 sources (see all 114):
(articles sorted by number of sources associating them with HLA-S)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Gene organisation, sequence variation and isochore structure at the centromeric boundary of the human MHC. (PubMed id 10452889)1, 3 Stephens R....Beck S. (J. Mol. Biol. 1999)
  2. The HLA class I gene family includes at least six genes and twelve pseudogenes and gene fragments. (PubMed id 1517563)1, 3 Geraghty D.E....Orr H.T. (J. Immunol. 1992)
  3. Interaction between ERAP1 and HLA-B27 in ankylosing spondylitis implicates peptide handling in the mechanism for HLA-B27 in disease susceptibility. (PubMed id 21743469)4 Evans D.M.... . (Nat. Genet. 2011)
  4. Genome-wide association study identifies a susceptibility locus for HCV-induced hepatocellular carcinoma. (PubMed id 21499248)4 Kumar V....Matsuda K. (Nat. Genet. 2011)
  5. A genome-wide association study identifies two new risk loci for Graves' disease. (PubMed id 21841780)4 Chu X....Song H.D. (Nat. Genet. 2011)
  6. Genome-wide association study identifies variants in the MHC class I, IL10, and IL23R-IL12RB2 regions associated with BehAset's disease. (PubMed id 20622878)4 Remmers E.F....GA1l A. (Nat. Genet. 2010)
  7. Meta-analysis of genome-wide scans for human adult stature identifies novel Loci and associations with measures of skeletal frame size. (PubMed id 19343178)4 Soranzo N....Deloukas P. (PLoS Genet. 2009)
  8. Association of systemic lupus erythematosus with C8orf13-BLK and ITGAM-ITGAX. (PubMed id 18204098)4 Hom G....Behrens T.W. (N. Engl. J. Med. 2008)
  9. Risk alleles for multiple sclerosis identified by a genomewide study. (PubMed id 17660530)4  ....Hauser S.L. (N. Engl. J. Med. 2007)
  10. Does HLA type predispose some individuals to cancer? (PubMed id 10431166)9 Little A.M. and Stern P.L. (Mol Med Today 1999)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 267015 HGNC: 19395 Ensembl:ENSG00000225851 euGenes: HUgn267015 ECgene: HLA-S
H-InvDB: HLA-S

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for HLA-S Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for HLA-S gene:
Search GeneIP for patents involving HLA-S

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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