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HLA-E Gene

protein-coding   GIFtS: 59

GC06P030565
major histocompatibility complex, class I, E
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
DKFZp686P19218 2
EA1.2 2
EA2.1 2
HLA-6.2 2, 3
HLAE 3
MHC 2
OTTHUMP00000029214 2
QA1 2
Descriptions
HLA class I histocompatibility antigen, E alpha chain 2
MHC HLA-E alpha-1 2
MHC HLA-E alpha-2.1 2
MHC class I antigen 2
MHC class I antigen E 3
lymphocyte antigen 2
major histocompatibility complex, class I, E 2
External Ids
HGNC: 49621
Entrez Gene: 31332
UniProtKB: P137473
Search outside databases for aliases for HLA-E gene

Previous GC identifers: GC06P030513 GC06P030228 GC06P030563

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for HLA-E:
HLA-E belongs to the HLA class I heavy chain paralogues. This class I molecule is a heterodimer
consisting of a heavy chain and a light chain (beta-2 microglobulin). The heavy chain is anchored
in the membrane. HLA-E binds a restricted subset of peptides derived from the leader peptides of
other class I molecules. The heavy chain is approximately 45 kDa and its gene contains 8 exons.
Exon one encodes the leader peptide, exons 2 and 3 encode the alpha1 and alpha2 domains, which
both bind the peptide, exon 4 encodes the alpha3 domain, exon 5 encodes the transmembrane region,
and exons 6 and 7 encode the cytoplasmic tail. [provided by RefSeq]

UniProtKB/Swiss-Prot: HLAE_HUMAN, P13747
Function: Preferably binds to a peptide derived from the signal sequence of most HLA-A, -B, -C and
-G molecules

Gene Wiki entry for HLA-E

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the HLA-E gene  

Entrez Gene cytogenetic band: 6p21.3   HGNC cytogenetic band: 6p21.3

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

GeneLoc gene densities for chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P030565:     (about GC identifiers)

Start:
30,565,250 bp from pter
End:
30,569,077 bp from pter
Size:
3,828 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000006.10  NT_007592.14  NT_113891.1  NT_113893.1  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: HLAE_HUMAN, P13747 (See protein sequence)
Recommended Name: HLA class I histocompatibility antigen, alpha chain E precursor  
Size: 358 amino acids; 40157 Da
Subunit: Heterodimer of an alpha chain and a beta chain (beta-2-microglobulin)
Subcellular location: Membrane; Single-pass type I membrane protein
Caution: The existence of allele E*0102 (PubMed:3260916) and allele E*0104 (PubMed:1977695) is
uncertain. The alleles could not be confirmed in further studies (PubMed:12445303)
PDB structures from and Proteopedia :
1KPR (3D)    1KTL (3D)    1MHE (3D)    2ESV (3D)    3BZE (3D)    3BZF (3D)    3CDG (3D)    3CII (3D)    
Secondary accessions: Q30169 Q9BT83 Q9GIY7 Q9GIY8

REFSEQ proteins: NP_005507.3  
Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (HLA Class I, HLA E)
Human Recombinant Proteins from Abnova (HLA-E)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

3 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005886 plasma membrane EXP11513152
GO:0016021 integral to membrane IEA--
GO:0042612 MHC class I protein complex IEA--
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Antibodies for HLA-E: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for HLA-E
Browse R&D Systems for Antibodies
Antibodies from Abcam (HLA Class I, HLA E), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (HLA-E)
Novus Biologicals Antibodies for HLA-E

Assays for HLA-E: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

5/6 InterPro domains/families (see all 6 ):
 IPR007110 Ig-like
 IPR003006 Ig/MHC_CS
 IPR011161 MHC_I-like_Ag-recog
 IPR001039 MHC_I_a_a1/a2
 IPR013783 Ig-like_fold


   GeneDecks  HLA-E for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P13747

ProtoNet protein and cluster: P13747

2 Blocks protein families:
IPB001039 MHC class I signature
IPB003597 Immunoglobulin C-type


UniProtKB/Swiss-Prot: HLAE_HUMAN, P13747
Similarity: Belongs to the MHC class I family
Similarity: Contains 1 Ig-like C1-type (immunoglobulin-like) domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (HLA-E)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (HLA-E)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005516

              Applied Biosystems Silencer® siRNAs for HLA-E

              Sigma-Aldrich siRNA for HLA-E  
                     Sigma-Aldrich shRNA for HLA-E  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for HLA-E
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005516
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005516
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_005516 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_005516

UniProtKB/Swiss-Prot: HLAE_HUMAN, P13747
Function: Preferably binds to a peptide derived from the signal sequence of most HLA-A, -B, -C and
-G molecules

Genatlas biochemistry entry for HLA-E:
HLA class Ib,44kDa,6.2kb HindIII fragment,TAP and tapasin dependent,localized at the cell
surface,harboring structural features conferring tight peptide binding specificity,correlating
with the binding of an MHC class I leader peptide (see MHC1)

1 Gene Ontology (GO) molecular function term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0032393 MHC class I receptor activity TAS3260916
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section


3 Millipore Pathways for HLA-E
 Immune response Role of integrins in NK cells cytotoxicity
 Immune response CD16 signaling in NK cells
 Immune response Role of DAP12 receptors in NK cells

   GeneDecks  HLA-E for the pathways selected above  
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5 Sigma-Aldrich "Your Favorite Gene" Pathways for  HLA-E  (Your Favorite Gene powered by Ingenuity) 
 Graft-versus-Host Disease Signaling
 Allograft Rejection Signaling
 Antigen Presentation Pathway
 Autoimmune Thyroid Disease Signaling
 Type I Diabetes Mellitus Signaling

   GeneDecks  HLA-E for the pathways selected above  
About GeneDecksing

5/7 Kegg Pathways  (Kegg details for HLA-E) (see all 7 ):
 hsa04514 Cell adhesion molecules (CAMs)
 hsa04612 Antigen processing and presentation
 hsa04650 Natural killer cell mediated cytotoxicity
 hsa04940 Type I diabetes mellitus
 hsa05320 Autoimmune thyroid disease

   GeneDecks  HLA-E for the pathways selected above  
About GeneDecksing
 Gene Network CentralTM Interacting Genes and Proteins Network for  HLA-E 

3 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0002474 antigen processing and presentation of peptide antigen via MHC class I IEA--
GO:0006955 immune response IEA--
GO:0019882 antigen processing and presentation IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for HLA-E

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (HLA-E)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (HLA-E)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005516

              Sigma-Aldrich siRNA for HLA-E  
                     Sigma-Aldrich shRNA for HLA-E  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_005516  

REFSEQ mRNAs for HLA-E gene: 

NM_005516.4   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_005516  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005516
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005516
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_005516 

Additional cDNA sequence: 

AB209870.1 AJ293263.1 AJ293264.1 AK098434.1 AK225048.1 AK292391.1 AK296822.1 AK298695.1 
AK300906.1 AK301125.1 AK314411.1 AK316327.1 AY216681.1 AY221103.1 BC002578.2 BC004297.1 
BC040479.1 BX538084.1 CR610198.1 CR619908.1 CR624610.1 CR626013.1 L78455.1 L78934.1 
M20022.1 M31183.1 X56841.1 X64879.1 

24/79 DOTS entries (see all 79 ):

DT.91764483  DT.95245447  DT.100061168  DT.91740240  DT.91764506  DT.95245445  DT.121346331  DT.95245417 
DT.95245415  DT.87005617  DT.95245421  DT.121346247  DT.121345787  DT.121346421  DT.121346111  DT.101988044 
DT.91671107  DT.91831076  DT.100049205  DT.121346187  DT.121345720  DT.91954591  DT.92024656  DT.100684782 

24/1003 AceView cDNA sequences (see all 1003 ):

BQ052716 BM469085 CA439069 BQ927159 AW364302 AI936021 AA588477 BQ000024 
BI818829 AA367266 BM927452 AI468136 BU617600 BQ052969 BM918109 AI685484 
NM_001004349 AW084174 BQ009416 BG698804 CA392815 AI298583 BG679077 AI568109 

highest scoring ESTs for HLA-E:

AA866087 AK098434 AW380206 AW385691 AW388080 AW388087 AW606608 AW606611 AW797459 AW998875 

Unigene Cluster for HLA-E:

Major histocompatibility complex, class I, E
Hs.650174  [show with all ESTs]
Unigene Representative Sequence: AB209870


GeneLoc Exon Structure

(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

HLA-E expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for HLA-E

1 / 2 / 3

7 probe-sets matching HLA-E gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

32321_at2, 3 U95-A 3 1.00 0.33 1.00 1.00 M16714 0.20 1.00 0.72 1

217456_x_at2, 3 U133-A 7 1.00 0.61 -- -- M31183 0.80 1.00 0.91 1

200904_at2, 3 U133-A 3 1.00 0.33 -- -- X56841 0.80 1.00 0.91 1

200905_x_at2, 3 U133-A 9 1.00 0.28 -- -- NM_005516 0.60 1.00 0.82 1

217456_x_at2 U133Plus2 7 1.00 0.61 -- -- -- -- -- -- --

200904_at2 U133Plus2 3 1.00 0.33 -- -- -- -- -- -- --

200905_x_at2 U133Plus2 9 1.00 0.28 -- -- -- -- -- -- --
About this table
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: ACCCTTTAAC

SOURCE GeneReport for Unigene cluster: Hs.650174

Expression variation in blood from EXPOLDB for HLA-E

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for HLA-E gene from 4 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
PATR-E1   -- major histocompatibility complex, class I, E 98.76(n)
98(a)
462540  XM_518330.2  XP_518330.2 
rat
(Rattus norvegicus)
H2-T231   -- histocompatibility 2, T region locus 23 73.87(n)
64.27(a)
294228  XM_215303.4  XP_215303.3 
mouse
(Mus musculus)
C920025E04Rik1, 5 175
RIKEN cDNA C920025E04 gene1, 5 77.54(n)1
68.62(a)1
6678031  XM_992574.11  XP_997668.11 
 AK0833765  AK0833875  (see all 6)
zebrafish
(Danio rerio)
zgc:641151   -- zgc:64115 46.58(n)
35.09(a)
791453  NM_001110118.1  NP_001103588.1 
About this table        Species with no ortholog for HLA-E
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

UniProtKB/Swiss-Prot: HLAE_HUMAN, P13747
Polymorphism: The following alleles of E-1 are known: E*0101, E*0102, E*0103 and E*0104. The
sequence shown is that of E*0101


10/64 NCBI SNPs in HLA-E are shown (see all 64 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 36)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 6 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs12644591,2
A,C,F,H30563899(-) cctcaT/Cgcttc 1 -- ng5116Minor allele frequency- C:0.09EU EA WA NS NA 1568
--
rs10596551,2
A,C,F,H30569064(-) tttttT/Caattt 1 -- ut3111Minor allele frequency- C:0.26EU EA WA NS MN 1296
--
rs12644571,2
A,C,F,O30566043(-) GCGCCT/CGTCGG 1 R/G mis112Minor allele frequency- C:0.46MN NS NA EA 1338
--
rs10595101,2
A,C,F30565711(-) CGCAGA/C/G/
        
TTCAC
3 N/K N/N mis1 syn15MN NA 382
rs7623241,2
C,F,H30563865(-) aattgC/Tgctcc 1 -- ng5112Minor allele frequency- N:0.00EU EA WA NA 1048
--
rs171953761,2
C,F30568921(+) GGCACG/AGGCCT 1 -- ut312Minor allele frequency- A:0.04MN 162
--
rs171953691,2
C,F30568734(+) TCCTTC/TCCTGT 1 -- ut312Minor allele frequency- T:0.03MN 162
rs37573351,2
F,H30563511(+) CTGCAG/TAAGGT 1 -- ng515Minor allele frequency- T:0.06EA EU WA 1894
--
rs178753641,2
F30564129(+) CTCCTA/GTCTCA 1 -- ng511Minor allele frequency- G:0.03MN 66
--
rs178753631,2
F30564072(+) AGTGCA/TGTGGT 1 -- ng511Minor allele frequency- T:0.04MN 66
About this table

HapMap Linkage Disequilibrium images for HLA-E (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 143010

10/12 Novoseek disease relationships for HLA-E gene (see all 12 )

Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
choriocarcinoma 48.93 4 15578261 (1), 19239424 (1), 11884433 (1)
spontaneous abortion 45.97 4 9894856 (3)
miscarriage recurrent 42.96 5 16514201 (3), 11270642 (2)
infection chronic 31.46 1 15751767 (1)
autoimmune diseases 6.69 2 19140831 (1), 10689118 (1)
myeloma 4.02 4 1402654 (1), 9574542 (1)
preeclampsia 0.12 1 16806485 (1)
necrosis 0.00 4 11870233 (1), 17179229 (1)
melanoma 0.00 9 16920947 (5), 12618909 (2)
cancer 0.00 4 18292941 (1), 15977644 (1), 17768067 (1), 16199130 (1)
About this table

Human Gene Mutation Database: HLA-E
Genetic Association Database: HLA-E
Human Genome Epidemiology Navigator: HLA-E (2168 documents)

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/208 PubMed articles for HLA-E gene (see all 208 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
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, and/or H-InvDB)
About This Section

Entrez Gene: 3133 HGNC: 4962 AceView: HLA-EandRANP1andFLJ45422 euGenes: HUgn3133 ECgene: HLA-E
H-InvDB: HLA-E
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for HLA-E:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



  Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
  Invitrogen Antibodies  Invitrogen Assays
  Invitrogen Clones  Invitrogen Q-PCR Products
  Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
  Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for HLA-E-related products

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 Millipore Preclinical / Clinical Development Services
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 Predesigned and custom siRNAs for HLA-E Antibodies for HLA-E
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for HLA-E Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Recombinant Proteins (HLA-E)
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 Recombinant Proteins
(HLA Class I, HLA E)
 Antibodies (HLA Class I, HLA E)
 Search OriGene for HLA-E
 Search Tocris compounds for HLA-E




 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for HLA-E

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