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HLA-DQB3 Gene

pseudogene   GIFtS: 24
GCID: GC06M032700

Major Histocompatibility Complex, Class II, DQ Beta 3


(Previous symbol: HLA-DVB)
  See HLA-DQB3-related disease
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Major Histocompatibility Complex, Class II, DQ Beta 31 2     DQB32
HLA-DVB1 2     DVB2
D6S2052     DVbeta2
D6S205E2     

External Ids:    HGNC: 49461   Entrez Gene: 31212   Ensembl: ENSG000002260307   UniProtKB: O782194   UniProtKB: Q297834   
UniProtKB: Q299654   
ORGUL members:         

Export aliases for HLA-DQB3 gene to outside databases

Previous GC identifers: GC06U990048 GC06M032674 GC06M032677 GC06M032726 GC06M032806


(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-DQB3 Gene:
HLA-DQB3 (major histocompatibility complex, class II, DQ beta 3) is a pseudogene, and is affiliated with the lncRNA class. Diseases associated with HLA-DQB3 include hypersensitivity reaction type ii disease.


(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-DQB3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HLA-DQB3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6p21.3   Ensembl cytogenetic band:  6p21.32   HGNC cytogenetic band: 6p21.3

HLA-DQB3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HLA-DQB3 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M032700:  view genomic region     (about GC identifiers)

Start:
32,698,535 bp from pter      End:
32,699,472 bp from pter
Size:
938 bases      Orientation:
minus strand

(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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/TrEMBL: O78219 (See protein sequence)
Recommended Name: Lymphocyte antigen precursor  
Size: 126 amino acids; 14688 Da

UniProtKB/TrEMBL: Q29783 (See protein sequence)

Recommended Name: Cell surface glycoprotein  
Size: 89 amino acids; 9703 Da

UniProtKB/TrEMBL: Q29965 (See protein sequence)

Recommended Name: Lymphocyte antigen precursor  
Size: 126 amino acids; 14840 Da


(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

3 InterPro protein domains:
 IPR011162 MHC_I/II-like_Ag-recog
 IPR000353 MHC_II_b_N
 IPR014745 MHC_II_a/b_N

Graphical View of Domain Structure for InterPro Entry O78219
Graphical View of Domain Structure for InterPro Entry Q29783
Graphical View of Domain Structure for InterPro Entry Q29965

ProtoNet protein and cluster: O78219


Find genes that share domains with HLA-DQB3           About GenesLikeMe


(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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Molecular Function:
     Genatlas biochemistry entry for HLA-DQB3:
HLA-DQ,beta-chain related,not known to be expressed

Animal Models:
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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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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
endoplasmic reticulum5
endosome5
lysosome5
plasma membrane5
vacuole5
golgi apparatus4
mitochondrion3
cytosol2
extracellular1
nucleus1

(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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SuperPaths for HLA-DQB3 About    
See pathways by source

SuperPathContained pathways About
1Immune response Antigen presentation by MHC class II
Immune response Antigen presentation by MHC class II0.46
Immune response IL 22 signaling pathway0.31
G protein signaling N RAS regulation pathway0.46
2Immune response NFAT in immune response
Immune response NFAT in immune response0.55
Immune response T cell receptor signaling pathway0.50
Immune response ICOS pathway in T helper cell0.55

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


Selected GeneGo (Thomson Reuters) Pathways for HLA-DQB3 (see all 6)
    Immune response Antigen presentation by MHC class II
Immune response ICOS pathway in T-helper cell
Immune response T cell receptor signaling pathway
Immune response IL-22 signaling pathway
G-protein signaling N-RAS regulation pathway


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Interactions:

    Search GeneGlobe Interaction Network for HLA-DQB3

(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 Tocris compounds for HLA-DQB3



(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:
ENST00000425319
miRNA
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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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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

HLA-DQB3 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for HLA-DQB3
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HLA-DQB3

(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-DQB3 (if available)
TreeFam Gene Tree for HLA-DQB3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for HLA-DQB3 gene
Selected SIMAP similar genes for HLA-DQB3 using alignment to 3 protein entries:     O78219_HUMAN (see all proteins) (see all similar genes):
HLA-DQ3    HLA DQB1    HLA-DQ-beta    HLA-DQB1*03    DQB1*0603    HLA-DQB
HLA-DQB1    HLA-DQB1I    DQB1    HLA-DQB1*06new1    HLA-DQB1*06x    DQB1.SLE
HLA-DQ    DQB1-02    HLA-DQB1/DRB1    HLA-DQB1*05    HLA-DR4/Dw13    HLA-D8.2V

Find genes that share paralogs with HLA-DQB3           About GenesLikeMe



(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-DQB3

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing HLA-DQB3
DNA2.0 Custom Variant and Variant Library Synthesis for HLA-DQB3

(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.)
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1 disease for HLA-DQB3:    
About MalaCards
hypersensitivity reaction type ii disease

3 diseases from the University of Copenhagen DISEASES database for HLA-DQB3:
Diabetes mellitus     Rheumatoid arthritis     Hypersensitivity reaction type II disease

Find genes that share disorders with HLA-DQB3           About GenesLikeMe


Export disorders for HLA-DQB3 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-DQB3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with HLA-DQB3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Nomenclature for factors of the HLA system, 1991. WHO Nomenclature Committee for factors of the HLA system. (PubMed id 1529427)1, 3 Bodmer J.G....Sasazuki T. (Tissue Antigens 1992)
  2. Mapping and nucleotide sequence of a new HLA class II light chain gene, DQB3. (PubMed id 2571586)1, 3 Ando A....Inoko H. (Immunogenetics 1989)
  3. Mapping, nucleotide sequence, and polymorphism of a new HLA class II light chain gene. (PubMed id 2495625)1 Inoko H....Tsuji K. (Transplant. Proc. 1989)
  4. Sequence analysis of HLA class II genes from insulin-dependent diabetic individuals. (PubMed id 3372263)1 Horn G.T.... Erlich H.A. (Hum. Immunol. 1988)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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, Kegg, and/or H-InvDB)
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Entrez Gene: 3121 HGNC: 4946 Ensembl:ENSG00000226030 euGenes: HUgn3121 ECgene: HLA-DQB3
H-InvDB: HLA-DQB3

(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-DQB3 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-DQB3 gene:
Search GeneIP for patents involving HLA-DQB3

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, 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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