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HLA-DRB9 Gene

pseudogene   GIFtS: 22
GCID: GC06M032428

Major Histocompatibility Complex, Class II, DR Beta 9 (Pseudogene)


(Previous symbols: HLA-DRB1L, HLA-DR1BL)
  See HLA-DRB9-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, DR Beta 9 (Pseudogene)1 2
HLA-DR1BL1 2
HLA-DRB1L1 2
D6S2062
D6S206E2
DRB94

External Ids:    HGNC: 49571   Entrez Gene: 31322   Ensembl: ENSG000001963017   UniProtKB: D7GNM94   UniProtKB: D7GNN04   
UniProtKB: D7GNN14   UniProtKB: Q302174   
ORGUL members:         

Export aliases for HLA-DRB9 gene to outside databases

Previous GC identifers: GC06M032454 GC06M032198 GC06M032498 GC06M032535


(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-DRB9 Gene:
HLA-DRB9 (major histocompatibility complex, class II, DR beta 9 (pseudogene)) is a pseudogene, and is affiliated with the lncRNA class. Diseases associated with HLA-DRB9 include ulcerative colitis.


(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-DRB9
         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-DRB9


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-DRB9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HLA-DRB9 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M032428:  view genomic region     (about GC identifiers)

Start:
32,427,597 bp from pter      End:
32,441,277 bp from pter
Size:
13,681 bases      Orientation:
minus strand

1 alternative location:
Chr6-,NT_113891.2 3,897,480-3,899,020     

(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: D7GNM9 (See protein sequence)
Recommended Name: MHC class II antigen  
Size: 89 amino acids; 10503 Da

UniProtKB/TrEMBL: D7GNN0 (See protein sequence)

Recommended Name: MHC class II antigen  
Size: 89 amino acids; 10489 Da

UniProtKB/TrEMBL: D7GNN1 (See protein sequence)

Recommended Name: MHC class II antigen  
Size: 89 amino acids; 10480 Da

UniProtKB/TrEMBL: Q30217 (See protein sequence)

Recommended Name: MHC class II HLA-DRB9  
Size: 89 amino acids; 10489 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 D7GNM9
Graphical View of Domain Structure for InterPro Entry D7GNN0
Graphical View of Domain Structure for InterPro Entry D7GNN1
Graphical View of Domain Structure for InterPro Entry Q30217

ProtoNet protein and cluster: D7GNM9


Find genes that share domains with HLA-DRB9           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-DRB9:
HLA-DR,beta 9 pseudogene,isolated fragment

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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(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-DRB9
Interactions:

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(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-DRB9



(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:
ENST00000449413
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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HLA-DRB9 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
HLA-DRB9 Expression
About this image

HLA-DRB9 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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In Situ
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(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-DRB9 (if available)
TreeFam Gene Tree for HLA-DRB9 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for HLA-DRB9 gene
Selected SIMAP similar genes for HLA-DRB9 using alignment to 4 protein entries:     D7GNM9_HUMAN (see all proteins) (see all similar genes):
HLA-DRB5    HLA-DRB1*04    HLA-DRBI    HLA-DR15    HLA-DR-beta 1    HLA-DR4I
HLA-DR beta    HLA-DRB1*    HLA-C    HLA-DR4    HLA-DRB1*1327    HLA-DRB1*1605
MHC Class II HLA DRB1    HLA-DRB2    HLA-D    DRB1*0405V3    HLA-DRB7    HLA

Find genes that share paralogs with HLA-DRB9           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-DRB9

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing HLA-DRB9
DNA2.0 Custom Variant and Variant Library Synthesis for HLA-DRB9

(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-DRB9:    
About MalaCards
ulcerative colitis


Find genes that share disorders with HLA-DRB9           About GenesLikeMe

Genetic Association Database (GAD): HLA-DRB9
Human Genome Epidemiology (HuGE) Navigator: HLA-DRB9 (1 document)

Export disorders for HLA-DRB9 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-DRB9 gene, integrated from 10 sources (see all 18):
(articles sorted by number of sources associating them with HLA-DRB9)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL). (PubMed id 20228798)1, 4 Franke A....Schreiber S. (Nat. Genet. 2010)
  2. 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)
  3. Genome-wide association analysis identifies 13 new risk loci for schizophrenia. (PubMed id 23974872)1 Ripke S....Sullivan P.F. (Nat. Genet. 2013)
  4. Novel associations for hypothyroidism include known autoimmune risk loci. (PubMed id 22493691)1 Eriksson N....Do C.B. (PLoS ONE 2012)
  5. Genome-wide association study of classical Hodgkin lymphoma and Epstein-Barr virus status-defined subgroups. (PubMed id 22286212)4 Urayama K.Y....McKay J.D. (J. Natl. Cancer Inst. 2012)
  6. Pathway-driven gene stability selection of two rheumatoid arthritis GWAS identifies and validates new susceptibility genes in receptor mediated signalling pathways. (PubMed id 21653640)4 Eleftherohorinou H....Coin L.J. (Hum. Mol. Genet. 2011)
  7. Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47. (PubMed id 21297633)4 Anderson C.A....Rioux J.D. (Nat. Genet. 2011)
  8. Genome-wide association and linkage identify modifier loci of lung disease severity in cystic fibrosis at 11p13 and 20q13.2. (PubMed id 21602797)4 Wright F.A....Cutting G.R. (Nat. Genet. 2011)
  9. A genome-wide association study of Hodgkin's lymphoma identifies new susceptibility loci at 2p16.1 (REL), 8q24.21 and 10p14 (GATA3). (PubMed id 21037568)4 Enciso-Mora V....Houlston R.S. (Nat. Genet. 2010)
  10. A genome-wide meta-analysis identifies 22 loci associated with eight hematological parameters in the HaemGen consortium. (PubMed id 19820697)1 Soranzo N....Gieger C. (Nat. Genet. 2009)

(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: 3132 HGNC: 4957 Ensembl:ENSG00000196301 euGenes: HUgn3132 ECgene: HLA-DRB9
H-InvDB: HLA-DRB9

(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-DRB9 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-DRB9 gene:
Search GeneIP for patents involving HLA-DRB9

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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