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CD8BP Gene

pseudogene   GIFtS: 20
GCID: GC02P107103

CD8b Molecule Pseudogene

(Previous names: CD8 antigen, beta polypeptide 2, pseudogene (p37))
(Previous symbol: CD8B2)
  See 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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Aliases
CD8b Molecule Pseudogene1 2
CD8B21 2 3
CD8 Antigen, Beta Polypeptide 2, Pseudogene (P37)1
CD8b Pseudogene3

External Ids:    HGNC: 17081   Entrez Gene: 9272   Ensembl: ENSG000002541267   UniProtKB: A6NJW93   

Export aliases for CD8BP gene to outside databases

Previous GC identifer: GC02P106470


(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 CD8BP Gene:
CD8BP (CD8b molecule pseudogene) is a pseudogene. Diseases associated with CD8BP include lymphosarcoma.

UniProtKB/Swiss-Prot: CD8BL_HUMAN, A6NJW9
Function: Identifies cytotoxic/suppressor T-cells that interact with MHC class I bearing targets. CD8 is thought
to play a role in the process of T-cell mediated killing (By similarity)




(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 CD8BP
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CD8BP

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CD8BP


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

Entrez Gene cytogenetic band: 2q12.1   Ensembl cytogenetic band:  2q12.2   HGNC cytogenetic band: 2q12.2

CD8BP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CD8BP gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P107103:  view genomic region     (about GC identifiers)

Start:
107,103,824 bp from pter      End:
107,124,137 bp from pter
Size:
20,314 bases      Orientation:
plus 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: CD8BL_HUMAN, A6NJW9 (See protein sequence)
Recommended Name: Putative T-cell surface glycoprotein CD8 beta-2 chain precursor  
Size: 211 amino acids; 23768 Da
Subunit: In general heterodimer of an alpha and a beta chain linked by two disulfide bonds
Caution: Could be the product of a pseudogene. According to PubMed:1541829, the gene appears functional but all
the mRNAs identified are derived from CD8B/CD8B1

Explore the universe of human proteins at neXtProt for CD8BP: NX_A6NJW9

Explore proteomics data for CD8BP at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn102

  • See CD8BP Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    4 InterPro protein domains:
     IPR013783 Ig-like_fold
     IPR013106 Ig_V-set
     IPR007110 Ig-like_dom
     IPR003599 Ig_sub

    Graphical View of Domain Structure for InterPro Entry A6NJW9

    ProtoNet protein and cluster: A6NJW9

    UniProtKB/Swiss-Prot: CD8BL_HUMAN, A6NJW9
    Similarity: Contains 1 Ig-like V-type (immunoglobulin-like) domain


    CD8BP for domains           About GeneDecksing


    (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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CD8BL_HUMAN, A6NJW9
    Function: Identifies cytotoxic/suppressor T-cells that interact with MHC class I bearing targets. CD8 is thought
    to play a role in the process of T-cell mediated killing (By similarity)

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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 UniProtKB/Swiss-Prot
    CD8BL_HUMAN, A6NJW9: Cell membrane; Single-pass type I membrane protein (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5
    extracellular1
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886plasma membrane IEA--
    GO:0016021integral component of membrane IEA--

    CD8BP for ontologies           About GeneDecksing


    (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 CD8BP
    Interactions:

        Search GeneGlobe Interaction Network for CD8BP

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002376immune system process IEA--

    CD8BP for ontologies           About GeneDecksing



    (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 CD8BP (CD8BL)



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000417670 ENST00000416057 ENST00000446559 ENST00000303432
    miRNA
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    3 AceView cDNA sequences:

    AW611750 AA514840 BQ349603 

    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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    CD8BP expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CD8BP Expression
    About this image

    CD8BP Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CD8BP Protein Expression
        Custom PCR Arrays for CD8BP
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CD8BP

    (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 CD8BP (if available)
    TreeFam Gene Tree for CD8BP (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CD8BP gene
    3 SIMAP similar genes for CD8BP using alignment to 1 protein entry:     CD8BL_HUMAN:
    CD8B    CD8B1    CD81

    CD8BP for paralogs           About GeneDecksing



    (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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    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing CD8BP
    DNA2.0 Custom Variant and Variant Library Synthesis for CD8BP

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    1 disease for CD8BP:    About MalaCards
    lymphosarcoma

    1 disease from the University of Copenhagen DISEASES database for CD8BP:
    Lymphosarcoma

    CD8BP for disorders           About GeneDecksing


    Export disorders for CD8BP 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 CD8BP gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CD8BP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Recent duplication of the two human CD8 beta-chain genes. (PubMed id 1541829)1, 2, 3 Nakayama K.... Nakauchi H. (J. Immunol. 1992)
    2. Transcriptional diversity at the duplicated human CD8 beta loci. (PubMed id 8436166)1, 2 DiSanto J.P.... Flomenberg N. (Eur. J. Immunol. 1993)
    3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
    4. Chromosomal mapping of the second human CD8B gene locus. (PubMed id 8575821)1 Zhang X.L....Chamberlain J.W. (Immunogenetics 1996)
    5. Duplication of the CD8 beta-chain gene as a marker of the man-gorilla-chimpanzee clade. (PubMed id 8346216)1 Delarbre C....Gachelin G. (Proc. Natl. Acad. Sci. U.S.A. 1993)
    6. Sequence and evolution of the human T-cell antigen receptor beta- chain genes. (PubMed id 3860845)1 Tunnacliffe A.... Rabbitts T.H. (Proc. Natl. Acad. Sci. U.S.A. 1985)

    (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: 927 HGNC: 1708 AceView: CD8B2 Ensembl:ENSG00000254126 euGenes: HUgn927
    ECgene: CD8BP H-InvDB: CD8BP

    (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 CD8BP 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 CD8BP gene:
    Search GeneIP for patents involving CD8BP

    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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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