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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

BCORP1 Gene

pseudogene   GIFtS: 30
GCID: GC0YM021619

BCL6 corepressor pseudogene 1

(Previous names: BCL6 co-repressor-like 2, BCL6 corepressor-like 2 )
(Previous symbol: BCORL2)
  Search for BCORP1
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 Human Malady Compendium 
Biological research products
for BCORP1    

Aliases
for BCORP1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
BCL6 Corepressor Pseudogene 11 2     BCL6 Corepressor-Like 21
BCORL21 2 3     Putative BCoR-Like Protein 22
FLJ398211     BCL-6 Corepressor Pseudogene 13
BCL6 Co-Repressor-Like 21     BCL-6 Corepressor-Like Protein 23

External Ids:    HGNC: 239531   Entrez Gene: 2865542   Ensembl: ENSG000002155807   UniProtKB: Q8N8883   
ORGUL members:         
NONCODE:n409362 n405688    

Export aliases for BCORP1 gene to outside databases


Summaries
for BCORP1 gene

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

Genomic Views
for BCORP1 gene

(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000024.9  NT_011875.12  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for BCORP1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat BCORP1


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

Entrez Gene cytogenetic band: Yq11.222   Ensembl cytogenetic band:  Yq11.222   HGNC cytogenetic band: Yq11.222

BCORP1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
BCORP1 gene location

GeneLoc information about chromosome Y         GeneLoc Exon Structure

GeneLoc location for GC0YM021619:  view genomic region     (about GC identifiers)

Start:
 21,617,317 bp from pter      End:
 21,665,039 bp from pter
Size:
 47,723 bases      Orientation:
 minus strand

Proteins
for BCORP1 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: BCOR2_HUMAN, Q8N888 (See protein sequence)
Recommended Name: Putative BCoR-like protein 2  
Size: 145 amino acids; 16258 Da
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for BCORP1: NX_Q8N888

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8N888

    • BCORP1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).


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    Protein Domains /
    Families
    for BCORP1 gene

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

    ProtoNet protein and cluster: Q8N888

    UniProtKB/Swiss-Prot: BCOR2_HUMAN, Q8N888
    Similarity: Belongs to the BCOR family


    Function
    for BCORP1 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    Pathways & Interactions
    for BCORP1 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for BCORP1

    Drugs & Compounds
    for BCORP1 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
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    Transcripts
    for BCORP1 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
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    About This Section
    REFSEQ mRNAs for BCORP1 gene (2 alternative transcripts): 
    NM_001173413.1  NM_173700.1  

    Unigene Cluster for BCORP1:

    BCL6 corepressor pseudogene 1
    Hs.211713  [show with all ESTs]
    Unigene Representative Sequence: NR_033732
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000441139(uc004fub.1 uc004fua.1 uc011nav.1) ENST00000400605
    ENST00000513194 ENST00000539453

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    Additional cDNA sequence: 

    AK303164.1 BC063452.1 BC110520.1 BC110521.1 BC122539.1 NR_002923.2 NR_033732.1 

    3 DOTS entries:

    DT.101978166  DT.95292065  DT.75128822 

    6 AceView cDNA sequences:

    BX103633 BC063452 AK097140 NM_173700 AI864885 BI827229 

    GeneLoc Exon Structure


    Expression
    for BCORP1 gene

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    BCORP1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GTGCAGTTGA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image
    See BCORP1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for BCORP1

    SOURCE GeneReport for Unigene cluster: Hs.211713
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    In Situ
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    Orthologs
    for BCORP1 gene

    (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)
    About This Section
    		   --

    ENSEMBL Gene Tree for BCORP1 (if available)
    TreeFam Gene Tree for BCORP1 (if available) 

    Paralogs
    for BCORP1 gene

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

    Genomic Variants
    for BCORP1 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/74 NCBI SNPs in BCORP1 are shown (see all 74)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr Y posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs169805741,2
    		C,F--21618583(+) TGAAGG/CCTTCC 2 -- nc-transcript-variant4Minor allele frequency- C:0.36NA WA 66
    rs97865021,2
    		C,F,A--21618856(+) AGGAGT/CCACTT 2 -- int16Minor allele frequency- C:0.35NA WA CSA 71
    rs736269471,2
    		C--21620016(+) TTGTAG/TGCATG 2 -- int11Minor allele frequency- T:0.00WA 2
    rs350366331,2
    		C--21621191(-) TTCTAC/TGGCAG 2 -- nc-transcript-variant2Minor allele frequency- T:0.02MN NA 43
    rs349481941,2
    		C,F--21622006(-) CCACCG/ACACAT 2 -- int12Minor allele frequency- A:0.05MN NA 40
    rs798908361,2
    		C--21625227(+) GGCAGG/TTGGAT 2 -- int10--------
    rs117992221,2
    		C,H--21639037(+) tctgtT/Ctaaaa 2 -- int11Minor allele frequency- C:0.00NA 2
    rs117991561,2
    		C,H--21641094(+) TCCTAA/CCCATT 2 -- int12Minor allele frequency- C:0.00NA 4
    rs347242851,2
    		C--21642296(+) CCATGG/AACATA 2 -- int11Minor allele frequency- A:0.00NA 2
    rs767239541,2
    		C--21644600(+) TGTCAC/TTGGGG 2 -- int10--------

    HapMap Linkage Disequilibrium report for BCORP1 (21617317 - 21665039 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for BCORP1: --

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    Disorders / Diseases
    for BCORP1 gene

    (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.)
    About This Section
    		   --

    Publications
    for BCORP1 gene

    (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)
    About This Section

    PubMed articles for BCORP1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with BCORP1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)1, 2 Skaletsky H.... Page D.C. (2003)
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    4. Toward a complete human genome sequence. (PubMed id 9847074)1 Wilson R. (1998)

    External Searches for BCORP1 gene

    (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)

    Genome Databases showing BCORP1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 286554 HGNC: 23953 AceView: BCORL2 Ensembl:ENSG00000215580 euGenes: HUgn286554
    ECgene: BCORP1 H-InvDB: BCORP1

    Other Databases showing BCORP1 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing BCORP1 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for BCORP1 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for BCORP1 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for BCORP1 gene:
    Search GeneIP for patents involving BCORP1

    GeneCards and IP:
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