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    BCL6 BCL6 transcription repressor [ Homo sapiens (human) ]

    Gene ID: 604, updated on 3-Dec-2024

    Summary

    Official Symbol
    BCL6provided by HGNC
    Official Full Name
    BCL6 transcription repressorprovided by HGNC
    Primary source
    HGNC:HGNC:1001
    See related
    Ensembl:ENSG00000113916 MIM:109565; AllianceGenome:HGNC:1001
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BCL5; LAZ3; BCL6A; ZNF51; ZBTB27
    Summary
    The protein encoded by this gene is a zinc finger transcription factor and contains an N-terminal POZ domain. This protein acts as a sequence-specific repressor of transcription, and has been shown to modulate the transcription of STAT-dependent IL-4 responses of B cells. This protein can interact with a variety of POZ-containing proteins that function as transcription corepressors. This gene is found to be frequently translocated and hypermutated in diffuse large-cell lymphoma (DLCL), and may be involved in the pathogenesis of DLCL. Alternatively spliced transcript variants encoding different protein isoforms have been found for this gene. [provided by RefSeq, Aug 2015]
    Expression
    Ubiquitous expression in fat (RPKM 29.2), bone marrow (RPKM 20.1) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See BCL6 in Genome Data Viewer
    Location:
    3q27.3
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (187721377..187745468, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (190538887..190562977, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (187439165..187463256, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene somatostatin Neighboring gene ReSE screen-validated silencer GRCh37_chr3:187416261-187416442 Neighboring gene hCG1645011-like Neighboring gene receptor transporter protein 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:187455905-187456884 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:187457386-187457561 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:187458977-187459478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:187459479-187459978 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:187462369-187462894 Neighboring gene BCL6 antisense RNA 1 Neighboring gene uncharacterized LOC105374263 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20970 Neighboring gene uncharacterized LOC105374264 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:187580545-187581195 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:187607545-187608148 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:187608149-187608752

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide association meta-analysis of self-reported allergy identifies shared and allergy-specific susceptibility loci.
    EBI GWAS Catalog
    Generalization of variants identified by genome-wide association studies for electrocardiographic traits in African Americans.
    EBI GWAS Catalog
    Genome-wide association study of B cell non-Hodgkin lymphoma identifies 3q27 as a susceptibility locus in the Chinese population.
    EBI GWAS Catalog
    Genome-wide joint meta-analysis of SNP and SNP-by-smoking interaction identifies novel loci for pulmonary function.
    EBI GWAS Catalog
    Meta-analysis identifies multiple loci associated with kidney function-related traits in east Asian populations.
    EBI GWAS Catalog
    Meta-analysis of genome-wide association studies identifies ten loci influencing allergic sensitization.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of B-cell CLL/lymphoma 6 (BCL6) in human B cells PubMed
    Tat tat HIV-1 Tat upregulates the expression of T-bet, Eomesdermin, Blimp-1, Bcl-6, and Bcl-2 in stimulated but not in unstimulated CD8+T lymphocytes PubMed
    tat HIV-1 Tat upregulates the expression of BCL-6 in Kaposi's sarcoma cells and human primary T cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in B cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA damage response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in Rho protein signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in T-helper 2 cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in actin cytoskeleton organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell motility IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in erythrocyte development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in germinal center formation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in heterochromatin formation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in isotype switching to IgE isotypes IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of B cell apoptotic process NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of Notch signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of Rho protein signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of T-helper 2 cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of cell growth IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of cellular senescence IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of isotype switching to IgE isotypes IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of mast cell cytokine production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of mitotic cell cycle DNA replication NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of mononuclear cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of plasma cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in plasma cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of B cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of apoptotic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cell motility IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of regulatory T cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein localization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in pyramidal neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of T cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of cell population proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of cytokine production IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of germinal center formation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of immune response NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in regulation of immune system process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of memory T cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in type 2 immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in paraspeckles IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with replication fork IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    B-cell lymphoma 6 protein
    Names
    B cell CLL/lymphoma 6
    B-cell lymphoma 5 protein
    B-cell lymphoma 6 protein transcript
    BCL-5
    BCL-6
    cys-his2 zinc finger transcription factor
    lymphoma-associated zinc finger gene on chromosome 3
    protein LAZ-3
    zinc finger and BTB domain-containing protein 27
    zinc finger protein 51
    zinc finger transcription factor BCL6S

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_007149.1 RefSeqGene

      Range
      5068..29155
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001130845.2NP_001124317.1  B-cell lymphoma 6 protein isoform 1

      See identical proteins and their annotated locations for NP_001124317.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has a downstream and alternate 5' UTR exon, as compared to variant 1.
      Source sequence(s)
      AC072022, BC146796, BC150184, CN401512
      Consensus CDS
      CCDS3289.1
      UniProtKB/Swiss-Prot
      A7E241, B8PSA7, D3DNV5, P41182
      UniProtKB/TrEMBL
      A5PL18
      Related
      ENSP00000232014.4, ENST00000232014.8
      Conserved Domains (4) summary
      smart00225
      Location:33126
      BTB; Broad-Complex, Tramtrack and Bric a brac
      sd00017
      Location:576596
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00651
      Location:22126
      BTB; BTB/POZ domain
      pfam13465
      Location:588613
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001134738.1NP_001128210.1  B-cell lymphoma 6 protein isoform 2

      See identical proteins and their annotated locations for NP_001128210.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks a coding exon, as compared to variant 1. The reading frame is not affected and the resulting isoform (2) lacks an internal segment, as compared to isoform 2.
      Source sequence(s)
      AW337942, BC146796, BC150184, EU883531, Z21943
      Consensus CDS
      CCDS46975.1
      UniProtKB/TrEMBL
      B5B0A5
      Related
      ENSP00000413122.2, ENST00000450123.6
      Conserved Domains (5) summary
      smart00225
      Location:33126
      BTB; Broad-Complex, Tramtrack and Bric a brac
      sd00017
      Location:520540
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:518540
      zf-C2H2; Zinc finger, C2H2 type
      pfam00651
      Location:22126
      BTB; BTB/POZ domain
      pfam13465
      Location:532557
      zf-H2C2_2; Zinc-finger double domain
    3. NM_001706.5NP_001697.2  B-cell lymphoma 6 protein isoform 1

      See identical proteins and their annotated locations for NP_001697.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) and variant 2 encode the same isoform (1).
      Source sequence(s)
      BC146796, BC150184, DB079847
      Consensus CDS
      CCDS3289.1
      UniProtKB/Swiss-Prot
      A7E241, B8PSA7, D3DNV5, P41182
      UniProtKB/TrEMBL
      A5PL18
      Related
      ENSP00000384371.2, ENST00000406870.7
      Conserved Domains (4) summary
      smart00225
      Location:33126
      BTB; Broad-Complex, Tramtrack and Bric a brac
      sd00017
      Location:576596
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00651
      Location:22126
      BTB; BTB/POZ domain
      pfam13465
      Location:588613
      zf-H2C2_2; Zinc-finger double domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      187721377..187745468 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011513062.4XP_011511364.1  B-cell lymphoma 6 protein isoform X2

      See identical proteins and their annotated locations for XP_011511364.1

      UniProtKB/TrEMBL
      B5B0A5
      Related
      ENSP00000479784.1, ENST00000621333.4
      Conserved Domains (5) summary
      smart00225
      Location:33126
      BTB; Broad-Complex, Tramtrack and Bric a brac
      sd00017
      Location:520540
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:518540
      zf-C2H2; Zinc finger, C2H2 type
      pfam00651
      Location:22126
      BTB; BTB/POZ domain
      pfam13465
      Location:532557
      zf-H2C2_2; Zinc-finger double domain
    2. XM_047448655.1XP_047304611.1  B-cell lymphoma 6 protein isoform X1

      UniProtKB/Swiss-Prot
      A7E241, B8PSA7, D3DNV5, P41182
      UniProtKB/TrEMBL
      A5PL18
    3. XM_005247694.5XP_005247751.1  B-cell lymphoma 6 protein isoform X1

      See identical proteins and their annotated locations for XP_005247751.1

      UniProtKB/Swiss-Prot
      A7E241, B8PSA7, D3DNV5, P41182
      UniProtKB/TrEMBL
      A5PL18
      Conserved Domains (4) summary
      smart00225
      Location:33126
      BTB; Broad-Complex, Tramtrack and Bric a brac
      sd00017
      Location:576596
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00651
      Location:22126
      BTB; BTB/POZ domain
      pfam13465
      Location:588613
      zf-H2C2_2; Zinc-finger double domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      190538887..190562977 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054347430.1XP_054203405.1  B-cell lymphoma 6 protein isoform X2

      UniProtKB/TrEMBL
      B5B0A5
    2. XM_054347429.1XP_054203404.1  B-cell lymphoma 6 protein isoform X1

      UniProtKB/TrEMBL
      A5PL18
    3. XM_054347428.1XP_054203403.1  B-cell lymphoma 6 protein isoform X1

      UniProtKB/TrEMBL
      A5PL18

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_138931.1: Suppressed sequence

      Description
      NM_138931.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.