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BCL6 BCL6 transcription repressor [ Homo sapiens (human) ]

Gene ID: 604, updated on 12-Oct-2019

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
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

Genomic context

See BCL6 in Genome Data Viewer
Location:
3q27.3
Exon count:
12
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (187721377..187745472, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (187439165..187463513, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene somatostatin Neighboring gene hCG1645011-like Neighboring gene receptor transporter protein 2 Neighboring gene uncharacterized LOC105374263 Neighboring gene uncharacterized LOC105374264

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

NHGRI GWAS Catalog

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
DNA-binding transcription factor activity, RNA polymerase II-specific NAS
Non-traceable Author Statement
more info
PubMed 
DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin DNA binding IEA
Inferred from Electronic Annotation
more info
 
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
intronic transcription regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
B cell differentiation IEA
Inferred from Electronic Annotation
more info
 
Rho protein signal transduction IEA
Inferred from Electronic Annotation
more info
 
actin cytoskeleton organization IEA
Inferred from Electronic Annotation
more info
 
cell morphogenesis IEA
Inferred from Electronic Annotation
more info
 
cellular response to DNA damage stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cytokine-mediated signaling pathway TAS
Traceable Author Statement
more info
 
erythrocyte development IEA
Inferred from Electronic Annotation
more info
 
germinal center formation IEA
Inferred from Electronic Annotation
more info
 
inflammatory response IEA
Inferred from Electronic Annotation
more info
 
negative regulation of B cell apoptotic process NAS
Non-traceable Author Statement
more info
PubMed 
negative regulation of Notch signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of Rho protein signal transduction IEA
Inferred from Electronic Annotation
more info
 
negative regulation of T-helper 2 cell differentiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cell growth IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell proliferation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cell-matrix adhesion IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cellular senescence IEA
Inferred from Electronic Annotation
more info
 
negative regulation of isotype switching to IgE isotypes IEA
Inferred from Electronic Annotation
more info
 
negative regulation of mast cell cytokine production IEA
Inferred from Electronic Annotation
more info
 
negative regulation of mitotic cell cycle DNA replication NAS
Non-traceable Author Statement
more info
PubMed 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
positive regulation of B cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cellular component movement IEA
Inferred from Electronic Annotation
more info
 
positive regulation of histone deacetylation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of regulatory T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein localization IEA
Inferred from Electronic Annotation
more info
 
regulation of GTPase activity IEA
Inferred from Electronic Annotation
more info
 
regulation of apoptotic process TAS
Traceable Author Statement
more info
 
regulation of cell proliferation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of germinal center formation NAS
Non-traceable Author Statement
more info
PubMed 
regulation of immune response NAS
Non-traceable Author Statement
more info
PubMed 
regulation of inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of memory T cell differentiation IEA
Inferred from Electronic Annotation
more info
 
spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
type 2 immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus 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)

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
    P41182
    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/Swiss-Prot
    P41182
    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
    P41182
    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: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    187721377..187745472 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513062.3XP_011511364.1  B-cell lymphoma 6 protein isoform X2

    See identical proteins and their annotated locations for XP_011511364.1

    UniProtKB/Swiss-Prot
    P41182
    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_005247694.4XP_005247751.1  B-cell lymphoma 6 protein isoform X1

    See identical proteins and their annotated locations for XP_005247751.1

    UniProtKB/Swiss-Prot
    P41182
    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

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.
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