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    KLF6 Kruppel like factor 6 [ Homo sapiens (human) ]

    Gene ID: 1316, updated on 17-Jun-2019

    Summary

    Official Symbol
    KLF6provided by HGNC
    Official Full Name
    Kruppel like factor 6provided by HGNC
    Primary source
    HGNC:HGNC:2235
    See related
    Ensembl:ENSG00000067082 MIM:602053
    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
    GBF; ZF9; BCD1; CBA1; CPBP; PAC1; ST12; COPEB
    Summary
    This gene encodes a member of the Kruppel-like family of transcription factors. The zinc finger protein is a transcriptional activator, and functions as a tumor suppressor. Multiple transcript variants encoding different isoforms have been found for this gene, some of which are implicated in carcinogenesis. [provided by RefSeq, May 2009]
    Expression
    Ubiquitous expression in bone marrow (RPKM 165.8), gall bladder (RPKM 117.9) and 25 other tissues See more
    Orthologs

    Genomic context

    See KLF6 in Genome Data Viewer
    Location:
    10p15.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (3775996..3785281, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (3818188..3827473, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376361 Neighboring gene uncharacterized LOC105376363 Neighboring gene uncharacterized LOC105376364 Neighboring gene VISTA enhancer hs1837

    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 FunctionsWhat's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Malignant tumor of prostate
    MedGen: C0376358 OMIM: 176807 GeneReviews: Not available
    Compare labs
    Neoplasm of stomach
    MedGen: C0038356 OMIM: 613659 GeneReviews: Not available
    Compare labs

    NHGRI GWAS Catalog

    Description
    A genome-wide association study of bronchodilator response in asthmatics.
    NHGRI GWA Catalog
    Genetics of coronary artery calcification among African Americans, a meta-analysis.
    NHGRI GWA Catalog

    Pathways from BioSystems

    • Adipogenesis, organism-specific biosystem (from WikiPathways)
      Adipogenesis, organism-specific biosystemThe different classess of factors involved in adipogenesis are shown. Adipogenesis is the process by which fat cells differentiate from predadipocytes to adipocytes (fat cells). Adipose tissue, compo...
    • Aryl Hydrocarbon Receptor, organism-specific biosystem (from WikiPathways)
      Aryl Hydrocarbon Receptor, organism-specific biosystemThe Aryl Hydrocarbon receptor (AhR) is ligand activated transcription factor that regulates wide spectrum of gene expression. The main mediator of AhR is 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) or...
    • TGF-beta Signaling Pathway, organism-specific biosystem (from WikiPathways)
      TGF-beta Signaling Pathway, organism-specific biosystemThe signal transduction mechanisms underlying the pathophysiological activities of transforming growth factor-? (TGF-?) have been extensively studied since its discovery nearly 30 years ago. TGF-? li...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • DKFZp686N0199

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    B cell differentiation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    cytokine-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription, DNA-templated TAS
    Traceable Author Statement
    more info
    PubMed 
    regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    cytosol IDA
    Inferred from Direct Assay
    more info
     
    fibrillar center IDA
    Inferred from Direct Assay
    more info
     
    intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    nucleolus IDA
    Inferred from Direct Assay
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
     
    nucleus TAS
    Traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    Krueppel-like factor 6
    Names
    B-cell-derived protein 1
    GC-rich binding factor
    GC-rich sites-binding factor GBF
    Kruppel-like zinc finger protein Zf9
    core promoter element-binding protein
    proto-oncogene BCD1
    protooncogene B-cell derived 1
    suppression of tumorigenicity 12 (prostate)
    suppressor of tumorigenicity 12 protein
    transcription factor Zf9

    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_012277.1 RefSeqGene

      Range
      5001..14286
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001160124.2NP_001153596.1  Krueppel-like factor 6 isoform B

      See identical proteins and their annotated locations for NP_001153596.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (B), also known as sv2, uses an alternate splice site in the central coding region that results in a frameshift, compared to variant A. The resulting isoform (B) has a shorter and distinct C-terminus, compared to isoform A.
      Source sequence(s)
      AL450322, BC000311, BP357332, BQ017028
      UniProtKB/Swiss-Prot
      Q99612
      UniProtKB/TrEMBL
      D3GC14
      Conserved Domains (3) summary
      sd00017
      Location:190212
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:218240
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:204229
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001160125.1NP_001153597.1  Krueppel-like factor 6 isoform C

      See identical proteins and their annotated locations for NP_001153597.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (C), also known as sv3, lacks an alternate exon in the 3' coding region that results in a frameshift, compared to variant A. The resulting isoform (C) has a shorter and distinct C-terminus, compared to isoform A.
      Source sequence(s)
      AL450322, BC000311, BM695496, BP357332, BQ017028
      Consensus CDS
      CCDS53490.1
      UniProtKB/Swiss-Prot
      Q99612
      Related
      ENSP00000445301.1, ENST00000542957.1
      Conserved Domains (2) summary
      sd00017
      Location:202224
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:200224
      zf-C2H2; Zinc finger, C2H2 type
    3. NM_001300.6NP_001291.3  Krueppel-like factor 6 isoform A

      See identical proteins and their annotated locations for NP_001291.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (A) represents the longest transcript and encodes the longest isoform (A).
      Source sequence(s)
      AL450322, BC000311, BP357332, BQ017028
      Consensus CDS
      CCDS7060.1
      UniProtKB/Swiss-Prot
      Q99612
      Related
      ENSP00000419923.1, ENST00000497571.6
      Conserved Domains (3) summary
      COG5048
      Location:177265
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:205224
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:260282
      zf-C2H2; Zinc finger, C2H2 type

    RNA

    1. NR_027653.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (D), also known as sv1, uses an alternate splice site, compared to variant A. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant A, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL450322, AL513303, BC000311, BP357332, BQ017028

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

      Range
      3775996..3785281 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001008490.1: Suppressed sequence

      Description
      NM_001008490.1: This RefSeq was suppressed because the 3'UTR structure is not strongly supported and it renders the transcript a candidate for nonsense-mediated decay (NMD).
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