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

Gene ID: 1316, updated on 21-Dec-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
109.20191205 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 CRISPRi-validated cis-regulatory element chr10.143 Neighboring gene uncharacterized LOC105376364 Neighboring gene CRISPRi-validated cis-regulatory element chr10.145

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

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 PubChem

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 
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
 
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
    5073..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_027653.2 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 Updated Annotation Release 109.20191205

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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