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KLF3 KLF transcription factor 3 [ Homo sapiens (human) ]

Gene ID: 51274, updated on 2-Nov-2024

Summary

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Official Symbol
KLF3provided by HGNC
Official Full Name
KLF transcription factor 3provided by HGNC
Primary source
HGNC:HGNC:16516
See related
Ensembl:ENSG00000109787 MIM:609392; AllianceGenome:HGNC:16516
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BKLF
Summary
Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in colon (RPKM 22.1), gall bladder (RPKM 19.2) and 25 other tissues See more
Orthologs
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Genomic context

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See KLF3 in Genome Data Viewer
Location:
4p14
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (38664199..38701517)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (38633299..38670624)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (38665820..38703138)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1258 Neighboring gene long intergenic non-protein coding RNA 1259 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21438 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21439 Neighboring gene long intergenic non-protein coding RNA 2278 Neighboring gene KLF3-I enhancer Neighboring gene KLF3 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:38623749-38624601 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_79844 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_79852 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_79860 Neighboring gene KLF3-II enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15359 Neighboring gene KLF3 promoter region Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15362 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:38668044-38668894 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:38668895-38669744 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:38671391-38671960 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:38674239-38674808 Neighboring gene KLF3-IIII enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15363 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_79886 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_79904 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21441 Neighboring gene uncharacterized LOC105374413 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21442 Neighboring gene RNA, 5S ribosomal pseudogene 158

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. Molecular Expression and Prognostic Implications of Krüppel-Like Factor 3 (KLF3) in Clear Cell Renal Cell Carcinoma. Wan B, et al. Crit Rev Eukaryot Gene Expr, 2024. PMID 38073441
  2. RNA sequencing analysis reveals protective role of kruppel-like factor 3 in colorectal cancer. Wang X, et al. Oncotarget, 2017 Mar 28. PMID 28423541, Free PMC Article
  3. Pan-cancer analysis of Krüppel-like factor 3 and its carcinogenesis in pancreatic cancer. Zhu J, et al. Front Immunol, 2023. PMID 37600783, Free PMC Article
  4. Expression of human Krüppel-like factor 3 in peripheral blood as a promising biomarker for acute leukemia. Yan M, et al. Cancer Med, 2020 Apr. PMID 32101374, Free PMC Article
  5. Role for SUMO modification in facilitating transcriptional repression by BKLF. Perdomo J, et al. Mol Cell Biol, 2005 Feb. PMID 15684403, Free PMC Article

See all (54) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. microRNA-92b-3p augments colon cancer development through inhibiting KLF3.
    Title: microRNA-92b-3p augments colon cancer development through inhibiting KLF3.
  2. Molecular Expression and Prognostic Implications of Kruppel-Like Factor 3 (KLF3) in Clear Cell Renal Cell Carcinoma.
    Title: Molecular Expression and Prognostic Implications of Krüppel-Like Factor 3 (KLF3) in Clear Cell Renal Cell Carcinoma.
  3. Decreased KLF3 Expression via miR-660-5p Targeting Suppresses Gastric Cancer Cell Progression.
    Title: Decreased KLF3 Expression via miR-660-5p Targeting Suppresses Gastric Cancer Cell Progression.
  4. Pan-cancer analysis of Kruppel-like factor 3 and its carcinogenesis in pancreatic cancer.
    Title: Pan-cancer analysis of Krüppel-like factor 3 and its carcinogenesis in pancreatic cancer.
  5. KLF3 Transcription Activates WNT1 and Promotes the Growth and Metastasis of Gastric Cancer via Activation of the WNT/beta-Catenin Signaling Pathway.
    Title: KLF3 Transcription Activates WNT1 and Promotes the Growth and Metastasis of Gastric Cancer via Activation of the WNT/β-Catenin Signaling Pathway.
  6. microRNA-21-5p from M2 macrophage-derived extracellular vesicles promotes the differentiation and activity of pancreatic cancer stem cells by mediating KLF3.
    Title: microRNA-21-5p from M2 macrophage-derived extracellular vesicles promotes the differentiation and activity of pancreatic cancer stem cells by mediating KLF3.
  7. Hepatic Meteorin-like and Kruppel-like Factor 3 are Associated with Weight Loss and Liver Injury.
    Title: Hepatic Meteorin-like and Krüppel-like Factor 3 are Associated with Weight Loss and Liver Injury.
  8. Bone mesenchymal stem cells (BMSCs)-derived exosomal microRNA-21-5p regulates Kruppel-like factor 3 (KLF3) to promote osteoblast proliferation in vitro.
    Title: Bone mesenchymal stem cells (BMSCs)-derived exosomal microRNA-21-5p regulates Kruppel-like factor 3 (KLF3) to promote osteoblast proliferation in vitro.
  9. Exosome miR-23a-3p from Osteoblast Alleviates Spinal Cord Ischemia/Reperfusion Injury by Down-Regulating KLF3-Activated CCNL2 Transcription.
    Title: Exosome miR-23a-3p from Osteoblast Alleviates Spinal Cord Ischemia/Reperfusion Injury by Down-Regulating KLF3-Activated CCNL2 Transcription.
  10. Fat mass and obesity associated (FTO)-mediated N6-methyladenosine modification of Kruppel-like factor 3 (KLF3) promotes osteosarcoma progression.
    Title: Fat mass and obesity associated (FTO)-mediated N6-methyladenosine modification of Krüppel-like factor 3 (KLF3) promotes osteosarcoma progression.
Submit: New GeneRIF Correction See all GeneRIFs (26)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of Crohn's disease in Koreans revealed three new susceptibility loci and common attributes of genetic susceptibility across ethnic populations.
EBI GWAS Catalog
Identification of genetic loci associated with Helicobacter pylori serologic status.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC48279

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity NAS
Non-traceable Author Statement
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to peptide IEA
Inferred from Electronic Annotation
more info
  
involved_in hemopoiesis TAS
Traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in chromatin ISA
Inferred from Sequence Alignment
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
Krueppel-like factor 3
Names
CACCC-box-binding protein BKLF
Kruppel like factor 3
Kruppel-like factor 3 (basic)
TEF-2
basic Kruppel-like factor
basic krueppel-like factor
basic kruppel like factor
transcript ch138

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_016531.6 → NP_057615.3  Krueppel-like factor 3

    See identical proteins and their annotated locations for NP_057615.3

    Status: VALIDATED

    Source sequence(s)
    AC021860, AF285837, BU689914, DB246277
    Consensus CDS
    CCDS3444.1
    UniProtKB/Swiss-Prot
    P57682, Q6PIR1, Q86TN0, Q9P2X6
    UniProtKB/TrEMBL
    B2R8P9
    Related
    ENSP00000261438.5, ENST00000261438.10
    Conserved Domains (4) summary
    sd00017
    Location:262 → 284
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:260 → 284
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:306 → 331
    zf-H2C2_2; Zinc-finger double domain
    cd21577
    Location:49 → 260
    KLF3_N; N-terminal domain of Kruppel-like factor 3

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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    38664199..38701517
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047415764.1 → XP_047271720.1  Krueppel-like factor 3 isoform X1

RNA

  1. XR_925142.2 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    38633299..38670624
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054350158.1 → XP_054206133.1  Krueppel-like factor 3 isoform X1

RNA

  1. XR_008486992.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P57682.1 GenPept UniProtKB/Swiss-Prot:P57682

Gene LinkOut

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