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    klf6a Kruppel like factor 6a [ Danio rerio (zebrafish) ]

    Gene ID: 280650, updated on 2-Nov-2024

    Summary

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    Official Symbol
    klf6aprovided by ZNC
    Official Full Name
    Kruppel like factor 6aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-021115-9
    See related
    Ensembl:ENSDARG00000029072 AllianceGenome:ZFIN:ZDB-GENE-021115-9
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    klf6; cb538; copeb; wu:fb76d04; wu:fb92h03; wu:fe26g06; wu:fk78f12
    Summary
    Enables DNA-binding transcription repressor activity, RNA polymerase II-specific; chromatin binding activity; and cis-regulatory region sequence-specific DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including erythrocyte maturation; optic nerve formation; and regulation of hematopoietic stem cell migration. Is active in chromatin. Is expressed in several structures, including cardiovascular system; digestive system; intermediate cell mass of mesoderm; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in prostate cancer and stomach cancer. Orthologous to human KLF6 (KLF transcription factor 6). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See klf6a in Genome Data Viewer
    Location:
    chromosome: 24
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (4141479..4148914, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (4109692..4117127, complement)

    Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137489279 Neighboring gene phosphofructokinase, platelet a Neighboring gene cyclin Y Neighboring gene gap junction protein delta 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Krüpple-like factors 7 and 6a mRNA expression in adult zebrafish central nervous system. Bhattarai S, et al. Gene Expr Patterns, 2016 May. PMID 27364471, Free PMC Article
    2. DUSP2 deletion with CRISPR/Cas9 promotes Mauthner cell axonal regeneration at the early stage of zebrafish. Shao GJ, et al. Neural Regen Res, 2023 Mar. PMID 36018180, Free PMC Article
    3. The blood flow-klf6a-tagln2 axis drives vessel pruning in zebrafish by regulating endothelial cell rearrangement and actin cytoskeleton dynamics. Wen L, et al. PLoS Genet, 2021 Jul. PMID 34319989, Free PMC Article
    4. Tuba1a gene expression is regulated by KLF6/7 and is necessary for CNS development and regeneration in zebrafish. Veldman MB, et al. Mol Cell Neurosci, 2010 Apr. PMID 20123021, Free PMC Article
    5. Mutations in zebrafish lrp2 result in adult-onset ocular pathogenesis that models myopia and other risk factors for glaucoma. Veth KN, et al. PLoS Genet, 2011 Feb. PMID 21379331, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The blood flow-klf6a-tagln2 axis drives vessel pruning in zebrafish by regulating endothelial cell rearrangement and actin cytoskeleton dynamics.
      Title: The blood flow-klf6a-tagln2 axis drives vessel pruning in zebrafish by regulating endothelial cell rearrangement and actin cytoskeleton dynamics.
    2. Klf6a promotes hematopoietic stem and progenitor cell maintenance through Ccl25b-Ccr7 chemokine signaling.
      Title: The Vascular Niche Regulates Hematopoietic Stem and Progenitor Cell Lodgment and Expansion via klf6a-ccl25b.
    3. In the spinal cord, klf7- and klf6a-expressing cells are found in both the dorsal and ventral horns. Numerous sensory structures (e.g. auditory, lateral line, olfactory and visual) and several motor nuclei (e.g. oculomotor, trigeminal, and vagal motor nuclei) contain klf7- and/or klf6a-expressing cells
      Title: Krüpple-like factors 7 and 6a mRNA expression in adult zebrafish central nervous system.
    4. copeb/Klf6 is essential for the development of endoderm-derived organs
      Title: Klf6/copeb is required for hepatic outgrowth in zebrafish and for hepatocyte specification in mouse ES cells.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within actin cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within digestive tract development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within endothelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within erythrocyte maturation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within liver development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within optic nerve formation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within organ growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pancreas development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of hematopoietic stem cell migration IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of hematopoietic stem cell migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of hematopoietic stem cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of hematopoietic stem cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		  
    Component Evidence Code Pubs
    is_active_in chromatin IDA
    Inferred from Direct Assay
    more info
    		  
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    Krueppel-like factor 6a
    Names
    core promoter element binding protein

    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_201461.2 → NP_958869.2  Krueppel-like factor 6a

      Status: VALIDATED

      Source sequence(s)
      CT704401, CT734412, CU462914
      UniProtKB/TrEMBL
      A0A8N7V055, F1R7F0
      Related
      ENSDARP00000037789.5, ENSDART00000033494.6
      Conserved Domains (3) summary
      COG5048
      Location:171 → 265
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:205 → 224
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:246 → 271
      zf-H2C2_2; Zinc-finger double domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007135.7 Reference GRCz11 Primary Assembly

      Range
      4141479..4148914 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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