WormBase Tree Display for Variation: WBVar00252763

WBVar00252763 Name: Public_name: tm4248
    Other_name: K02F3.4.1:c.433_646+8del
      K02F3.4.3:c.433_646+8del
      K02F3.4.2:c.433_646+8del
    HGVSg: CHROMOSOME_III:g.835000_835221del
  Sequence_details: SMap: S_parent: Sequence: K02F3
    Flanking_sequences: gcattcgatttcccaccggttccagaagcc aagacagtatcacactaattaggaaaatcc
    Mapping_target: K02F3
    Source_location: 7 CHROMOSOME_III 834999 835222 Inferred_automatically: National_Bioresource_Project
    Type_of_mutation: Deletion
    PCR_product: tm4248_external
      tm4248_internal
    SeqStatus: Sequenced
  Variation_type: Allele
  Origin: Species: Caenorhabditis elegans
    Laboratory: FX
    Author: Mitani S
    DB_info: Database: National_Bioresource_Project seq 4248
    NBP_allele
    Status: Live
  Affects: Gene: WBGene00305499
      WBGene00019327
    Transcript: K02F3.16
      K02F3.4.3 VEP_consequence: splice_donor_variant,coding_sequence_variant,intron_variant
        VEP_impact: HIGH
        HGVSc: K02F3.4.3:c.433_646+8del
        cDNA_position: 755-?
        CDS_position: 433-?
        Protein_position: 145-?
        Intron_number: 6/7
        Exon_number: 6/8
      K02F3.4.2 VEP_consequence: splice_donor_variant,coding_sequence_variant,intron_variant
        VEP_impact: HIGH
        HGVSc: K02F3.4.2:c.433_646+8del
        cDNA_position: 588-?
        CDS_position: 433-?
        Protein_position: 145-?
        Intron_number: 4/5
        Exon_number: 4/6
      K02F3.4.1 VEP_consequence: splice_donor_variant,coding_sequence_variant,intron_variant
        VEP_impact: HIGH
        HGVSc: K02F3.4.1:c.433_646+8del
        cDNA_position: 675-?
        CDS_position: 433-?
        Protein_position: 145-?
        Intron_number: 5/6
        Exon_number: 5/7
    Interactor: WBInteraction000524506
      WBInteraction000537379
      WBInteraction000537396
      WBInteraction000537424
  Isolation: Mutagen: TMP/UV
  Genetics: Map: III
  Description: Phenotype: WBPhenotype:0001013 Paper_evidence: WBPaper00045829
        Curator_confirmed: WBPerson2987
        Remark: "In contrast, zip-2(tm4248) modestly reduced the enhanced resistance conferred by spg-7(RNAi) (Fig. 4e), consistent with atfs-1 functioning in the same pathway as zip-2 during mitochondrial stress." Paper_evidence: WBPaper00045829
            Curator_confirmed: WBPerson2987
        Phenotype_assay: Genotype: spg-7(RNAi) Paper_evidence: WBPaper00045829
              Curator_confirmed: WBPerson2987
      WBPhenotype:0001278 Paper_evidence: WBPaper00045829
        Curator_confirmed: WBPerson2987
        Remark: "Mitochondrial stress also caused irg-1pr::gfp (pr, promoter) induction, which was blocked in atfs-1(tm4919) and partially so in zip-2(tm4248) worms (Fig. 1k), suggesting that multiple transcription factors and stressors influence innate immune gene expression." Paper_evidence: WBPaper00045829
            Curator_confirmed: WBPerson2987
          zip-2(tm4248) suppressed Pseudomonas aeruginosa infection-induced expression of irg-1p::GFP (Figure 2i) Paper_evidence: WBPaper00045829
            Curator_confirmed: WBPerson2987
        EQ_annotations: GO_term: GO:0034514 PATO:0000460 Paper_evidence: WBPaper00045829
                Curator_confirmed: WBPerson2987
            GO:0045087 PATO:0000460 Paper_evidence: WBPaper00045829
                Curator_confirmed: WBPerson2987
        Phenotype_assay: Genotype: irg-1p::gfp; spg-7(RNAi) Paper_evidence: WBPaper00045829
              Curator_confirmed: WBPerson2987
            irg-1p::gfp Paper_evidence: WBPaper00045829
              Curator_confirmed: WBPerson2987
    Phenotype_not_observed: WBPhenotype:0000062 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson712
        Remark: Classified as homozygous viable by the National Bioresource Project of Japan. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson712
      WBPhenotype:0000229 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson712
        Remark: Comment to the National Bioresource Project of Japan from Dr. J. Kaplan: non-Sma. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson712
      WBPhenotype:0000583 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson712
        Remark: Comment to the National Bioresource Project of Japan from Dr. J. Kaplan: non-Dpy. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson712
      WBPhenotype:0000640 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson712
        Remark: Comment to the National Bioresource Project of Japan from Dr. J. Kaplan: non-Egl. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson712
  Reference: WBPaper00045829
  Remark: 12299/12300-12521/12522 (222 bp deletion)
    This knockout was generated by the National Bioresource Project, Tokyo, Japan, which is part of the International C. elegans Gene Knockout Consortium, which should be acknowledged in any publications resulting from its use. Paper_evidence: WBPaper00041807
  Method: NBP_knockout_allele