WormBase Tree Display for Variation: WBVar00251115

WBVar00251115 Name: Public_name: tm2180
    Other_name: F16A11.3d.1:c.168-28_550+31del
    HGVSg: CHROMOSOME_I:g.9388635_9389661del
  Sequence_details: SMap: S_parent: Sequence: F16A11
    Flanking_sequences: ataaacttttgtttttttttcgcatatggt tgtgaagaatgagaaaaatatagagaaaaa
    Mapping_target: F16A11
    Source_location: 7 CHROMOSOME_I 9388634 9389662 Inferred_automatically: National_Bioresource_Project
    Type_of_mutation: Deletion
    PCR_product: tm2180_external
      tm2180_internal
    SeqStatus: Sequenced
  Variation_type: Allele
  Origin: Species: Caenorhabditis elegans
    Laboratory: FX
    Author: Mitani S
    DB_info: Database: National_Bioresource_Project seq 2180
    NBP_allele
    Status: Live
  Affects: Gene: WBGene00008878
    Transcript: F16A11.3c.1 VEP_consequence: splice_acceptor_variant,splice_donor_variant,coding_sequence_variant,5_prime_UTR_variant,intron_variant
        VEP_impact: HIGH
        Intron_number: 1-3/15
        Exon_number: 1-3/16
      F16A11.3a.1 VEP_consequence: splice_acceptor_variant,splice_donor_variant,coding_sequence_variant,5_prime_UTR_variant,intron_variant
        VEP_impact: HIGH
        Intron_number: 2-4/25
        Exon_number: 1-4/26
      F16A11.3b.1 VEP_consequence: splice_acceptor_variant,splice_donor_variant,coding_sequence_variant,5_prime_UTR_variant,intron_variant
        VEP_impact: HIGH
        Intron_number: 2-4/24
        Exon_number: 1-4/25
      F16A11.3d.1 VEP_consequence: splice_acceptor_variant,splice_donor_variant,coding_sequence_variant,intron_variant
        VEP_impact: HIGH
        HGVSc: F16A11.3d.1:c.168-28_550+31del
        Intron_number: 2-5/25
        Exon_number: 3-5/26
    Interactor: WBInteraction000519223
      WBInteraction000519224
      WBInteraction000519225
      WBInteraction000519226
  Isolation: Mutagen: TMP/UV
  Genetics: Map: I
  Description: Phenotype: WBPhenotype:0000048 Paper_evidence: WBPaper00032438
        Curator_confirmed: WBPerson712
        Remark: tm2180 shows 80-90% hatching at different temperatures. Paper_evidence: WBPaper00032438
            Curator_confirmed: WBPerson712
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00032438
              Curator_confirmed: WBPerson712
      WBPhenotype:0000050 Paper_evidence: WBPaper00032438
        Curator_confirmed: WBPerson712
        Remark: Polar body extrusion failed in 16% (3/16) of embryos. Paper_evidence: WBPaper00032438
            Curator_confirmed: WBPerson712
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00032438
              Curator_confirmed: WBPerson712
      WBPhenotype:0000062 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson48
        Remark: Classified as lethal OR sterile by the National Bioresource Project of Japan. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson48
            Laboratory_evidence: FX
      WBPhenotype:0000688 Person_evidence: WBPerson7743
        Curator_confirmed: WBPerson48
        Remark: Classified as lethal OR sterile by the National Bioresource Project of Japan. Person_evidence: WBPerson7743
            Curator_confirmed: WBPerson48
            Laboratory_evidence: FX
      WBPhenotype:0000777 Paper_evidence: WBPaper00032438
        Curator_confirmed: WBPerson712
        Remark: Polar body extrusion failed in 16% (3/16) of embryos. Paper_evidence: WBPaper00032438
            Curator_confirmed: WBPerson712
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00032438
              Curator_confirmed: WBPerson712
      WBPhenotype:0001013 Paper_evidence: WBPaper00061619
        Curator_confirmed: WBPerson557
        Remark: Worms more susceptible to the Bt247 strain, but not to the Bt679 strain. Paper_evidence: WBPaper00061619
            Curator_confirmed: WBPerson557
        Phenotype_assay: Treatment: Worms grown on spores derived from the pathogenic Bacillus thuringiensis (Bt) strain MYBt18247 (Bt247) and MYBt18679 (Bt679) in separate experiments. Fourth-instar larvae (L4) were transferred onto 6 cm diameter inoculated with 75 or 100 ul of different concentrations of Bt spore solutions. Paper_evidence: WBPaper00061619
              Curator_confirmed: WBPerson557
      WBPhenotype:0001146 Paper_evidence: WBPaper00032438
        Curator_confirmed: WBPerson712
        Remark: 84% (16/19) of ppfr-1(tm2180) had abnormally large polar bodies. Paper_evidence: WBPaper00032438
            Curator_confirmed: WBPerson712
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00032438
              Curator_confirmed: WBPerson712
      WBPhenotype:0001175 Paper_evidence: WBPaper00032438
        Curator_confirmed: WBPerson712
        Remark: The ppfr-1 deletion allele is weakly Him, with 0.9% (n= 1150) male offspring. Paper_evidence: WBPaper00032438
            Curator_confirmed: WBPerson712
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00032438
              Curator_confirmed: WBPerson712
      WBPhenotype:0002057 Paper_evidence: WBPaper00061619
        Curator_confirmed: WBPerson557
        Remark: Worms more susceptible to the Bt247 strain, but not to the Bt679 strain. Paper_evidence: WBPaper00061619
            Curator_confirmed: WBPerson557
        Phenotype_assay: Treatment: Worms grown on spores derived from the pathogenic Bacillus thuringiensis (Bt) strain MYBt18247 (Bt247) and MYBt18679 (Bt679) in separate experiments. Fourth-instar larvae (L4) were transferred onto 6 cm diameter inoculated with 75 or 100 ul of different concentrations of Bt spore solutions. Paper_evidence: WBPaper00061619
              Curator_confirmed: WBPerson557
  Reference: WBPaper00032438
    WBPaper00061619
  Remark: 14161/14162-15188/15189 (1027 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