WormBase Tree Display for Variation: WBVar00017601

WBVar00017601 Name: Public_name: g320
    Other_name: pas15117
      snp_C39E6[4]
      haw102580
      LSJ2_238
      oicr_ce77
      cewivar00056234
      C39E6.6.1:c.643G>T
      CE06941:p.Val215Phe
    HGVSg: CHROMOSOME_X:g.4768788C>A
  Sequence_details: SMap: S_parent: Sequence: C39E6
    Flanking_sequences: accatggtaactaggattgacgttgttctaaaacacaaatagtatttcggttagaaaccttgcatttaataccttctgttctgaagtacaactcgttgtttctccttttcctgtttgtctagaaattcgttcaactggaacgaaatcaaatgtgaatttttaatttgaaaatcaataaaactacctcattttcatactgttcaagaccatgcgacgggaatgcgcaagagctctccaacgcgcttgttctctccaccattttgcgtatctttgtctgagcacgcttgctgagcaccgaaa aatatttgcatagcagaaggccatgacagcgaatgggaccacgaattgggcgagcatcacgatcattgtgtaggctcttctagacttggcagattcccacttttcagtgcaaaagtagccgcatattctctcttcctgaaacgagggtactagttgtataagaagttgaatacctagaaaaaaacgacactcactgtgtattcaatcatttgcatattgaacgcatagggtagagttacaacaaaagagaggatccacaatagaacagtagtaagaaatgctcctctttgggatagtggt
    Mapping_target: C39E6
    Type_of_mutation: Substitution: C A
    SeqStatus: Sequenced
  Variation_type: SNP
    Predicted_SNP
    Natural_variant
  Origin: Species: Caenorhabditis elegans
    Strain (45)
    Laboratory: AX
      RW
      CX
      RC
    Person: WBPerson6900
      WBPerson1562
    Analysis: WGS_Pasadena_Quinlan
      WGS_De_Bono
      WGS_McGrath
      WGS_Stein
      Million_mutation_project_reanalysis
      SNP_Wicks
      WGS_Hawaiian_Waterston
    History: Acquires_merge: WBVar00145397
        WBVar00243575
        WBVar00078220
        WBVar01340258
        WBVar00601519
        WBVar00601658
        WBVar01473648
        WBVar01473880
        WBVar01473895
        WBVar02125007
    Status: Live
  Affects: Gene: WBGene00003807
    Transcript: C39E6.6.1 (12)
  Genetics: Mapping_data: 2_point: 3636
        3635
  Description: Phenotype: WBPhenotype:0000219 Paper_evidence: WBPaper00040608
        Curator_confirmed: WBPerson6405
        Remark: In a let-23(sy1) background, npr-1(g320) further reduced vulval cell induction compared to N2 allele at npr-1. Paper_evidence: WBPaper00040608
            Curator_confirmed: WBPerson6405
        Penetrance: Incomplete: Paper_evidence: WBPaper00040608
              Curator_confirmed: WBPerson6405
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00040608
            Curator_confirmed: WBPerson6405
        Temperature_sensitive: Heat_sensitive: Paper_evidence: WBPaper00040608
              Curator_confirmed: WBPerson6405
        Phenotype_assay: Control_strain: WBStrain00000001 Paper_evidence: WBPaper00040608
              Curator_confirmed: WBPerson6405
          Genotype: let-23(sy1) Paper_evidence: WBPaper00040608
              Curator_confirmed: WBPerson6405
      WBPhenotype:0000660 Paper_evidence: WBPaper00003187
        Curator_confirmed: WBPerson712
        Remark: Animals are social foragers and aggregate in clumps in the presence of food. Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
        Recessive: Paper_evidence: WBPaper00003187
          Curator_confirmed: WBPerson712
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
        Phenotype_assay: Treatment: Animals were assayed on a bacterial lawn. Paper_evidence: WBPaper00003187
              Curator_confirmed: WBPerson712
      WBPhenotype:0000662 Paper_evidence: WBPaper00003187
        Curator_confirmed: WBPerson712
        Remark: Animals moved more quickly on food than solitary foragers even though in the absence of food, both social and solitary foragers moved at similar rapid speeds. When moving on food, social animals made long forays at speeds of ~190um/s until they joined a clump, at which point they reduced their speed and reversed frequently. Strength of hyperactivity on food ad609 > ky13, n1353 > g320. Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
        Recessive: Paper_evidence: WBPaper00003187
          Curator_confirmed: WBPerson712
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
      WBPhenotype:0001013 Paper_evidence: WBPaper00032196
        Curator_confirmed: WBPerson712
        Remark: Animals were more susceptible to infection by P. aeruginosa, S. enterica and E. faecalis than N2 animals. Paper_evidence: WBPaper00032196
            Curator_confirmed: WBPerson712
        Phenotype_assay: Strain: WBStrain00005497 Paper_evidence: WBPaper00032196
              Curator_confirmed: WBPerson712
      WBPhenotype:0001524 Paper_evidence: WBPaper00051410
        Curator_confirmed: WBPerson38423
        Remark: Low oxygen concentration promotes quiescence in npr-1 mutant animals. (Fig 1) Paper_evidence: WBPaper00051410
            Curator_confirmed: WBPerson38423
        Phenotype_assay: Control_strain: WBStrain00000001 Paper_evidence: WBPaper00051410
              Curator_confirmed: WBPerson38423
      WBPhenotype:0001764 Paper_evidence: WBPaper00031935
        Curator_confirmed: WBPerson712
        Remark: Animal CO2 responses in the crossed gradient depended on context. On food, the behavior of these animals was dominated by the O2 response: animals ignored high CO2 to accumulate at low O2; conversely, off food it was the response to CO2 that dominated:animals behaved as if they were in a gradient that consisted only of CO2. The response of N2 animals was dominated by CO2 avoidance: both on and off food animals accumulated at 21% O2 / 0% CO2. Paper_evidence: WBPaper00031935
            Curator_confirmed: WBPerson712
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00031935
            Curator_confirmed: WBPerson712
        Phenotype_assay: Treatment: Animals were placed in a combined gradients of O2 and CO2 with 11%O2 and 5% CO2 at one end of the chamber and 21% O2 and 0% CO2 at the other. Strains were maintained at 22C. Paper_evidence: WBPaper00031935
              Curator_confirmed: WBPerson712
      WBPhenotype:0001765 Paper_evidence: WBPaper00031935
        Curator_confirmed: WBPerson712
        Remark: Animals showed reduced avoidance to 5% carbon dioxide in the presence of food. However, in the absence of food, animals responded with an avoidance response similar to N2. Paper_evidence: WBPaper00031935
            Curator_confirmed: WBPerson712
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00031935
            Curator_confirmed: WBPerson712
        Phenotype_assay: Treatment: Strains were maintained at 22C. Paper_evidence: WBPaper00031935
              Curator_confirmed: WBPerson712
      WBPhenotype:0001820 Paper_evidence: WBPaper00003187
        Curator_confirmed: WBPerson712
        Remark: More than 95% of the animals accumulated at the border. Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
        Recessive: Paper_evidence: WBPaper00003187
          Curator_confirmed: WBPerson712
        Variation_effect: Wild_allele: Paper_evidence: WBPaper00003187
            Curator_confirmed: WBPerson712
        Phenotype_assay: Treatment: Animals were assayed on a bacterial lawn. Paper_evidence: WBPaper00003187
              Curator_confirmed: WBPerson712
  Reference (11)
  Method: WGS_Pasadena_Quinlan