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WormBase Tree Display for Variation: WBVar00095121

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Name Class

WBVar00095121EvidencePaper_evidenceWBPaper00002584
NamePublic_namep694
HGVSgCHROMOSOME_I:g.9020681_9021069delinsAAAAATATAAAAAAAAAAAATATAAAAAAAAAATAT
Sequence_detailsSMapS_parentSequenceF36F2
Flanking_sequencestagcaagaaagagaaagagaagaagaagaaaataagaaaaaaacactttatctgttcaga
Mapping_targetF36F2
Type_of_mutationInsertionAAAAATATAAAAAAAAAAAATATAAAAAAAAAATAT
Deletiongcacgcaagggaggtcatatcaactagtatttccatttgagagaaggagatggatagagaaggcttttagaaggttttaatatttatcactggaaatttaagccttcctatcatttctttgcgtctccttgtatatatcttcactatattgtttcctgttttcgtaactattttgaatcgtttttttcaaacccaagtttccatgttcaattggatttttacagtttcgtttcagaaatgtcagaaaaaccggagttttccgatatgtatcaagttccaaaacgagcaaaaacaaacttggctcgcgaaatacggaaaagagagttcagttatgtggatagacaggtacataatcttcagaatctgaaaaataaaaaagtattttaaaa
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
StrainWBStrain00000313
WBStrain00000314
WBStrain00000315
WBStrain00000316
WBStrain00000317
WBStrain00030790
LaboratoryPR
StatusLive
AffectsGeneWBGene00006525
TranscriptF36F2.5.1VEP_consequencesplice_donor_variant,coding_sequence_variant,5_prime_UTR_variant,intron_variant
VEP_impactHIGH
Intron_number1/14
Exon_number1/15
GeneticsInterpolated_map_positionI3.39841
DescriptionPhenotypeWBPhenotype:0000254Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals were completely defective in NaCl chemotaxis but not to NaAc in water soluble assays compared to wild-type.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00003571Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the water soluble chemotaxis assay, radial gradients of NaCl were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001084Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals were completely defective in NaCl chemotaxis in water soluble assays.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00003571Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the water soluble chemotaxis assay, radial gradients of NaCl were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001435Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals showed a reduction in chemotaxis to ammonium chloride compared to wild-type, but were not significantly defective in comparison to positive control che-1(p679) animals.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
PenetranceIncompletePaper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00002092Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the soluble assay, radial gradients of NH4Cl were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001442Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals showed a reduction in chemotaxis to sodium acetate compared to wild-type animals but, animals still showed residual positive chemotaxis similar to che-1(p679).Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
PenetranceIncompletePaper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00004924Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the soluble assay, radial gradients of NaAc were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001737Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals were not able to locate the gradient peak of sodium in a high uniform background of ammonium chloride; however animals were able to discriminate chloride in a high uniform background of sodium acetate.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the discrimination assay, a NaAc gradient was formed on top of a high uniform background of NH4Cl or a NH4Cl gradient was formed on top of a high uniform background of NaAc.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001765Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
RemarkAcute CO2 avoidance is eliminatedPaper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
EQ_annotationsLife_stageWBls:0000057PATO:0000460Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
Phenotype_assayTreatment10% CO2Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
WBPhenotype:0002378Paper_evidenceWBPaper00054670
Curator_confirmedWBPerson2706
Remarkanimals defective in their ability to avoid OP50 lawns contaminated with Microbacterium nematophilumPaper_evidenceWBPaper00054670
Curator_confirmedWBPerson2706
Phenotype_not_observedWBPhenotype:0001736Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals showed no defect in acetate chemotaxis in water soluble assays when compared to che-1(p679) positive control animals.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00005057Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the water soluble chemotaxis assay, radial gradients of NaAc were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
WBPhenotype:0001738Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
RemarkAnimals showed no defect in ammonium chemotaxis in water soluble assays when compared to che-1(p679) positive control animals.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00002091Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
Phenotype_assayTreatmentFor the water soluble chemotaxis assay, radial gradients of NH4Cl were established by diffusion in the agar.Paper_evidenceWBPaper00031959
Curator_confirmedWBPerson712
ReferenceWBPaper00031936
WBPaper00031959
WBPaper00014724
WBPaper00054670
Remarkp649 is a deletion allele that completely removes the first exon and aprox. 1.8 kb of upstream sequences. Flanks are estimated from the description; exact breakpoints are not detailed in the paper.Paper_evidenceWBPaper00002584
Original Flanking_sequences:ctgggaattcaaaaatcagcatcagctgtc gtacataatcttcagaatctgaaaaataaa
This allele has been described in Coburn and Bargmann, Neuron 695-706 (1996). They report a 1.8 kb deletion, removing exon 1 and upstream sequences. We found a 389 bp deletion, still removing exon 1 of tax-2. And insertion of AAAAATATAAAAAAAAAAAATATAAAAAAAAAATATPerson_evidenceWBPerson291
Manually curated Gene associations preserved as a text remark so that VEP is the canonical predictor of consequence: WBGene00006525 Regulatory_featurePaper_evidenceWBPaper00002584
Manually curated Gene associations preserved as a text remark so that VEP is the canonical predictor of consequence: WBGene00006525 Genomic_neighbourhood
MethodDeletion_and_insertion_allele