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WormBase Tree Display for Variation: WBVar00090244

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Name Class

WBVar00090244EvidencePaper_evidenceWBPaper00001768
NamePublic_namen1760
Other_nameCE03975:p.Ter210LysextTer?
HGVSg
Sequence_detailsSMapS_parentSequenceC07H6
Flanking_sequencestttcaaatataaaacactctgtttcaggtcaaatttggtttcaaaatcgacgaatgaagc
Mapping_targetC07H6
Type_of_mutationSubstitutiontaPaper_evidenceWBPaper00001768
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
StrainWBStrain00004825
WBStrain00027110
WBStrain00027111
WBStrain00027284
WBStrain00027285
WBStrain00027286
WBStrain00027288
WBStrain00027300
LaboratoryMT
StatusLive
AffectsGeneWBGene00003024
TranscriptC07H6.7.2VEP_consequencestop_lost
VEP_impactHIGH
SIFT1tolerated_low_confidence
HGVSpCE03975:p.Ter210LysextTer?
cDNA_position733
CDS_position628
Protein_position210
Exon_number5/7
Codon_changeTaa/Aaa
Amino_acid_change*/K
C07H6.7.1VEP_consequencestop_lost
VEP_impactHIGH
SIFT1tolerated_low_confidence
HGVSpCE03975:p.Ter210LysextTer?
cDNA_position671
CDS_position628
Protein_position210
Exon_number5/7
Codon_changeTaa/Aaa
Amino_acid_change*/K
Interactor (24)
GeneticsInterpolated_map_positionIII-0.681216
Mapping_dataIn_multi_point2217
In_pos_neg_data6697
DescriptionPhenotypeWBPhenotype:0000216Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Remark"The lin-39(n1760) null mutation affects cell fates in lin-39's expression domain in both sexes."Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Variation_effectNullPaper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBPhenotype:0000227Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
RemarkMale turning ability similar to CP neuron ablation; many missed and some sloppy.Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
PenetranceIncompletePaper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
EQ_annotationsLife_stageWBls:0000056PATO:0000460Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
WBPhenotype:0000403Paper_evidenceWBPaper00028400
Curator_confirmedWBPerson557
WBPhenotype:0000424Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
RemarkSomata and processes of the ventral nerve cord are not serotonin-IR (immunoreactive), although the serotonin-IR neurons in the head and tail were normal.Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
EQ_annotationsAnatomy_termWBbt:0005829PATO:0000460Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
Life_stageWBls:0000056PATO:0000460Paper_evidenceWBPaper00001861
Curator_confirmedWBPerson712
WBPhenotype:0001276Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
RemarkFigure 4E, Ectopic FMRF-like peptide gene expression in VCNs; "Consistent with an apparent transformation of the fates of CAs [sic, should be "CPs"] 5 and 6 to that of CAs [sic, should be "CPs"] 7-9, flp-21::gfp expression expands to include CPs 5-6 in lin-39(n1760) mutants." Table 1; flp-21::gfp normally expressed only in CPs 7-9 in wild type males.Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
Variation_effectNullPaper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
EQ_annotationsAnatomy_termWBbt:0004893PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
WBbt:0004891PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
Phenotype_assayGenotypeynIs80 [flp-21::gfp]Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson48754
WBPhenotype:0001376Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Remark"In males, neither tph-1::mCherry nor other markers of serotonergic fate ( cat-1::gfp , cat-4::gfp ,and bas-1::gfp ) are expressed in the lin-39(n1760) ventral cord." Normally males express all four reporters in CPs 1-6 (see Table 1), although CPs 1-4 undergo ectopic apoptosis in lin-39(n1760) mutants, so a conclusion can only be drawn for CPs 5-6 (see additional experiments where cell death is blocked by the ced-3(n1286) mutation)Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
"Expression of reporters normally seen in CA/CPs 1-4 is absent, of course, when P3-P6.aap die in lin-39 mutants because CA/CPs 1-4 are never generated. To see whether lin-39 function is necessary for expression of reporters in CA/CPs 1-4, we blocked programmed cell death with a ced-3 mutation: in lin-39(n1760); ced-3(n1286) double mutants, all P3-P8.aap cells survive. In these mutants, all CP neurons (CP1-CP6) lack serotonin immunoreactivity (data not shown) and fail to express tph-1::mCherry (Fig. 4; Table 1)."Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Variation_effectNullPaper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
EQ_annotationsAnatomy_termWBbt:0004893PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBbt:0004891PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBbt:0004901PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBbt:0004899PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBbt:0004897PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBbt:0004895PATO:0000460Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Phenotype_assayGenotypecccIs1 [tph-1::mCherry] OR otIs226 [bas-1::GFP] OR otIs225 [cat-4::gfp] OR otIs221 [cat-1::GFP]Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
ced-3(n1286); cccIs1 [tph-1::mCherry]Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBPhenotype:0002610Paper_evidenceWBPaper00001768
Curator_confirmedWBPerson48754
RemarkIn hermaphrodites P3-P8.aap cells undergo apoptosis (Table 1b); in males P2-P6.aap cells undergo apoptosis (Table 1d)Paper_evidenceWBPaper00001768
Curator_confirmedWBPerson48754
EQ_annotationsAnatomy_term (11)
Phenotype_assayControl_strainWBStrain00000001Paper_evidenceWBPaper00001768
Curator_confirmedWBPerson48754
Phenotype_not_observedWBPhenotype:0000111Paper_evidenceWBPaper00003331
Curator_confirmedWBPerson2987
RemarkThe lin-39(n1760) mutation did not affect the expression of endogenous ges-1 in the embryonic anterior gut (Figure 3).Paper_evidenceWBPaper00003331
Curator_confirmedWBPerson2987
WBPhenotype:0000306Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Remark"lin-39 is not required for expression of ida-1::gfp in either sex, as ida-1::gfp is expressed at nearly wild-type levels in VCs and CAs in lin-39(n1760); ced-3(n1286) double mutants (Fig. 4G,H; Table 1, and data not shown)."Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
Variation_effectNullPaper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
EQ_annotationsAnatomy_term (15)
Phenotype_assayGenotypeced-3(n1286); inIs179 [Pida-1::GFP]Paper_evidenceWBPaper00044285
Curator_confirmedWBPerson2987
WBPhenotype:0000961Paper_evidenceWBPaper00003331
Curator_confirmedWBPerson2987
RemarkThe lin-39(n1760) mutation did not affect the expression of transgenic ges-1(delta B) in the embryonic anterior gut (Figure 3).Paper_evidenceWBPaper00003331
Curator_confirmedWBPerson2987
Phenotype_assayGenotypeges-1(delta B)::lacZPaper_evidenceWBPaper00003331
Curator_confirmedWBPerson2987
ReferenceWBPaper00027236
WBPaper00028400
WBPaper00022870
WBPaper00014076
WBPaper00017748
WBPaper00003331
WBPaper00013862
WBPaper00001861
WBPaper00001768
WBPaper00044285
MethodSubstitution_allele