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WormBase Tree Display for Variation: WBVar00146150

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Name Class

WBVar00146150NamePublic_namegk849
Other_nameY45G5AM.9b.2:c.357+2067_358-1131delinsGTCTTTATCCC
Y45G5AM.9b.1:c.357+2067_358-1131delinsGTCTTTATCCC
Y45G5AM.9a.1:c.357+2067_358-1131delinsGTCTTTATCCC
HGVSgCHROMOSOME_V:g.4186206_4187949delinsGGGATAAAGAC
Sequence_detailsSMapS_parentSequenceY45G5AM
Flanking_sequencestcattcttcatgtctcctgtatcatagacaatctacgtagatcaagccgaaatgagaaac
Mapping_targetY45G5AM
Type_of_mutationInsertionGGGATAAAGAC
Deletion
PCR_productgk849_external
gk849_internal
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
StrainWBStrain00036852
LaboratoryVC
PersonWBPerson427
KO_consortium_allele
StatusLive
AffectsGeneWBGene00003704
WBGene00021561
TranscriptY45G5AM.1a.1VEP_consequencesplice_acceptor_variant,splice_donor_variant,coding_sequence_variant,5_prime_UTR_variant,intron_variant
VEP_impactHIGH
Intron_number2-3/8
Exon_number1-3/9
Y45G5AM.9b.2VEP_consequenceintron_variant
VEP_impactMODIFIER
HGVScY45G5AM.9b.2:c.357+2067_358-1131delinsGTCTTTATCCC
Intron_number3/4
Y45G5AM.9b.1VEP_consequenceintron_variant
VEP_impactMODIFIER
HGVScY45G5AM.9b.1:c.357+2067_358-1131delinsGTCTTTATCCC
Intron_number4/5
Y45G5AM.9a.1VEP_consequenceintron_variant
VEP_impactMODIFIER
HGVScY45G5AM.9a.1:c.357+2067_358-1131delinsGTCTTTATCCC
Intron_number3/7
InteractorWBInteraction000534948
WBInteraction000534951
IsolationMutagenUV/TMP
DescriptionPhenotypeWBPhenotype:0001037Paper_evidenceWBPaper00042194
Curator_confirmedWBPerson6608
WBPhenotype:0001236Paper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
Remark"To validate the RNAi approach, we used mutants of three highly similar nuclear hormone receptor (NHR) paralogs, nhr-68, nhr-101, and nhr-114, which have identical regulatory interaction profiles in the GRN (Table S2). We crossed each mutation into reporter strains where GFP expression is driven by the acdh-1 promoter (Pacdh-1::GFP) or the acdh-2 promoter (Pacdh-2::GFP) and observed very similar effects as we did by RNAi - namely, decreased fluorescence of Pacdh-1::GFP and increased fluorescence of Pacdh2::GFP, in the intestine (Figure 2B)."Paper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
Phenotype_assayGenotypePacdh-2::GFPPaper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
WBPhenotype:0001278Paper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
Remark"To validate the RNAi approach, we used mutants of three highly similar nuclear hormone receptor (NHR) paralogs, nhr-68, nhr-101, and nhr-114, which have identical regulatory interaction profiles in the GRN (Table S2). We crossed each mutation into reporter strains where GFP expression is driven by the acdh-1 promoter (Pacdh-1::GFP) or the acdh-2 promoter (Pacdh-2::GFP) and observed very similar effects as we did by RNAi - namely, decreased fluorescence of Pacdh-1::GFP and increased fluorescence of Pacdh2::GFP, in the intestine (Figure 2B)."Paper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
Phenotype_assayGenotypePacdh-1::GFPPaper_evidenceWBPaper00048645
Curator_confirmedWBPerson2987
ReferenceWBPaper00042194
WBPaper00048645
RemarkSequenced by the C. elegans Gene Knockout ConsortiumPaper_evidenceWBPaper00041807
MethodKO_consortium_allele