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WormBase Tree Display for Variation: WBVar00250708

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Name Class

WBVar00250708NamePublic_nametm1743
Other_nameCE05945:p.Ile65_Asp207delinsGlnSerPheLeuTyrIleSerCysSerAsnCysSerSer
F55A11.3.1:c.193_620delinsCAAAGTTTCTTGTATATCTCATGTTCCAATTGCTCAAG
HGVSgCHROMOSOME_V:g.11767536_11768008delinsCAAAGTTTCTTGTATATCTCATGTTCCAATTGCTCAAG
Sequence_detailsSMapS_parentSequenceF55A11
Flanking_sequencesgtatatctcatgttccaattgctcaagtcttaacaaagccgtttacctgctctacgcaga
Mapping_targetF55A11
Source_location7CHROMOSOME_V1176753511768009Inferred_automaticallyNational_Bioresource_Project
Type_of_mutationInsertionCAAAGTTTCTTGTATATCTCATGTTCCAATTGCTCAAG
Deletion
PCR_producttm1743_external
tm1743_internal
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
Strain
LaboratoryFX
AuthorMitani S
DB_infoDatabaseNational_Bioresource_Projectseq1743
NBP_allele
StatusLive
AffectsGeneWBGene00004768
TranscriptF55A11.3.1 (11)
InteractorWBInteraction000520511
WBInteraction000536213
WBInteraction000536214
WBInteraction000536215
WBInteraction000536216
WBInteraction000536217
IsolationMutagenTMP/UV
GeneticsMapV
DescriptionPhenotypeWBPhenotype:0000031Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
Remarkhrd-1(tm1743) deletion mutant showed a slightly slow growth rate (Fig. 3A).Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
WBPhenotype:0000122Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Remarkpostranslational processing of SKN-1A[ΔDBD]::GFP abnormal; Figure 3Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
postranslational processing of HA::SKN-1A::GFP abnormal; Figure 6Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Phenotype_assayControl_strainWBStrain00043200Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
WBStrain00043201Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
GenotypemgTi2[rpl-28::skn-1a[ΔDBD]::gfp]Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
mgTi4[rpl-28::HA::skn-1a::gfp]Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
WBPhenotype:0000136Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
Remark"As expected from results shown in Fig. 4A, expression of endogenous hsp-3 and hsp-4 genes was increased by the HRD-1 deletion (Supplementary Fig. S3)."Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
WBPhenotype:0000679Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Remarklocalization of SKN-1A::GFP abnormal; Figure 3Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Phenotype_assayControl_strainWBStrain00007962Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
GenotypemgTi1[rpl-28::skn-1a::gfpPaper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
WBPhenotype:0001236Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkComment from Dr. A. Colavita to the National Bioresource Project of Japan: up-regulation of hsp-4::gfp.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceOU
WBPhenotype:0001918Paper_evidenceWBPaper00030999
WBPaper00049977
Curator_confirmedWBPerson2987
WBPerson5649
Remark"DTT, which is a reducing reagent that affects the protein folding environment in the ER as well as the cytosol, greatly reduced growth rate of hrd-1(tm1743) mutant and marc-6(RNAi) worms."Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
"Thapsigargin, which is an ER membrane Ca2+-ATPase inhibitor, depletes calcium stores and affects the protein folding environment in the ER, slightly affected growth rate of hrd-1(tm1743) mutant."Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
increased sensitivity to bortezomib; Figure 1, bortezomib concentration required to cause developmental arrest is ~10x lower than wild typePaper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Variation_effectPredicted_null_via_sequencePaper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Affected_byMoleculeWBMol:00004908Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
WBMol:00002963Paper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
WBMol:00003099Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
Phenotype_assayControl_strainWBStrain00000001Paper_evidenceWBPaper00049977
Curator_confirmedWBPerson5649
TreatmentEggs were laid on plates containing 5 millimolar DTT for 2 hours and analyzed after 72 hoursPaper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
Eggs were laid on plates containing 5 micromolar thapsigargin for 2 hours and analyzed after 72 hoursPaper_evidenceWBPaper00030999
Curator_confirmedWBPerson2987
WBPhenotype:0002602Paper_evidenceWBPaper00060631
Curator_confirmedWBPerson712
RemarkAnimals harboring mutations in marc-6 and hrd-1 also reverse significantly less than wild-type animals (Figure 1A).Paper_evidenceWBPaper00060631
Curator_confirmedWBPerson712
Phenotype_not_observedWBPhenotype:0000032Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkComment from Dr. H. Sawa to the National Bioresource Project of Japan: healthy.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceHS
WBPhenotype:0000062Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkClassified as homozygous viable by the National Bioresource Project of Japan. Comments to the National Bioresource Project of Japan: Dr. T. Ogura: Genes to Cells: 12, 1063 (2007).Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceFX
WBPhenotype:0000633Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkComment from Dr. A. Colavita to the National Bioresource Project of Japan: no VC axon branching defects.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceOU
EQ_annotationsAnatomy_termWBbt:0005304PATO:0000460Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
WBPhenotype:0000812Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkComment from Dr. T. Schedl to the National Bioresource Project of Japan: no germline phenotypes.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceBS
WBPhenotype:0001013Paper_evidenceWBPaper00061619
Curator_confirmedWBPerson557
Phenotype_assayTreatmentWorms 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_evidenceWBPaper00061619
Curator_confirmedWBPerson557
WBPhenotype:0001014Paper_evidenceWBPaper00061619
Curator_confirmedWBPerson557
Phenotype_assayTreatmentWorms 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_evidenceWBPaper00061619
Curator_confirmedWBPerson557
WBPhenotype:0001225Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkComment from Dr. H. Sawa to the National Bioresource Project of Japan: no obvious Psa phenotype.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceHS
WBPhenotype:0001507Paper_evidenceWBPaper00061619
Curator_confirmedWBPerson557
Phenotype_assayTreatmentWorms 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_evidenceWBPaper00061619
Curator_confirmedWBPerson557
WBPhenotype:0002057Paper_evidenceWBPaper00061619
Curator_confirmedWBPerson557
Phenotype_assayTreatmentWorms 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_evidenceWBPaper00061619
Curator_confirmedWBPerson557
ReferenceWBPaper00030999
WBPaper00049977
WBPaper00060631
WBPaper00061619
WBPaper00065342
Remark4110/4111-CAAAGTTTCTTGTATATCTCATGTTCCAATTGCTCAAG-4583/4584 (473 bp deletion + 38 bp insertion)
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_evidenceWBPaper00041807
MethodNBP_knockout_allele