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WormBase Tree Display for Variation: WBVar01429526

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Name Class

WBVar01429526NamePublic_nametm5409
Other_nameF46B6.3a.1:c.442_727delinsGGGGAGAAGCAGGACGCAAATTCGGAAACTTG
CE30440:p.Asn148GlyfsTer31
F46B6.3b.1:c.442_727delinsGGGGAGAAGCAGGACGCAAATTCGGAAACTTG
CE26973:p.Asn148GlyfsTer31
HGVSgCHROMOSOME_V:g.9776911_9777248delinsCAAGTTTCCGAATTTGCGTCCTGCTTCTCCCC
Sequence_detailsSMapS_parentSequenceF46B6
Flanking_sequencesgttcttttctttttgcgtcctgcttctcccaagtttccgaatttgttgttccagagtcag
Mapping_targetF46B6
Source_location7CHROMOSOME_V97769109777249Inferred_automaticallyNational_Bioresource_Project
Type_of_mutationInsertionCAAGTTTCCGAATTTGCGTCCTGCTTCTCCCC
Deletion
PCR_producttm5409_external
tm5409_internal
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
LaboratoryFX
AuthorMitani S
DB_infoDatabaseNational_Bioresource_Projectseq5409
NBP_allele
StatusLive
AffectsGeneWBGene00004882
TranscriptF46B6.3b.1 (11)
F46B6.3a.1 (11)
InteractorWBInteraction000536770
WBInteraction000536774
IsolationMutagenTMP/UV
GeneticsMapV
DescriptionPhenotypeWBPhenotype:0000030Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
Remark"The smg-1, smg-4, and smg-6 mutants exhibited synthetic growth defects upon silencing of ire-1 (Fig. S7)."Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
Phenotype_assayGenotypeire-1(RNAi)Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
WBPhenotype:0001236Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
Remark"To assess whether ER protein-folding homeostasis requires NMD-mediated mRNA surveillance, we analyzed deletions of the NMD genes smg-1, smg-4, and smg-6 in the zcIs4 transgenic hsp-4 GFP reporter strain. All strains displayed greater GFP fluorescence compared the parental zcIs4 strain (Fig. 2A and Fig. S6), and qRT-PCR revealed that the expression of endogenous hsp-4 mRNA was constitutively elevated in the smg-1(tm849) and smg-6(ok1794) mutant strains compared the wild type N2 (Fig. 2B)."Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
Phenotype_assayGenotypezcIs4 [Phsp-4::GFP]Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson2987
WBPhenotype:0001485Paper_evidenceWBPaper00041065
Curator_confirmedWBPerson4260
Phenotype_not_observedWBPhenotype:0000062Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkClassified as homozygous viable by the National Bioresource Project of Japan.Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
ReferenceWBPaper00041065
Remark7939/7940-CAAGTTTCCGAATTTGCGTCCTGCTTCTCCCC-8277/8278 (338 bp deletion + 32 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