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WormBase Tree Display for Variation: WBVar00251611

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Name Class

WBVar00251611NamePublic_nametm2775
HGVSgCHROMOSOME_III:g.7363294_7363521del
Sequence_detailsSMapS_parentSequenceF08F8
Flanking_sequencestattctatttatatgaaaaataagtttattttttaacgtttattataaaaaacagtttttaaaattattcaaaaaagtacatgaaaataagtagtggaatgaattgagaacattgaatactacttttgaaagaataattataaaataagaatgaaaaatgagataattaacatcgaccaaatctgcgttcaaatggatgttgtctcttgaatccatgatgtccgaatccatgaccaaatccatgatgatgaccaccgaatccatggaatgctccaaatggatgatgatgtctatggaaattgaatccatgatgatccattcctcgtcttccaaatggtcttccgaatcctccagttggaccttcaaattcttctcttccacaaggtgttccaaatgatcctaatggatgtcttttgaattcttctccttcacgacatggtcttcttccaattggtgatgctgatcttgcacgtcttccaccaaaacagtgacgtcttttgaattctggatgtccatgggattcttggaatcttttccacatgagcttcttcatttgatgtctcttgtgatgatcatggaaatttgaacgacttctgcttcgagatcttgaacgatcaaatccacgacttctggatctatcacgtcttccacaatgacgacgatgtggagctacttcaggagcatcagcaataatgacatcttcatctccagaatcagaagaatcagatgaagaatccgatgaatcagaatcagcaatcacaaaaatagaagcagaatctctgttagccatctttttcagaactctctgagcattctgagacattgaaatcaaatttcctttctccgcctaccagctgtccctgaactatttcgaaattgtttaatgtgtctgtgtctatcgaaataatacgaaaatgtactgtcatcactgtctgcgtctcgaattggcgctgatcttttgatattcattgatgaatgagactagagacatggatgtattgcacaaaccacagaaagagcacaaagtctttgaatttcagatgatctgaaatacatcgacatcaatagagatttacttcttaggtgacatt
Mapping_targetF08F8
Source_location7CHROMOSOME_III73632937363522Inferred_automaticallyNational_Bioresource_Project
Type_of_mutationDeletion
PCR_producttm2775_external
tm2775_internal
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
LaboratoryFX
AuthorMitani S
DB_infoDatabaseNational_Bioresource_Projectseq2775
NBP_allele
StatusLive
AffectsGeneWBGene00017270
TranscriptF08F8.5.1VEP_consequencecoding_sequence_variant,5_prime_UTR_variant
VEP_impactMODIFIER
cDNA_position?-171
CDS_position?-171
Protein_position?-57
Exon_number1/1
IsolationMutagenTMP/UV
GeneticsMapIII
DescriptionPhenotypeWBPhenotype:0000007Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
Remarknumr-1(tm2775) nematodes were egg-laying defective (Egl phenotype). This was demonstrated by an increase in the number of nematodes with a "bagging" phenotype, where nematodes fail to lay their eggs and embryos hatch inside the parent (Figure 6).Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
WBPhenotype:0000695Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
RemarkMicroscopic examination of the vulva in L4 numr-1(tm2775) nematodes showed that there were structural abnormalities, which may have contributed to the Egl phenotype (Figure 6). numr-1(tm2775) nematodes often lacked organized epithelial-ring structures that line the vulva lumen at the L4 stage.Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
EQ_annotationsAnatomy_termWBbt:0006748PATO:0000460Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
Life_stageWBls:0000038PATO:0000460Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
WBPhenotype:0002241Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
Remarknumr-1(tm2775) nematodes did not feed as much (i.e. Eat phenotype) as the wild-type nematodes (Figure 6).Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
Phenotype_assayTreatmentBriefly, 25 adult C. elegans were dispensed into each well of a 96-well plate, containing K-medium and OP50 E. coli, using a COPAS Biosort (Union Biometrica Inc., Somerville, MA, USA). After 4 hours, Fluoresbrite polychromatic red microspheres (Polysciences, Inc., Warrington, PA) were added into each well and mixed for 5 minutes. Nematodes were allowed to ingest the microspheres for 10 additional minutes and then anesthetized by adding sodium azide (10 millimolar final concentration) to prevent additional bead ingestion. The size and level of fluorescence of individual C. elegans were measured.Paper_evidenceWBPaper00036303
Curator_confirmedWBPerson2987
Phenotype_not_observedWBPhenotype:0000062Person_evidenceWBPerson7743
Curator_confirmedWBPerson48
ReferenceWBPaper00036303
Remark24319/24320-24547/24548 (228 bp deletion)
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