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WormBase Tree Display for Variation: WBVar00250111

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Name Class

WBVar00250111NamePublic_nametm1094
Other_nameC01G5.2:n.396_1403+10delinsACTTGTTTAATTGTTAAACACTTGTTT
HGVSgCHROMOSOME_IV:g.6528299_6529363delinsAAACAAGTGTTTAACAATTAAACAAGT
Sequence_detailsSMapS_parentSequenceC01G5
Flanking_sequencesaaaaaaaatttgtttaacaattaaacaagtgagttatcattagggtgttgaacctcgatc
Mapping_targetC01G5
Source_location7CHROMOSOME_IV65282986529364Inferred_automaticallyNational_Bioresource_Project
Type_of_mutationInsertionAAACAAGTGTTTAACAATTAAACAAGT
Deletion
PCR_producttm1094_external
tm1094_internal
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
StrainWBStrain00040454
LaboratoryFX
AuthorMitani S
DB_infoDatabaseNational_Bioresource_Projectseq1094
NBP_allele
StatusLive
AffectsGeneWBGene00004179
WBGene00305249
TranscriptC01G5.26
PseudogeneC01G5.2VEP_consequencesplice_acceptor_variant,splice_donor_variant,non_coding_transcript_exon_variant,intron_variant
VEP_impactHIGH
HGVScC01G5.2:n.396_1403+10delinsACTTGTTTAATTGTTAAACACTTGTTT
cDNA_position396-?
Intron_number2-3/7
Exon_number2-3/8
InteractorWBInteraction000052130
IsolationMutagenTMP/UV
GeneticsMapIV
DescriptionPhenotype_not_observedWBPhenotype:0000062Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
RemarkClassified as homozygous viable by the National Bioresource Project of Japan. Comments to the NBP from Dr. C. Mello, Cell 127, 747-457 (2006); Dr. E. Miska; Mol Cell 31, 79-90 (2008).Person_evidenceWBPerson7743
Curator_confirmedWBPerson712
Laboratory_evidenceFX
WM
SX
WBPhenotype:0000113Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
RemarkExpression of 21 U RNAs was normal.Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
EQ_annotationsLife_stageWBls:0000038PATO:0000460Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Phenotype_assayTreatmentSamples were enriched for RNAs <200 bp and used in northern analysis to examine the expression profile of the 21U-RNA 21ur-1 asPaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
WBPhenotype:0000154Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
RemarkBrood size is not significantly different from that of wild-type at 20 or 25C (scored for more than 8 animals on average / trial, n=3 trials).Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Variation_effectProbable_null_via_phenotypePaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Phenotype_assayTemperature20, 25Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
WBPhenotype:0000688Paper_evidenceWBPaper00031903
WBPaper00031961
Curator_confirmedWBPerson712
RemarkAnimals exhibited wild-type brood sizes at both 20C and 25C.Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
Variation_effectProbable_null_via_phenotypePaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Phenotype_assayTemperature20, 25Paper_evidenceWBPaper00031903
WBPaper00031961
Curator_confirmedWBPerson712
WBPhenotype:0000812Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
RemarkNumber and development of germ cells were not significantly different from wild-type as assayed by DIC microscopy and DAPI staining analysis.Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Variation_effectProbable_null_via_phenotypePaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
WBPhenotype:0000823Paper_evidenceWBPaper00031903
WBPaper00031961
Curator_confirmedWBPerson712
RemarkMitotic germ cell number (monitored with phosphoS10 histone H3 staining) was not significantly different from wild-type.Paper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Animals had normal numbers and morphologically wild-type germ cells.Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
Variation_effectProbable_null_via_phenotypePaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
Phenotype_assayTemperature25CPaper_evidenceWBPaper00031903
Curator_confirmedWBPerson712
20, 25Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
WBPhenotype:0001759Paper_evidenceWBPaper00031962
WBPaper00031961
Curator_confirmedWBPerson712
RemarkPRG-2 is not required for piRNA (21U-RNA) expression, as determined by comparable levels of 21U-RNA on Northern and or through qRT-PCR to that of wild-type.Paper_evidenceWBPaper00031962
Curator_confirmedWBPerson712
21U-RNA expression was not altered compared with expression in wild-type animals.Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
EQ_annotationsGO_termGO:0034585PATO:0000460Paper_evidenceWBPaper00031962
Curator_confirmedWBPerson712
WBPhenotype:0001772Paper_evidenceWBPaper00031962
Curator_confirmedWBPerson712
RemarkAnimals did not exhibit any increase in levels of either Tc1 or Tc3 transposase mRNA compared to control.Paper_evidenceWBPaper00031962
Curator_confirmedWBPerson712
WBPhenotype:0001779Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
RemarkmiRNA expression was not altered.Paper_evidenceWBPaper00031961
Curator_confirmedWBPerson712
ReferenceWBPaper00031961
WBPaper00031962
WBPaper00031903
Remark14468/14469-AAACAAGTGTTTAACAATTAAACAAGT-15533/15534 (1065 bp deletion + 27 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