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WormBase Tree Display for Variation: WBVar00000109

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Name Class

WBVar00000109EvidencePaper_evidenceWBPaper00004836
NamePublic_nameak4
Other_nameCE30128:p.Glu352_Ter750delextTer?
F07F6.6.1:c.1054_2250del
HGVSgCHROMOSOME_II:g.5443296_5445175del
Sequence_detailsSMapS_parentSequenceF07F6
Flanking_sequencestttaatgataaatgtgaacgaattggagtcatatgggattcaactcgactggaatttgaa
Mapping_targetF07F6
Type_of_mutationDeletion
SeqStatusSequenced
Variation_typeAllele
OriginSpeciesCaenorhabditis elegans
StrainWBStrain00040168
WBStrain00040171
WBStrain00040666
WBStrain00040796
WBStrain00048048
WBStrain00048049
WBStrain00048050
WBStrain00048052
WBStrain00048074
WBStrain00048082
WBStrain00048083
WBStrain00054658
WBStrain00054659
LaboratoryVM
StatusLive
AffectsGeneWBGene00003774
TranscriptF07F6.6.1VEP_consequencesplice_acceptor_variant,splice_donor_variant,stop_lost,inframe_deletion,intron_variant
VEP_impactHIGH
HGVScF07F6.6.1:c.1054_2250del
HGVSpCE30128:p.Glu352_Ter750delextTer?
cDNA_position1056-2252
CDS_position1054-2250
Protein_position352-750
Intron_number8-15/20
Exon_number8-16/21
Codon_changeGAATATGATATTATTAATTTTCATATGGAGAGGAAACAAGTTGGAAATATGGTTGGTTTAGTTGTATAAATCTTGAAATCCAAATACAGTACACCTATTCTCAAAGTAGTGCTCATTAATTCTGAGCTCTGCATCGGTGTTGCATAATACTATTCAAGCTTTTACATTTCAATTCTTCAGCGCCATTTTATAGAAACTGAAAAATCAACACCAAAAATTTTTACTGCATCTTCAACCCCAAAAATTAAAAATGTACAGAATTCGTAGTAACAATTTTCAAGTTTTTTAAAATTATATTTCCAATAAACATCCTGATTGATATTCCCCATAGAATGTGTAGTTTTCCAGGTTGGTGATATCCTTAGACTTGATGAAGATTCGATTGAATGGGCTGGTGGTACGAAACCTCTAGAAATATCTCTTCCAAAACATCTTCGCGTGGTTACTGTAGCTGATCCTCCATTCGTTTATACAACTCCAATTGGCTCACCGTCTCAGTGTGCAGAGCTAGGAAATACTGTAGTCGAATGGTCGATATTCGATAAAATTGTTGTGGTGAGGAAGTTTTACTTGAAACTTGAAAGTTTACAGCTATTTTCAGAGTGGACCTTGGTACTCTTGCCCGTTGACTTTGGAAAATTCAACTGAATATTTTTGCTGTGCAGGATTAGCGATTGACCTTTTATCAAATTTGTCACTTCCTGAGGTACTGATTATAATTTATTATATGCATTTAATGTTGTGCTTTTCAAGGCAAATAACTCAATCGATACAAGTTTCACTTTTTCCCTCCATCTCAATGAATCCTATGGAGTTGTACAAGCCTCAGAGACAGTGAGTTTTTATTTAAATATTTGTTTTTAAATTCAAAATAGATTCTCTAATTAATTTCAGACCGGAATAACTATAAGTGGAGTGATTGGCGAGTTGGATGGTGATACGGCTGACATGGCAATTGGTGGAATTACAATCAATCCTGAAAGAGAGAGAATTGTAGATTTTACTGAACCTTGGCTTTATCATGGTATCAGGATTTTAGAGAAAAATGTGAGTACTATGTTTTGATGTTACCGGGAAAGTTTTTCAAATCCTTTTCTGTTGTTCAAAAAAAGATAATACTTGAAAAAAATTATTTCCAGATTCCCAGAGACTCTCCAATGCAATCATTTCTTCAACCTCTACAATCCTCCCTCTGGACTGCACTCTTCATTTCTGTGATACTTGTTGGCCTTGCCATCTACTGTTTGGATTTCAAATCACCATTTGAAAGATTCTATCAAGCTGATAAGGAAATGGAGCAGGACCTGAAAAAAGAGTTCGAGCTTTGGATTGGGAAGGATGCTGATGAAAACGTGAATTTTGGAGAAGCAATGTGGTTTGTTTGGGGAGTTCTGTTGAACAGCGGAGTTTCAGAAAGTGAGTGGGTTTTCCAAGGAAAGAAAACTAAAATTTAACAATTGAAAACTTCAGAGACTCCAAGAAGTTGCTCGGCTCGTGTTCTGGGGATAGTTTGGTGCGGATTTTGCATGATTATGGTTGCATCATACACTGCAAACCTCGCAGCTTTTCTGGTTTTAGATCAACCTGAAAAAGGTTTAACAGGAGTCACTGATCCACGGGTAAGATTGATAGCGGTGTTTTTAAGTTTTGTCCATTTTCAGCTCCGAAATCCATCTGCAAACTTTTCATTTGGAACGGTTTTGAACTCAAATGTCTATCAATACTTCAAAAGACATGTGGAATTATCATCCATGTTTCGAAAAATGGAACCTCATAACGTGCGGCGAGCTTCAGAGGTGAGCACTAGTGATTGATAACCTTGTAAAAAATATTTAATTCAGGCTGTGCACTCTCTTCTCAATGGTTCATTGGATGCATTT/-
Amino_acid_changeEYDIINFHMERKQVGNMVGLVV*ILKSKYSTPILKVVLINSELCIGVA*YYSSFYISILQRHFIETEKSTPKIFTASSTPKIKNVQNS**QFSSFLKLYFQ*TS*LIFPIECVVFQVGDILRLDEDSIEWAGGTKPLEISLPKHLRVVTVADPPFVYTTPIGSPSQCAELGNTVVEWSIFDKIVVVRKFYLKLESLQLFSEWTLVLLPVDFGKFN*IFLLCRISD*PFIKFVTS*GTDYNLLYAFNVVLFKANNSIDTSFTFSLHLNESYGVVQASETVSFYLNICF*IQNRFSN*FQTGITISGVIGELDGDTADMAIGGITINPERERIVDFTEPWLYHGIRILEKNVSTMF*CYRESFSNPFLLFKKR*YLKKIISRFPETLQCNHFFNLYNPPSGLHSSFL*YLLALPSTVWISNHHLKDSIKLIRKWSRT*KKSSSFGLGRMLMKT*ILEKQCGLFGEFC*TAEFQKVSGFSKERKLKFNN*KLQRLQEVARLVFWG*FGADFA*LWLHHTLQTSQLFWF*INLKKV*QESLIHG*D**RCF*VLSIFSSEIHLQTFHLERF*TQMSINTSKDMWNYHPCFEKWNLITCGELQR*ALVIDNLVKNI*FRLCTLFSMVHWMHX/-
InteractorWBInteraction000501705
GeneticsInterpolated_map_positionII-1.51326
Mapping_dataIn_multi_point4538
DescriptionPhenotypeWBPhenotype:0000016Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
RemarkVM487 strain used: nmr-1(ak4)Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
Phenotype_assayTreatmentOne day old adult worms were placed on Aldicarb (0.1 mM) plates.Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
Temperature20Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
WBPhenotype:0000420Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
RemarkVM487 strain used: nmr-1(ak4)Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
Phenotype_assayTreatmentLevamisole assays were carried out on NGM plates with 200 M Levamisole.Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
Temperature20Paper_evidenceWBPaper00060924
Curator_confirmedWBPerson557
WBPhenotype:0001182Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
RemarkFat levels were not reduced when compared to daf-7(e1375), as determined by Sudan Black assay (described in Kimura et al., 1997).Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Phenotype_assayTreatmentTo minimize staining variability, which allowed for quantitative comparisons between various genotypes: animals from one genotype were labeled with fluorescein isothiocyanate (FITC) and then fixed and stained in the same tube as unlabeled animals from another genotype.Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Temperature22Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
WBPhenotype:0001265Paper_evidenceWBPaper00042154
Curator_confirmedWBPerson1455
RemarkIn free locomotion, irregular head swing is infrequent (Fig. 8D, E and Table 3), and coordination between head movement and body center movement is higher than the wild type (Fig. 7 and Table 3).Paper_evidenceWBPaper00042154
Curator_confirmedWBPerson1455
WBPhenotype:0001444Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
RemarkAnimals showed defects in gustatory plasticity to NaCl compared to wild type.Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00003571Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
Phenotype_assayTreatmentAnimals were tested for response to 25 mM NaCl after various pre-treatments: a 15-min wash in CTX buffer with or without 100 mM NaCl (liquid), or 30 min on a CTX plate with or without 100 mM NaCl, and in the presence or absence of bacteria, 500 mM glycerol, or 3 uL of benzaldehyde.Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
WBPhenotype:0001524Paper_evidenceWBPaper00035944
Curator_confirmedWBPerson2776
WBPerson10038
RemarkQuoted from paper: "The median quiescent bout durations of nmr-1(ak4); egl-4 (ks60) were similar to egl-4(ks60) indicating egl-4 acts downstream of or within command interneurons in maintenance of quiescence (Figure 1A)."Paper_evidenceWBPaper00035944
Curator_confirmedWBPerson10038
WBPhenotype:0001785Paper_evidenceWBPaper00031974
WBPaper00040253
WBPaper00041586
Curator_confirmedWBPerson712
WBPerson1251
WBPerson10038
RemarkAnimals were unable to fully retain NaCl avoidance; animals recovered from the avoidance state more rapidly than either wild-type animals or AMPAR mutants. Memory retention was restored in animals expressing wild-type NMR under the control of the glr-1 or tdc-1promoter, but not under the promoter for rig-3, tol-1, or odr-2.Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
Table 1. Quoted from paper "nmr-1 is required for associative but not non-associative learning."Paper_evidenceWBPaper00041586
Curator_confirmedWBPerson10038
Phenotype_assayControl_strainWBStrain00000001Paper_evidenceWBPaper00041586
Curator_confirmedWBPerson10038
TreatmentAnimals were subjected to a salt-chemotaxis-learning assay, in which starvation is paired with NaCl.Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0002114Paper_evidenceWBPaper00035944
Curator_confirmedWBPerson2776
WBPhenotype:0002346Paper_evidenceWBPaper00004836
Curator_confirmedWBPerson2301
WBPhenotype:0004017Paper_evidenceWBPaper00042154
Curator_confirmedWBPerson1455
RemarkIn free locomotion, irregular head swing is infrequent (Fig. 8D, E and Table 3), and coordination between head movement and body center movement is higher than the wild type (Fig. 7 and Table 3).Paper_evidenceWBPaper00042154
Curator_confirmedWBPerson1455
WBPhenotype:0004029Paper_evidenceWBPaper00064660
Curator_confirmedWBPerson51549
Phenotype_not_observedWBPhenotype:0000006Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
RemarkAll these animals retained a similar number of eggs when compared to wild-type animals (~10 eggs).Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Phenotype_assayTreatmentYoung well-fed animals were scoredPaper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Temperature25Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
WBPhenotype:0000019Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
RemarkAnimals did not exhibit reduced pharyngeal pumping when compared with daf-7(e1375).Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Phenotype_assayTreatmentPumping rates were assayed for well-fed , pheromone-untreated; food-deprived, pheromone-untreated; and well-fed, pheromone-treated animals. Pheromone treatment consisted of transfer of animals grown under well-fed conditions to plates containing 30 ul/ml of a dauer-pheromone prep (Golden and Riddle, 1982) and 30 ml of OP50 E. coli food.Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
Temperature20Paper_evidenceWBPaper00032082
Curator_confirmedWBPerson712
WBPhenotype:0000062Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0000147Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
RemarkStarved animals showed an enhanced slowing in response to food (data not shown).Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0000643Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
RemarkAnimals showed no gross locomotion defect (data not shown).Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0001072Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
RemarkAnimals moved more slowly in response to food (data not shown).Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0001084Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
RemarkAnimals showed normal chemotaxis to NaCl in mock-conditioned assays and avoided NaCl just after conditioning.Paper_evidenceWBPaper00031974
Curator_confirmedWBPerson712
WBPhenotype:0001462Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
RemarkAnimals did not show defects in chemotaxis to NaCl compared to wild type.Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00003571Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
Phenotype_assayTreatmentAnimals were tested for response to 25 mM NaCl.Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
WBPhenotype:0001765Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
RemarkMutants defective in the synthesis and reception of nonessential excitatory neurotransmitters respond normally to CO2Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
EQ_annotationsLife_stageWBls:0000057PATO:0000460Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
Phenotype_assayTreatment10% CO2Paper_evidenceWBPaper00031936
Curator_confirmedWBPerson2021
WBPhenotype:0001817Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
RemarkAnimals exhibited enhanced-gustatory plasticity, i.e. strong avoidance to NaCl after starvation, similar to that observed for wild type.Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
Affected_byMoleculeWBMol:00003571Paper_evidenceWBPaper00032335
Curator_confirmedWBPerson712
WBPhenotype:0002370Paper_evidenceWBPaper00059155
Curator_confirmedWBPerson10038
RemarkQuote from paper: "The results illustrated in Figure 3 suggest that mutants associated with glutamate receptor glr-1, glr-2, nmr-1, nmr-2 thermal avoidance was not affected."Paper_evidenceWBPaper00059155
Curator_confirmedWBPerson10038
Phenotype_assayStrainWBStrain00040168Paper_evidenceWBPaper00059155
Curator_confirmedWBPerson10038
Control_strainWBStrain00000001Paper_evidenceWBPaper00059155
Curator_confirmedWBPerson10038
Disease_infoModels_diseaseDOID:1289
Models_disease_in_annotationWBDOannot00000907
WBDOannot00000908
ReferenceWBPaper00040253
WBPaper00032082
WBPaper00031936
WBPaper00032335
WBPaper00026195
WBPaper00025273
WBPaper00031974
WBPaper00004836
WBPaper00035944
WBPaper00012348
WBPaper00042154
WBPaper00041586
WBPaper00059155
WBPaper00060161
WBPaper00060924
WBPaper00064660
MethodDeletion_allele