X-chr PC Rep 123

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Traits

123

Report Name X-chr PC Rep
Trait Name 123
Data release 20170531
CeNDR version 1.2.8
cegwas version v1.01 @2c21292 [2018-02-22]
Report version v2
Strains for trait "123" 232
Traits 1
Status complete
Submitted 2018-04-24   04:04:25 UTC
Started 2018-04-24   04:04:45 UTC
Completed 2018-04-24   05:04:56 UTC
Duration 29m 10s
Log View Log
Report Mode public
Share http://www.elegansvariation.org/report/x-chr-pc-rep/123

Log

####-##-## ##:##:## Task ID: 15659515-ad55-43e7-bc53-dff1de38268d
<?xml version='1.0' encoding='UTF-8'?><Error><Code>NoSuchKey</Code><Message>The specified key does not exist.</Message><Details>No such object: elegansvariation.org/reports/v2/15659515-ad55-43e7-bc53-dff1de38268d/out.log</Details></Error>

Phenotype

Hover over a line in the rug plot to see the strain and phenotype value for that strain.

Your phenotype is significantly associated with genetic variation present in the C. elegans population!

Manhattan

Manhattan Plot

A genome-wide representation of the association between variation in the C. elegans population and your phenotype. The x-axis corresponds to genomic position with chromosome number indicated as a roman numeral above each box. Dots represent single-nucleotide variants (SNV) present in the C. elegans population. The y-axis corresponds to the level of significance for the association test. Blue dots represent SNVs that are above the defined significance threshold, which is the thick red line. Red boxes surrounding blue dots represent the QTL genomic region of interest, which we define as plus/minus 50 SNVs from the last signifincant SNV. The default threshold for significance is the Bonferroni-corrected value and is usually around 5.5.

Phenotype-by-Genotype

Hover over a point to see the strain and phenotype value for that strain.

Phenotypic distributions represented as box plots are split by the genotype at the most significant SNV for a given QTL. The phenotype is on the y-axis, and the genotype is on the x-axis. The chromosome and position for the plotted SNV are indicated as roman numerals above each panel. REF refers to the reference N2 genotype, and ALT refers to the alternative variant phenotype.

Peak Summary

Peak Position Interval -log10p Variance Explained
V:18368232 V:18266605-18537313 20.37 13.13

Switch between peaks below.

Interval Summary

  • Peak Interval  V:18266605-18537313
  • Peak Position  V:18368232
  • Variance Explained  13.100000000000001%
Download Table
Biotype # Genes # Genes w/ variants MODIFIER + LOW + MODERATE + HIGH + # Variants
Total 107 104 99 82 62 31 7544
protein_coding 58 65 60 62 58 25 6136
pseudogene 27 25 25 12 1 4 831
lincRNA 0 14 14 8 3 2 577
ncRNA 15 0 0 0 0 0 0
tRNA 3 0 0 0 0 0 0
transposon_protein_coding 4 0 0 0 0 0 0
Biotype summary data differ from past reports. The numbers above reflect counts among the strains that were submitted and are not reflective of the population as a whole.

Variants

The table below lists the top 500 variants, their predicted effects, and their correlation with the phenotype. Only protein coding genes have their variants correlated with phenotype. Click Download Table to download the complete list of interval variants.

Download Table
Gene CHROM:POS (REF/ALT) Impact Effect AA Change -log10( p-value )
Max -log10(p-value) = 1.847
1 variant(s)
C08E8.8
WBGene00045496 -- pseudogene
V:18359416 (T / C) LOW splice_region_variant&intron_variant nan 1.847
Max -log10(p-value) = 1.738
10 variant(s)
fbxa-213
WBGene00012574 -- protein_coding
V:18267961 (A / C) MODERATE missense_variant p.Phe233Leu 1.738
V:18268090 (C / T) LOW synonymous_variant p.Leu190Leu 1.738
V:18268431 (T / C) MODERATE missense_variant p.Thr124Ala 1.013
V:18267427 (G / C) LOW synonymous_variant p.Gly396Gly 1.013
V:18267862 (A / G) LOW synonymous_variant p.Ser266Ser 0.893
V:18267708 (G / A) MODERATE missense_variant p.Pro318Ser 0.631
V:18268769 (T / G) MODERATE missense_variant p.Lys26Gln 0.5
V:18268080 (C / A) MODERATE missense_variant p.Asp194Tyr 0.455
V:18267844 (G / A) LOW synonymous_variant p.Ser272Ser 0.288
V:18268440 (G / A) HIGH stop_gained p.Gln121* 0.101
Max -log10(p-value) = 1.607
6 variant(s)
ZK262.20
WBGene00219370 -- protein_coding
V:18434941 (G / T) MODERATE missense_variant p.Leu41Ile 1.607
V:18434574 (T / A) MODERATE missense_variant p.Lys106Asn 0.629
V:18434575 (T / A) MODERATE missense_variant p.Lys106Ile 0.629
V:18434966 (T / C) MODERATE missense_variant p.Ile32Met 0.427
V:18434927 (A / G) LOW synonymous_variant p.Asn45Asn 0.297
V:18434950 (T / C) MODERATE missense_variant p.Ile38Val 0.24
Max -log10(p-value) = 1.582
59 variant(s)
ZK262.3
WBGene00013950 -- protein_coding
V:18414502 (T / C) MODERATE missense_variant p.Val51Ala 1.582
V:18414419 (A / T) MODERATE missense_variant p.Glu23Asp 1.469
V:18414503 (T / C) LOW synonymous_variant p.Val51Val 0.663
V:18414518 (G / A) LOW splice_region_variant&synonymous_variant p.Gly56Gly 0.627
V:18415102 (G / T) LOW synonymous_variant p.Pro61Pro 0.591
V:18416772 (T / A) MODERATE missense_variant p.Ser325Thr 0.589
V:18415195 (T / C) LOW synonymous_variant p.Leu92Leu 0.573
V:18416757 (G / A) MODERATE missense_variant p.Gly320Arg 0.572
V:18416674 (A / G) LOW synonymous_variant p.Val312Val 0.558
V:18414362 (T / A) MODERATE missense_variant p.Asn4Lys 0.554
V:18415281 (C / T) LOW splice_region_variant&intron_variant nan 0.548
V:18415162 (T / C) LOW synonymous_variant p.Pro81Pro 0.548
V:18416394 (C / A) LOW synonymous_variant p.Ser234Ser 0.548
V:18416421 (G / A) LOW synonymous_variant p.Gly243Gly 0.548
V:18416430 (T / G) LOW synonymous_variant p.Pro246Pro 0.548
V:18416436 (C / T) LOW synonymous_variant p.Asp248Asp 0.548
V:18416445 (C / T) LOW synonymous_variant p.Ser251Ser 0.548
V:18416448 (T / C) LOW synonymous_variant p.Thr252Thr 0.548
V:18416554 (C / T) LOW synonymous_variant p.Asp272Asp 0.548
V:18416584 (G / C) LOW synonymous_variant p.Arg282Arg 0.548
V:18416593 (C / T) LOW synonymous_variant p.Asp285Asp 0.548
V:18416599 (G / A) LOW synonymous_variant p.Gly287Gly 0.548
V:18416629 (G / C) LOW synonymous_variant p.Gly297Gly 0.548
V:18416635 (T / A) LOW synonymous_variant p.Thr299Thr 0.548
V:18416671 (G / A) LOW synonymous_variant p.Gly311Gly 0.548
V:18416404 (C / T) MODERATE missense_variant p.Pro238Ser 0.547
V:18416403 (G / A) LOW synonymous_variant p.Pro237Pro 0.547
V:18414385 (T / C) MODERATE missense_variant p.Leu12Ser 0.542
V:18414399 (A / T) MODERATE missense_variant p.Ile17Leu 0.532
V:18414405 (A / G) MODERATE missense_variant p.Ser19Gly 0.532
V:18414406 (G / A) MODERATE missense_variant p.Ser19Asn 0.532
V:18414407 (C / A) MODERATE missense_variant p.Ser19Arg 0.532
V:18414404 (C / T) LOW synonymous_variant p.Asn18Asn 0.532
V:18414410 (T / A) LOW synonymous_variant p.Val20Val 0.532
V:18415135 (C / T) LOW synonymous_variant p.Ser72Ser 0.532
V:18416389 (C / T) LOW synonymous_variant p.Leu233Leu 0.528
V:18416433 (C / T) LOW synonymous_variant p.Cys247Cys 0.484
V:18416852 (A / G) LOW synonymous_variant p.Ser351Ser 0.447
V:18415168 (A / C) LOW synonymous_variant p.Ala83Ala 0.435
V:18415180 (C / A) LOW synonymous_variant p.Val87Val 0.435
V:18415183 (T / C) LOW synonymous_variant p.Val88Val 0.435
V:18416331 (T / C) LOW splice_region_variant&synonymous_variant p.Ser213Ser 0.416
V:18415416 (T / C) MODERATE missense_variant p.Ser150Pro 0.376
V:18416816 (G / A) LOW synonymous_variant p.Ser339Ser 0.374
V:18416494 (T / A) LOW splice_region_variant&intron_variant nan 0.357
V:18415310 (G / A) LOW synonymous_variant p.Thr114Thr 0.357
V:18415313 (C / T) LOW synonymous_variant p.Thr115Thr 0.357
V:18415314 (T / C) LOW synonymous_variant p.Leu116Leu 0.357
V:18415316 (A / G) LOW synonymous_variant p.Leu116Leu 0.357
V:18416418 (T / C) LOW synonymous_variant p.Asp242Asp 0.357
V:18415487 (A / T) LOW synonymous_variant p.Ala173Ala 0.297
V:18415451 (G / T) LOW synonymous_variant p.Gly161Gly 0.273
V:18416740 (T / A) MODERATE missense_variant&splice_region_variant p.Val314Asp 0.255
V:18415334 (C / T) LOW synonymous_variant p.Phe122Phe 0.235
V:18416822 (C / T) LOW synonymous_variant p.Val341Val 0.225
V:18416825 (G / T) LOW synonymous_variant p.Gly342Gly 0.218
V:18415500 (C / T) MODERATE missense_variant p.His178Tyr 0.146
V:18414524 (G / T) LOW splice_region_variant&intron_variant nan 0.1
V:18414523 (T / G) LOW splice_region_variant&intron_variant nan 0.087
Max -log10(p-value) = 1.264
5 variant(s)
skr-6
WBGene00004812 -- protein_coding
V:18269711 (T / C) MODERATE missense_variant p.Met76Val 1.264
V:18269689 (C / T) MODERATE missense_variant p.Ser83Asn 1.007
V:18269717 (C / A) MODERATE missense_variant p.Ala74Ser 0.625
V:18269657 (T / C) MODERATE missense_variant p.Lys94Glu 0.598
V:18269839 (T / A) LOW synonymous_variant p.Thr49Thr 0.225
Max -log10(p-value) = 1.243
7 variant(s)
slo-1
WBGene00004830 -- protein_coding
V:18505995 (C / T) LOW synonymous_variant p.Leu925Leu 1.243
V:18506883 (T / C) LOW splice_region_variant&intron_variant nan 1.041
V:18506975 (C / A) LOW synonymous_variant p.Gly1051Gly 0.266
V:18501939 (C / T,A) LOW synonymous_variant p.Ala665Ala 0.255
V:18496246 (T / C) LOW synonymous_variant p.Tyr319Tyr 0.227
V:18501982 (G / A) LOW splice_region_variant&intron_variant nan 0.216
V:18493191 (G / A) LOW synonymous_variant p.Leu72Leu 0.182
Max -log10(p-value) = 1.214
1 variant(s)
C08E8.5
WBGene00007441 -- protein_coding
V:18359819 (C / T) LOW splice_region_variant&stop_retained_variant p.Ter57Ter 1.214
Max -log10(p-value) = 1.082
6 variant(s)
Y51A2D.18
WBGene00013083 -- protein_coding
V:18487250 (G / T,C) LOW 5_prime_UTR_premature_start_codon_gain_variant nan 1.082
V:18483984 (G / A) LOW synonymous_variant p.Phe248Phe 0.489
V:18485317 (G / A) LOW synonymous_variant p.Ile81Ile 0.432
V:18482439 (G / A) LOW synonymous_variant p.Ser408Ser 0.193
V:18485011 (A / G) LOW synonymous_variant p.Ser163Ser 0.189
V:18485206 (T / C) LOW splice_region_variant&intron_variant nan 0.058
Max -log10(p-value) = 1.045
15 variant(s)
Y37H2C.1
WBGene00012573 -- protein_coding
V:18274082 (A / C) MODERATE missense_variant p.Ser576Ala 1.045
V:18272906 (T / A) MODERATE missense_variant p.Ile714Leu 0.748
V:18272907 (T / C) LOW synonymous_variant p.Lys713Lys 0.748
V:18272932 (A / G) MODERATE missense_variant p.Ile705Thr 0.728
V:18276912 (A / G) MODERATE missense_variant p.Phe164Leu 0.655
V:18277685 (C / G) MODERATE missense_variant p.Val4Leu 0.644
V:18275297 (G / A) MODERATE missense_variant p.Ser317Phe 0.604
V:18277676 (A / C) MODERATE missense_variant p.Ser7Ala 0.604
V:18274202 (A / T) MODERATE missense_variant p.Ser536Thr 0.417
V:18275209 (G / A) LOW synonymous_variant p.Leu346Leu 0.413
V:18273250 (T / C) LOW synonymous_variant p.Lys618Lys 0.323
V:18275097 (T / C) LOW synonymous_variant p.Leu365Leu 0.263
V:18275106 (T / C) LOW synonymous_variant p.Gly362Gly 0.263
V:18275082 (T / G) LOW synonymous_variant p.Thr370Thr 0.223
V:18274170 (T / G) LOW synonymous_variant p.Thr546Thr 0.083
Max -log10(p-value) = 0.985
8 variant(s)
Y51A2B.2
WBGene00013066 -- protein_coding
V:18376657 (C / A,T) MODERATE missense_variant p.Leu305Ile 0.985
V:18375418 (G / A,T) LOW synonymous_variant p.Thr70Thr 0.946
V:18376045 (T / C) MODERATE missense_variant p.Tyr196His 0.421
V:18376667 (A / G) MODERATE missense_variant p.Lys308Arg 0.307
V:18376745 (C / T) MODERATE missense_variant p.Ala334Val 0.301
V:18375568 (T / C) LOW synonymous_variant p.Tyr102Tyr 0.216
V:18374905 (T / C) LOW synonymous_variant p.Tyr51Tyr 0.083
V:18376057 (A / G) MODERATE missense_variant p.Ile200Val 0.08
Max -log10(p-value) = 0.976
3 variant(s)
C08E8.6
WBGene00007442 -- protein_coding
V:18368079 (C / G) MODERATE missense_variant p.Asp74His 0.976
V:18368050 (G / A) LOW synonymous_variant p.Ser83Ser 0.976
V:18368396 (C / T) LOW synonymous_variant p.Glu9Glu 0.437
Max -log10(p-value) = 0.949
16 variant(s)
Y51A2B.6
WBGene00013070 -- protein_coding
V:18392008 (T / C) HIGH stop_lost&splice_region_variant p.Ter735Trpext*? 0.949
V:18392208 (T / C) LOW synonymous_variant p.Leu668Leu 0.505
V:18392273 (C / A) MODERATE missense_variant p.Val647Phe 0.489
V:18394231 (C / A) MODERATE missense_variant&splice_region_variant p.Ala25Ser 0.448
V:18394008 (A / G) LOW synonymous_variant p.Ala68Ala 0.37
V:18393638 (T / C) MODERATE missense_variant p.Asn192Asp 0.358
V:18392268 (C / T) LOW synonymous_variant p.Ser648Ser 0.334
V:18394287 (G / C) HIGH stop_gained p.Ser6* 0.258
V:18392872 (A / T) MODERATE missense_variant p.Val447Glu 0.257
V:18392256 (A / T) LOW synonymous_variant p.Gly652Gly 0.219
V:18394262 (G / A) LOW synonymous_variant p.His14His 0.145
V:18393908 (C / T) MODERATE missense_variant p.Val102Ile 0.122
V:18393377 (A / G) MODERATE missense_variant p.Ser279Pro 0.103
V:18393422 (T / C) MODERATE missense_variant p.Lys264Glu 0.103
V:18392458 (G / C) MODERATE missense_variant p.Ser585Cys 0.1
V:18392679 (G / A) LOW synonymous_variant p.His511His 0.089
Max -log10(p-value) = 0.92
5 variant(s)
ZK228.4
WBGene00013947 -- protein_coding
V:18463630 (G / A) MODERATE missense_variant p.Asp106Asn 0.92
V:18462976 (A / G) LOW splice_region_variant&intron_variant nan 0.619
V:18465258 (T / A) MODERATE missense_variant p.Phe290Ile 0.561
V:18462905 (G / T) HIGH start_lost p.Met1? 0.194
V:18463637 (C / A) MODERATE missense_variant p.Thr108Asn 0.126
Max -log10(p-value) = 0.902
6 variant(s)
C08E8.11
WBGene00119201 -- protein_coding
V:18352500 (T / G) LOW splice_region_variant&intron_variant nan 0.902
V:18352384 (T / C) LOW synonymous_variant p.Cys88Cys 0.249
V:18352340 (A / T) MODERATE missense_variant p.Thr74Ser 0.21
V:18352321 (A / C) LOW synonymous_variant p.Ala67Ala 0.191
V:18352330 (T / C,A) LOW synonymous_variant p.Thr70Thr 0.181
V:18352303 (G / A) LOW synonymous_variant p.Glu61Glu 0.111
Max -log10(p-value) = 0.849
6 variant(s)
C08E8.2
WBGene00007438 -- protein_coding
V:18355715 (T / C) MODERATE missense_variant p.Lys43Arg 0.849
V:18353645 (G / A) LOW synonymous_variant p.Ser294Ser 0.69
V:18354698 (C / T) LOW synonymous_variant p.Leu256Leu 0.69
V:18355675 (A / G) LOW synonymous_variant p.Phe56Phe 0.468
V:18355826 (T / C) MODERATE missense_variant p.Lys6Arg 0.379
V:18354982 (G / A) MODERATE missense_variant p.Arg162Cys 0.367
Max -log10(p-value) = 0.837
8 variant(s)
Y51A2B.4
WBGene00013068 -- protein_coding
V:18389017 (C / G) MODERATE missense_variant p.Glu36Gln 0.837
V:18389108 (C / T,A) LOW synonymous_variant p.Ser5Ser 0.596
V:18388972 (G / C) MODERATE missense_variant p.Gln51Glu 0.573
V:18389093 (T / C,A) LOW synonymous_variant p.Leu10Leu 0.492
V:18387917 (G / A) LOW synonymous_variant p.Ser173Ser 0.252
V:18388883 (C / A,T) LOW synonymous_variant p.Pro63Pro 0.197
V:18386561 (T / C) MODERATE missense_variant p.Thr268Ala 0.196
V:18386580 (A / G) LOW synonymous_variant p.Tyr261Tyr 0.162
Max -log10(p-value) = 0.836
11 variant(s)
B0462.5
WBGene00194695 -- protein_coding
V:18323223 (A / G) LOW splice_region_variant&synonymous_variant p.Ile14Ile 0.836
V:18322719 (C / T) MODERATE missense_variant p.Gly87Glu 0.815
V:18322815 (C / T) MODERATE missense_variant p.Arg55Gln 0.806
V:18322529 (G / A) LOW synonymous_variant p.His150His 0.794
V:18323185 (T / C) MODERATE missense_variant p.Asp27Gly 0.645
V:18322720 (C / T) MODERATE missense_variant p.Gly87Arg 0.631
V:18322675 (A / T) MODERATE missense_variant p.Tyr102Asn 0.631
V:18322561 (G / A) MODERATE missense_variant p.Pro140Ser 0.62
V:18322729 (T / G) MODERATE missense_variant p.Lys84Gln 0.568
V:18322475 (A / C) MODERATE missense_variant p.Ile168Met 0.552
V:18323224 (C / A) HIGH splice_acceptor_variant&intron_variant nan 0.226
Max -log10(p-value) = 0.836
8 variant(s)
nhr-288
WBGene00013067 -- protein_coding
V:18382650 (C / T) HIGH stop_gained p.Trp14* 0.836
V:18382199 (G / T) LOW synonymous_variant p.Ala74Ala 0.713
V:18381017 (C / T) LOW synonymous_variant p.Glu172Glu 0.504
V:18382592 (T / G) LOW synonymous_variant p.Ile33Ile 0.436
V:18381003 (T / G) MODERATE missense_variant p.Glu177Ala 0.352
V:18381004 (C / T) MODERATE missense_variant p.Glu177Lys 0.292
V:18382038 (C / T) MODERATE missense_variant p.Asp112Asn 0.213
V:18382154 (A / G) LOW splice_region_variant&intron_variant nan 0.155
Max -log10(p-value) = 0.832
2 variant(s)
Y51A2D.7
WBGene00013075 -- protein_coding
V:18533974 (A / C) MODERATE missense_variant p.Lys4Asn 0.832
V:18534552 (T / C) LOW synonymous_variant p.Asp129Asp 0.447
Max -log10(p-value) = 0.827
9 variant(s)
srh-207
WBGene00005417 -- protein_coding
V:18409919 (A / G) LOW synonymous_variant p.Cys108Cys 0.827
V:18409909 (A / G) LOW splice_region_variant&intron_variant nan 0.792
V:18409749 (T / C) LOW synonymous_variant p.Gln147Gln 0.665
V:18409766 (A / T) MODERATE missense_variant p.Leu142Met 0.546
V:18409758 (T / C) LOW synonymous_variant p.Leu144Leu 0.546
V:18409761 (A / G) LOW synonymous_variant p.Phe143Phe 0.546
V:18409737 (G / A) LOW synonymous_variant p.Tyr151Tyr 0.522
V:18410090 (A / G) LOW synonymous_variant p.Val51Val 0.359
V:18410172 (A / G) MODERATE missense_variant p.Ile24Thr 0.078
Max -log10(p-value) = 0.793
5 variant(s)
Y51A2B.5
WBGene00013069 -- protein_coding
V:18390395 (C / T) MODERATE missense_variant p.Ser59Phe 0.793
V:18391238 (T / C,A) MODERATE missense_variant p.Asn176Lys 0.51
V:18389306 (G / T) LOW synonymous_variant p.Leu9Leu 0.185
V:18390592 (A / G) MODERATE missense_variant p.Ile125Val 0.159
V:18389402 (G / T) MODERATE missense_variant&splice_region_variant p.Leu41Phe 0.133
Max -log10(p-value) = 0.791
1 variant(s)
Y51A2B.8
WBGene00013071 -- protein_coding
V:18379250 (G / A) LOW synonymous_variant p.Lys44Lys 0.791
Max -log10(p-value) = 0.783
6 variant(s)
ZK228.3
WBGene00013946 -- protein_coding
V:18458984 (G / A) MODERATE missense_variant p.Ala237Val 0.783
V:18458951 (C / A) MODERATE missense_variant p.Ser248Ile 0.47
V:18459878 (A / G) LOW synonymous_variant p.Asp191Asp 0.455
V:18458896 (A / C) LOW splice_region_variant&intron_variant nan 0.443
V:18460223 (T / A) MODERATE missense_variant p.Tyr155Phe 0.253
V:18459090 (T / A) MODERATE missense_variant p.Asn202Tyr 0.182
Max -log10(p-value) = 0.762
18 variant(s)
ZK228.1
WBGene00013944 -- protein_coding
V:18446934 (A / G) MODERATE missense_variant p.Asp727Gly 0.762
V:18444600 (G / T) MODERATE missense_variant p.Arg61Ser 0.75
V:18445112 (G / C) MODERATE missense_variant p.Arg232Thr 0.699
V:18445519 (A / T) MODERATE missense_variant p.Asn354Tyr 0.699
V:18446010 (A / G) LOW synonymous_variant p.Lys436Lys 0.686
V:18446073 (G / A) LOW synonymous_variant p.Val457Val 0.527
V:18444974 (C / T) MODERATE missense_variant p.Thr186Ile 0.456
V:18446378 (G / T) MODERATE missense_variant p.Arg559Leu 0.434
V:18444936 (A / G) LOW synonymous_variant p.Ala173Ala 0.407
V:18444962 (T / C) MODERATE missense_variant p.Phe182Ser 0.351
V:18444986 (G / A) MODERATE missense_variant p.Gly190Glu 0.351
V:18444515 (G / T) MODERATE missense_variant p.Cys33Phe 0.331
V:18446817 (G / A) MODERATE missense_variant p.Cys688Tyr 0.318
V:18445654 (C / G) MODERATE missense_variant p.His399Asp 0.285
V:18444744 (C / T) LOW synonymous_variant p.Asn109Asn 0.259
V:18446733 (A / T) MODERATE missense_variant p.Tyr660Phe 0.187
V:18446831 (G / T) MODERATE missense_variant p.Ala693Ser 0.168
V:18446390 (T / C) MODERATE missense_variant p.Val563Ala 0.142
Max -log10(p-value) = 0.762
7 variant(s)
ZK262.9
WBGene00013954 -- protein_coding
V:18440913 (C / T) MODERATE missense_variant p.Ser90Leu 0.762
V:18440979 (C / T) MODERATE missense_variant p.Pro112Leu 0.427
V:18441115 (G / A) LOW synonymous_variant p.Lys157Lys 0.365
V:18440900 (T / C) MODERATE missense_variant p.Ser86Pro 0.344
V:18441247 (G / T) MODERATE missense_variant p.Gln201His 0.162
V:18440584 (C / T) MODERATE missense_variant p.Arg3Cys 0.156
V:18440964 (A / G) MODERATE missense_variant p.Tyr107Cys 0.133
Max -log10(p-value) = 0.721
3 variant(s)
Y37H2C.4
WBGene00012575 -- protein_coding
V:18271413 (T / G) MODERATE missense_variant p.Leu93Val 0.721
V:18272169 (A / T) LOW synonymous_variant p.Pro255Pro 0.522
V:18272162 (C / T) MODERATE missense_variant p.Pro253Leu 0.126
Max -log10(p-value) = 0.714
5 variant(s)
hmit-1.2
WBGene00013074 -- protein_coding
V:18528063 (G / A) LOW synonymous_variant p.Leu516Leu 0.714
V:18526272 (C / G,T) LOW synonymous_variant p.Ala245Ala 0.491
V:18527280 (C / T) LOW synonymous_variant p.Cys443Cys 0.37
V:18525437 (G / A) LOW synonymous_variant p.Leu104Leu 0.246
V:18525428 (C / A) LOW synonymous_variant p.Gly101Gly 0.124
Max -log10(p-value) = 0.714
7 variant(s)
Y51A2A.12
WBGene00077445 -- protein_coding
V:18292926 (T / A) LOW synonymous_variant p.Ile91Ile 0.714
V:18292888 (G / A) MODERATE missense_variant p.Gly79Arg 0.436
V:18292852 (G / A) MODERATE missense_variant p.Glu67Lys 0.397
V:18292924 (A / C) MODERATE missense_variant p.Ile91Leu 0.322
V:18292930 (G / A) MODERATE missense_variant p.Glu93Lys 0.322
V:18292731 (T / C) MODERATE missense_variant p.Phe44Leu 0.281
V:18292692 (A / T) MODERATE missense_variant p.Ile31Phe 0.154
Max -log10(p-value) = 0.642
2 variant(s)
Y51A2A.16
WBGene00206507 -- protein_coding
V:18280493 (G / A) LOW synonymous_variant p.Asn12Asn 0.642
V:18280468 (A / G) MODERATE missense_variant p.Cys21Arg 0.201
Max -log10(p-value) = 0.633
2 variant(s)
fbxa-117
WBGene00014907 -- pseudogene
V:18311063 (T / G) LOW splice_region_variant&non_coding_exon_variant nan 0.633
V:18311983 (T / A) LOW splice_region_variant&non_coding_exon_variant nan 0.334
Max -log10(p-value) = 0.608
2 variant(s)
C08E8.1
WBGene00007437 -- protein_coding
V:18362477 (G / A) LOW synonymous_variant p.Asp6Asp 0.608
V:18361108 (T / A,G) MODERATE missense_variant p.Lys96Ile 0.065
Max -log10(p-value) = 0.591
6 variant(s)
srw-82
WBGene00005829 -- protein_coding
V:18432711 (A / G) LOW synonymous_variant p.Leu128Leu 0.591
V:18433483 (T / C) MODERATE missense_variant p.Val240Ala 0.351
V:18434029 (T / G) MODERATE missense_variant p.Ser313Ala 0.339
V:18433431 (A / G) MODERATE missense_variant&splice_region_variant p.Ile223Val 0.267
V:18433968 (G / A) LOW synonymous_variant p.Glu292Glu 0.226
V:18433390 (T / A) LOW splice_region_variant&intron_variant nan 0.154
Max -log10(p-value) = 0.589
4 variant(s)
srh-179
WBGene00005394 -- protein_coding
V:18476410 (C / T) LOW synonymous_variant p.Ser7Ser 0.589
V:18476873 (T / A) LOW synonymous_variant p.Ala145Ala 0.585
V:18476799 (C / A) MODERATE missense_variant p.His121Asn 0.3
V:18476830 (A / G) MODERATE missense_variant p.Asn131Ser 0.199
Max -log10(p-value) = 0.556
8 variant(s)
srh-181
WBGene00005396 -- protein_coding
V:18475918 (C / T,A) LOW synonymous_variant p.Ser227Ser 0.556
V:18474688 (T / C) LOW synonymous_variant p.Leu56Leu 0.357
V:18474762 (T / G) LOW synonymous_variant p.Gly80Gly 0.238
V:18476258 (C / G) MODERATE missense_variant p.Ala323Gly 0.204
V:18474678 (G / C) LOW synonymous_variant p.Leu52Leu 0.198
V:18474758 (T / C) MODERATE missense_variant p.Leu79Ser 0.095
V:18474781 (C / T) LOW synonymous_variant p.Leu87Leu 0.075
V:18475341 (A / T) MODERATE missense_variant p.Tyr119Phe 0.061
Max -log10(p-value) = 0.514
2 variant(s)
ZK262.4
WBGene00013951 -- protein_coding
V:18424021 (G / C) MODERATE missense_variant p.Ile31Met 0.514
V:18423952 (T / C) LOW synonymous_variant p.Lys54Lys 0.491
Max -log10(p-value) = 0.512
2 variant(s)
ZK228.10
WBGene00044215 -- protein_coding
V:18456881 (T / A) MODERATE missense_variant p.Leu3His 0.512
V:18456898 (T / C) MODERATE missense_variant p.Cys9Arg 0.394
Max -log10(p-value) = 0.507
4 variant(s)
Y51A2B.9
WBGene00050907 -- protein_coding
V:18395551 (T / A) HIGH splice_acceptor_variant&intron_variant nan 0.507
V:18395496 (A / C) MODERATE missense_variant p.Ser51Ala 0.371
V:18395540 (A / T) MODERATE missense_variant p.Phe36Tyr 0.36
V:18395502 (C / T) MODERATE missense_variant p.Asp49Asn 0.068
Max -log10(p-value) = 0.502
5 variant(s)
srh-209
WBGene00005419 -- protein_coding
V:18404139 (C / T) MODERATE missense_variant p.Met200Ile 0.502
V:18403757 (A / T) MODERATE missense_variant p.Ser328Thr 0.227
V:18403923 (C / A) LOW synonymous_variant p.Val272Val 0.209
V:18403748 (A / G) MODERATE missense_variant p.Ser331Pro 0.156
V:18404480 (G / A) LOW splice_region_variant&intron_variant nan 0.079
Max -log10(p-value) = 0.484
6 variant(s)
srh-178
WBGene00005393 -- protein_coding
V:18478979 (G / A) MODERATE missense_variant p.His184Tyr 0.484
V:18480184 (C / T) MODERATE missense_variant p.Val50Ile 0.196
V:18480179 (C / T) LOW synonymous_variant p.Lys51Lys 0.193
V:18478577 (T / C) MODERATE missense_variant p.Met295Val 0.184
V:18478846 (A / G) MODERATE missense_variant p.Val228Ala 0.159
V:18478809 (A / T) MODERATE missense_variant p.His240Gln 0.152
Max -log10(p-value) = 0.484
5 variant(s)
srw-83
WBGene00005830 -- protein_coding
V:18430303 (T / C) LOW synonymous_variant p.Val259Val 0.484
V:18426649 (C / A) MODERATE missense_variant p.Leu24Ile 0.391
V:18430419 (T / G) MODERATE missense_variant p.Phe298Cys 0.34
V:18427445 (A / T) MODERATE missense_variant p.Asn192Tyr 0.079
V:18430527 (C / T) MODERATE missense_variant p.Ser334Leu 0.064
Max -log10(p-value) = 0.463
4 variant(s)
Y51A2D.1
WBGene00013072 -- protein_coding
V:18509080 (G / A) MODERATE missense_variant p.Ser52Asn 0.463
V:18511755 (A / G) MODERATE missense_variant p.Lys193Arg 0.398
V:18512312 (A / G) LOW splice_region_variant&intron_variant nan 0.269
V:18510434 (A / G) LOW synonymous_variant p.Leu179Leu 0.266
Max -log10(p-value) = 0.451
2 variant(s)
C08E8.4
WBGene00007440 -- protein_coding
V:18373374 (T / C) LOW synonymous_variant p.Asp176Asp 0.451
V:18372020 (T / G) LOW 5_prime_UTR_premature_start_codon_gain_variant nan 0.241
Max -log10(p-value) = 0.39
3 variant(s)
fbxb-119
WBGene00007182 -- protein_coding
V:18319090 (A / T) MODERATE missense_variant p.Ile110Phe 0.39
V:18319559 (G / A) MODERATE missense_variant p.Glu249Lys 0.178
V:18319368 (C / T) MODERATE missense_variant p.Ser185Leu 0.098
Max -log10(p-value) = 0.369
2 variant(s)
ZK262.2
WBGene00013949 -- protein_coding
V:18412060 (T / C) LOW synonymous_variant p.Lys138Lys 0.369
V:18410927 (G / T,A) LOW splice_region_variant&intron_variant nan 0.277
Max -log10(p-value) = 0.365
4 variant(s)
ZK262.8
WBGene00013953 -- protein_coding
V:18439799 (G / A) LOW synonymous_variant p.Leu146Leu 0.365
V:18439924 (G / A,T) MODERATE missense_variant p.Gly188Glu 0.168
V:18439560 (A / G) MODERATE missense_variant p.Glu84Gly 0.14
V:18440042 (G / A) LOW synonymous_variant p.Lys227Lys 0.08
Max -log10(p-value) = 0.335
1 variant(s)
C08E8.14
WBGene00202381 -- lincRNA
V:18369634 (A / C) LOW splice_region_variant&non_coding_exon_variant nan 0.335
Max -log10(p-value) = 0.313
7 variant(s)
hmit-1.1
WBGene00013073 -- protein_coding
V:18520512 (G / C) LOW synonymous_variant p.Val342Val 0.313
V:18520182 (T / C) LOW synonymous_variant p.Tyr232Tyr 0.233
V:18519437 (G / A) LOW synonymous_variant p.Glu223Glu 0.21
V:18520689 (G / A) LOW splice_region_variant&intron_variant nan 0.201
V:18518339 (G / A) LOW synonymous_variant p.Arg94Arg 0.168
V:18517687 (T / A) LOW synonymous_variant p.Pro61Pro 0.145
V:18522519 (A / T) LOW synonymous_variant p.Gly557Gly 0.119
Max -log10(p-value) = 0.31
2 variant(s)
srj-26
WBGene00005614 -- protein_coding
V:18421158 (T / C) MODERATE missense_variant p.Ile21Thr 0.31
V:18423066 (T / A) LOW synonymous_variant p.Leu199Leu 0.213
Max -log10(p-value) = 0.308
4 variant(s)
Y51A2A.5
WBGene00013061 -- protein_coding
V:18299468 (T / G) LOW synonymous_variant p.Ala221Ala 0.308
V:18299002 (A / T) MODERATE missense_variant p.His66Leu 0.124
V:18298971 (G / T) HIGH stop_gained p.Glu56* 0.103
V:18299260 (C / T) MODERATE missense_variant p.Pro152Leu 0.075
Max -log10(p-value) = 0.301
1 variant(s)
C08E8.t3
WBGene00011470 -- protein_coding
V:18372907 (A / G) MODERATE missense_variant p.Val16Ala 0.301
Max -log10(p-value) = 0.125
1 variant(s)
srh-182
WBGene00005397 -- protein_coding
V:18472880 (A / T) MODERATE missense_variant p.Ser108Thr 0.125
Max -log10(p-value) = 0.084
1 variant(s)
C08E8.3
WBGene00007439 -- protein_coding
V:18350259 (G / T) MODERATE missense_variant p.Val38Leu 0.084

Variant Plot

Plot of correlated variants - Variants for the top 25 most correlated genes are shown in the plot above. The color indicates the predicted severity of the mutation. Green = LOW; Yellow = Moderate; Red = Severe; Gray = Modifier.

Global Distribution

Isotypes that were included in this trait mapping are opaque/solid. Translucent markers represent isotypes that were not submitted in this trait mapping.
Reference () Alternative ()

Reference

Variant

Tajima's D

Tajima's D is plotted across the most significant QTL genomic region of interest. Tajima's D suggests if a genomic region has an excess or paucity of rare variation. Values close to zero indicate that variation is drifting and not selected. Values less than zero suggest that rare variants are present, which could have arose during a selective sweep, population expansion after a bottleneck, or linkage to a swept allele. Values greater than zero suggest that balancing selection could have occurred or recent population contractions.




1.2.9