Strain Fitness in Pseudomonas simiae WCS417 around PS417_23655

Experiment: Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days

Add experiment(s):

Zoom: Pan:

Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

download SVG
500 ntPS417_23650 and PS417_23655 are separated by 144 nucleotidesPS417_23655 and PS417_23660 are separated by 104 nucleotides PS417_23650: PS417_23650 - Kynureninase (EC 3.7.1.3) (from data), at 5,114,613 to 5,115,863 _23650 PS417_23655: PS417_23655 - AsnC family transcriptional regulator, at 5,116,008 to 5,116,481 _23655 PS417_23660: PS417_23660 - Catechol 1,2-dioxygenase (EC 1.13.11.1) (from data), at 5,116,586 to 5,117,515 _23660 Position (kb) 5116 5117Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 5115.032 kb on - strandat 5115.058 kb on + strand, within PS417_23650at 5115.059 kb on - strandat 5115.181 kb on + strand, within PS417_23650at 5115.181 kb on + strand, within PS417_23650at 5115.182 kb on - strand, within PS417_23650at 5115.188 kb on - strand, within PS417_23650at 5115.319 kb on + strand, within PS417_23650at 5115.319 kb on + strand, within PS417_23650at 5115.319 kb on + strand, within PS417_23650at 5115.319 kb on + strand, within PS417_23650at 5115.325 kb on + strand, within PS417_23650at 5115.326 kb on - strand, within PS417_23650at 5115.326 kb on - strandat 5115.463 kb on + strand, within PS417_23650at 5115.464 kb on - strand, within PS417_23650at 5115.570 kb on - strand, within PS417_23650at 5115.678 kb on - strand, within PS417_23650at 5115.772 kb on + strandat 5115.773 kb on - strandat 5115.886 kb on + strandat 5115.956 kb on - strandat 5116.003 kb on + strandat 5116.299 kb on + strand, within PS417_23655at 5116.300 kb on - strand, within PS417_23655at 5116.323 kb on + strand, within PS417_23655at 5116.323 kb on + strand, within PS417_23655at 5116.323 kb on + strand, within PS417_23655at 5116.323 kb on + strand, within PS417_23655at 5116.323 kb on + strand, within PS417_23655at 5116.324 kb on - strand, within PS417_23655at 5116.324 kb on - strand, within PS417_23655at 5116.324 kb on - strand, within PS417_23655at 5116.410 kb on - strand, within PS417_23655at 5116.411 kb on + strand, within PS417_23655at 5116.411 kb on + strand, within PS417_23655at 5116.411 kb on + strand, within PS417_23655at 5116.411 kb on + strand, within PS417_23655at 5116.412 kb on - strand, within PS417_23655at 5116.528 kb on + strandat 5116.529 kb on - strandat 5116.587 kb on + strandat 5117.029 kb on - strand, within PS417_23660at 5117.029 kb on - strand, within PS417_23660at 5117.029 kb on - strand, within PS417_23660at 5117.032 kb on + strand, within PS417_23660at 5117.187 kb on + strand, within PS417_23660at 5117.187 kb on + strand, within PS417_23660at 5117.187 kb on + strand, within PS417_23660at 5117.188 kb on - strand, within PS417_23660at 5117.188 kb on - strand, within PS417_23660at 5117.188 kb on - strand, within PS417_23660at 5117.188 kb on - strand, within PS417_23660at 5117.268 kb on + strand, within PS417_23660at 5117.269 kb on - strand, within PS417_23660at 5117.322 kb on - strand, within PS417_23660at 5117.334 kb on + strandat 5117.335 kb on - strand, within PS417_23660at 5117.335 kb on - strand, within PS417_23660at 5117.335 kb on - strand, within PS417_23660at 5117.335 kb on - strand, within PS417_23660

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
remove
5,115,032 - +1.4
5,115,058 + PS417_23650 0.36 -0.6
5,115,059 - +2.0
5,115,181 + PS417_23650 0.45 -0.2
5,115,181 + PS417_23650 0.45 -0.0
5,115,182 - PS417_23650 0.45 +0.6
5,115,188 - PS417_23650 0.46 +0.4
5,115,319 + PS417_23650 0.56 +0.8
5,115,319 + PS417_23650 0.56 +1.3
5,115,319 + PS417_23650 0.56 +1.0
5,115,319 + PS417_23650 0.56 -2.7
5,115,325 + PS417_23650 0.57 -1.3
5,115,326 - PS417_23650 0.57 -0.2
5,115,326 - +1.6
5,115,463 + PS417_23650 0.68 +0.7
5,115,464 - PS417_23650 0.68 -0.1
5,115,570 - PS417_23650 0.76 -0.5
5,115,678 - PS417_23650 0.85 -0.5
5,115,772 + -0.2
5,115,773 - +0.7
5,115,886 + -1.0
5,115,956 - -0.6
5,116,003 + -0.6
5,116,299 + PS417_23655 0.61 -1.2
5,116,300 - PS417_23655 0.62 +0.1
5,116,323 + PS417_23655 0.66 +1.0
5,116,323 + PS417_23655 0.66 -0.9
5,116,323 + PS417_23655 0.66 -0.3
5,116,323 + PS417_23655 0.66 +0.6
5,116,323 + PS417_23655 0.66 -1.2
5,116,324 - PS417_23655 0.67 -0.7
5,116,324 - PS417_23655 0.67 +0.4
5,116,324 - PS417_23655 0.67 +0.4
5,116,410 - PS417_23655 0.85 -0.5
5,116,411 + PS417_23655 0.85 -0.9
5,116,411 + PS417_23655 0.85 -0.7
5,116,411 + PS417_23655 0.85 -0.4
5,116,411 + PS417_23655 0.85 -0.9
5,116,412 - PS417_23655 0.85 -0.6
5,116,528 + +0.7
5,116,529 - -0.6
5,116,587 + -0.2
5,117,029 - PS417_23660 0.48 -0.0
5,117,029 - PS417_23660 0.48 +0.1
5,117,029 - PS417_23660 0.48 -0.2
5,117,032 + PS417_23660 0.48 -1.1
5,117,187 + PS417_23660 0.65 +0.9
5,117,187 + PS417_23660 0.65 -0.7
5,117,187 + PS417_23660 0.65 +0.6
5,117,188 - PS417_23660 0.65 +1.5
5,117,188 - PS417_23660 0.65 +0.8
5,117,188 - PS417_23660 0.65 -0.2
5,117,188 - PS417_23660 0.65 -1.9
5,117,268 + PS417_23660 0.73 -0.5
5,117,269 - PS417_23660 0.73 +0.4
5,117,322 - PS417_23660 0.79 -0.6
5,117,334 + +2.0
5,117,335 - PS417_23660 0.81 -0.1
5,117,335 - PS417_23660 0.81 +0.4
5,117,335 - PS417_23660 0.81 -3.1
5,117,335 - PS417_23660 0.81 +0.4

Or see this region's nucleotide sequence