Strain Fitness in Pseudomonas putida KT2440 around PP_0970

Experiment: Temperature shift 30_to_25

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 ntPP_0968 and PP_0969 are separated by 82 nucleotidesPP_0969 and PP_0970 overlap by 11 nucleotidesPP_0970 and PP_0971 are separated by 109 nucleotidesPP_0971 and PP_0972 are separated by 16 nucleotidesPP_0972 and PP_0973 overlap by 53 nucleotides PP_0968: PP_0968 - conserved protein of unknown function, at 1,108,011 to 1,109,252 _0968 PP_0969: PP_0969 - Transcriptional regulator, GntR family, at 1,109,335 to 1,109,985 _0969 PP_0970: PP_0970 - Cyanate MFS transporter, at 1,109,975 to 1,111,279 _0970 PP_0971: PP_0971 - conserved protein of unknown function, at 1,111,389 to 1,111,865 _0971 PP_0972: PP_0972 - UPF0213 protein PP_0972, at 1,111,882 to 1,112,199 _0972 PP_0973: PP_0973 - Nucleoid-associated protein PP_0973, at 1,112,147 to 1,113,154 _0973 Position (kb) 1109 1110 1111 1112Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1108.994 kb on + strand, within PP_0968at 1108.994 kb on + strand, within PP_0968at 1109.015 kb on - strand, within PP_0968at 1109.015 kb on - strand, within PP_0968at 1109.015 kb on - strand, within PP_0968at 1109.026 kb on + strand, within PP_0968at 1109.071 kb on + strand, within PP_0968at 1109.072 kb on - strand, within PP_0968at 1109.072 kb on - strand, within PP_0968at 1109.172 kb on + strandat 1109.263 kb on + strandat 1109.263 kb on + strandat 1109.264 kb on - strandat 1109.264 kb on - strandat 1109.264 kb on - strandat 1109.275 kb on + strandat 1109.275 kb on + strandat 1109.275 kb on + strandat 1109.297 kb on + strandat 1109.340 kb on + strandat 1109.340 kb on + strandat 1109.341 kb on - strandat 1109.548 kb on + strand, within PP_0969at 1109.548 kb on + strand, within PP_0969at 1109.602 kb on - strand, within PP_0969at 1109.749 kb on + strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.750 kb on - strand, within PP_0969at 1109.811 kb on - strand, within PP_0969at 1109.865 kb on + strand, within PP_0969at 1109.865 kb on + strand, within PP_0969at 1109.866 kb on - strand, within PP_0969at 1109.866 kb on - strand, within PP_0969at 1109.866 kb on - strand, within PP_0969at 1109.866 kb on - strand, within PP_0969at 1110.201 kb on + strand, within PP_0970at 1110.201 kb on + strand, within PP_0970at 1110.201 kb on + strand, within PP_0970at 1110.366 kb on + strand, within PP_0970at 1110.367 kb on - strand, within PP_0970at 1110.367 kb on - strand, within PP_0970at 1110.373 kb on + strand, within PP_0970at 1110.373 kb on + strand, within PP_0970at 1110.374 kb on - strand, within PP_0970at 1110.374 kb on - strand, within PP_0970at 1110.441 kb on + strand, within PP_0970at 1110.441 kb on + strand, within PP_0970at 1110.442 kb on - strand, within PP_0970at 1110.442 kb on - strand, within PP_0970at 1110.442 kb on - strand, within PP_0970at 1110.447 kb on + strand, within PP_0970at 1110.501 kb on + strand, within PP_0970at 1110.501 kb on + strand, within PP_0970at 1110.502 kb on - strand, within PP_0970at 1110.502 kb on - strand, within PP_0970at 1110.502 kb on - strand, within PP_0970at 1110.503 kb on + strand, within PP_0970at 1110.503 kb on + strand, within PP_0970at 1110.503 kb on + strand, within PP_0970at 1110.503 kb on + strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.504 kb on - strand, within PP_0970at 1110.517 kb on - strand, within PP_0970at 1110.552 kb on + strand, within PP_0970at 1110.552 kb on + strand, within PP_0970at 1110.731 kb on + strand, within PP_0970at 1110.731 kb on + strand, within PP_0970at 1110.731 kb on + strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.732 kb on - strand, within PP_0970at 1110.734 kb on - strand, within PP_0970at 1110.734 kb on - strand, within PP_0970at 1110.758 kb on + strand, within PP_0970at 1110.758 kb on + strandat 1110.759 kb on - strand, within PP_0970at 1110.759 kb on - strand, within PP_0970at 1110.963 kb on - strand, within PP_0970at 1110.963 kb on - strand, within PP_0970at 1111.113 kb on - strand, within PP_0970at 1111.114 kb on + strand, within PP_0970at 1111.115 kb on - strand, within PP_0970at 1111.290 kb on - strandat 1111.350 kb on + strandat 1111.351 kb on - strandat 1111.370 kb on + strandat 1111.371 kb on - strandat 1111.371 kb on - strandat 1111.425 kb on + strandat 1111.425 kb on + strandat 1111.426 kb on - strandat 1111.535 kb on + strand, within PP_0971at 1111.535 kb on + strand, within PP_0971at 1111.536 kb on - strand, within PP_0971at 1111.631 kb on + strand, within PP_0971at 1111.631 kb on + strand, within PP_0971at 1111.632 kb on - strand, within PP_0971at 1111.632 kb on - strand, within PP_0971at 1111.632 kb on - strand, within PP_0971at 1111.635 kb on + strand, within PP_0971at 1111.635 kb on + strand, within PP_0971at 1111.635 kb on + strand, within PP_0971at 1111.636 kb on - strand, within PP_0971at 1111.636 kb on - strand, within PP_0971at 1111.636 kb on - strand, within PP_0971at 1111.636 kb on - strand, within PP_0971at 1111.888 kb on - strandat 1111.903 kb on + strandat 1112.000 kb on - strand, within PP_0972at 1112.032 kb on + strand, within PP_0972at 1112.033 kb on - strand, within PP_0972at 1112.033 kb on - strand, within PP_0972at 1112.033 kb on - strand, within PP_0972at 1112.033 kb on - strand, within PP_0972at 1112.226 kb on + strandat 1112.226 kb on + strandat 1112.227 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Temperature shift 30_to_25
remove
1,108,994 + PP_0968 0.79 -1.1
1,108,994 + PP_0968 0.79 +0.9
1,109,015 - PP_0968 0.81 -0.4
1,109,015 - PP_0968 0.81 -1.7
1,109,015 - PP_0968 0.81 -0.1
1,109,026 + PP_0968 0.82 +0.7
1,109,071 + PP_0968 0.85 -0.8
1,109,072 - PP_0968 0.85 +0.9
1,109,072 - PP_0968 0.85 -3.1
1,109,172 + +0.6
1,109,263 + -0.2
1,109,263 + -0.4
1,109,264 - +1.0
1,109,264 - -3.7
1,109,264 - -1.2
1,109,275 + -0.3
1,109,275 + +0.6
1,109,275 + -0.7
1,109,297 + +0.5
1,109,340 + +0.1
1,109,340 + +1.0
1,109,341 - +0.8
1,109,548 + PP_0969 0.33 -0.1
1,109,548 + PP_0969 0.33 +0.5
1,109,602 - PP_0969 0.41 -0.1
1,109,749 + PP_0969 0.64 +1.2
1,109,750 - PP_0969 0.64 -0.2
1,109,750 - PP_0969 0.64 -0.3
1,109,750 - PP_0969 0.64 +1.2
1,109,750 - PP_0969 0.64 +1.1
1,109,750 - PP_0969 0.64 +0.0
1,109,750 - PP_0969 0.64 -0.5
1,109,811 - PP_0969 0.73 -0.3
1,109,865 + PP_0969 0.81 -0.3
1,109,865 + PP_0969 0.81 +0.5
1,109,866 - PP_0969 0.82 +0.8
1,109,866 - PP_0969 0.82 -0.1
1,109,866 - PP_0969 0.82 +1.4
1,109,866 - PP_0969 0.82 +0.3
1,110,201 + PP_0970 0.17 -2.7
1,110,201 + PP_0970 0.17 +0.2
1,110,201 + PP_0970 0.17 +0.7
1,110,366 + PP_0970 0.30 +0.7
1,110,367 - PP_0970 0.30 +0.2
1,110,367 - PP_0970 0.30 -1.0
1,110,373 + PP_0970 0.30 +0.4
1,110,373 + PP_0970 0.30 -0.1
1,110,374 - PP_0970 0.31 +2.1
1,110,374 - PP_0970 0.31 +0.4
1,110,441 + PP_0970 0.36 +0.9
1,110,441 + PP_0970 0.36 -2.3
1,110,442 - PP_0970 0.36 +0.2
1,110,442 - PP_0970 0.36 -2.5
1,110,442 - PP_0970 0.36 -2.2
1,110,447 + PP_0970 0.36 -0.8
1,110,501 + PP_0970 0.40 +0.9
1,110,501 + PP_0970 0.40 -0.3
1,110,502 - PP_0970 0.40 +0.7
1,110,502 - PP_0970 0.40 +0.9
1,110,502 - PP_0970 0.40 -0.3
1,110,503 + PP_0970 0.40 -0.8
1,110,503 + PP_0970 0.40 -1.2
1,110,503 + PP_0970 0.40 +0.0
1,110,503 + PP_0970 0.40 +1.1
1,110,504 - PP_0970 0.41 -0.0
1,110,504 - PP_0970 0.41 +1.0
1,110,504 - PP_0970 0.41 -0.3
1,110,504 - PP_0970 0.41 -0.1
1,110,504 - PP_0970 0.41 +1.5
1,110,504 - PP_0970 0.41 +0.3
1,110,504 - PP_0970 0.41 +0.6
1,110,517 - PP_0970 0.42 -0.1
1,110,552 + PP_0970 0.44 -0.7
1,110,552 + PP_0970 0.44 +0.1
1,110,731 + PP_0970 0.58 +1.1
1,110,731 + PP_0970 0.58 -0.6
1,110,731 + PP_0970 0.58 -0.4
1,110,732 - PP_0970 0.58 +0.4
1,110,732 - PP_0970 0.58 -3.2
1,110,732 - PP_0970 0.58 -0.7
1,110,732 - PP_0970 0.58 +0.4
1,110,732 - PP_0970 0.58 +0.1
1,110,732 - PP_0970 0.58 -0.5
1,110,732 - PP_0970 0.58 -2.1
1,110,732 - PP_0970 0.58 -0.7
1,110,734 - PP_0970 0.58 -0.3
1,110,734 - PP_0970 0.58 -0.8
1,110,758 + PP_0970 0.60 +0.5
1,110,758 + +2.0
1,110,759 - PP_0970 0.60 +0.1
1,110,759 - PP_0970 0.60 -1.5
1,110,963 - PP_0970 0.76 +1.0
1,110,963 - PP_0970 0.76 +0.5
1,111,113 - PP_0970 0.87 +0.4
1,111,114 + PP_0970 0.87 +0.2
1,111,115 - PP_0970 0.87 +0.1
1,111,290 - -0.5
1,111,350 + -2.2
1,111,351 - -0.1
1,111,370 + -1.7
1,111,371 - +1.9
1,111,371 - -0.6
1,111,425 + +1.1
1,111,425 + +0.1
1,111,426 - +1.1
1,111,535 + PP_0971 0.31 -1.4
1,111,535 + PP_0971 0.31 +0.6
1,111,536 - PP_0971 0.31 -1.5
1,111,631 + PP_0971 0.51 -1.3
1,111,631 + PP_0971 0.51 -0.5
1,111,632 - PP_0971 0.51 -0.2
1,111,632 - PP_0971 0.51 +0.5
1,111,632 - PP_0971 0.51 +0.1
1,111,635 + PP_0971 0.52 -1.4
1,111,635 + PP_0971 0.52 +0.8
1,111,635 + PP_0971 0.52 +1.2
1,111,636 - PP_0971 0.52 -0.5
1,111,636 - PP_0971 0.52 +0.3
1,111,636 - PP_0971 0.52 +1.0
1,111,636 - PP_0971 0.52 -1.1
1,111,888 - +3.4
1,111,903 + +0.1
1,112,000 - PP_0972 0.37 -0.8
1,112,032 + PP_0972 0.47 +2.0
1,112,033 - PP_0972 0.47 -0.1
1,112,033 - PP_0972 0.47 +0.9
1,112,033 - PP_0972 0.47 -0.2
1,112,033 - PP_0972 0.47 -0.6
1,112,226 + -1.8
1,112,226 + +1.0
1,112,227 - -0.1

Or see this region's nucleotide sequence