Strain Fitness in Pseudomonas putida KT2440 around PP_1421

Experiment: Growth at pH7 and (C) Trisodium citrate

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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.

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500 ntPP_1419 and PP_1420 are separated by 200 nucleotidesPP_1420 and PP_1421 overlap by 20 nucleotidesPP_1421 and PP_1422 are separated by 65 nucleotidesPP_1422 and PP_1423 are separated by 49 nucleotides PP_1419: PP_1419 - tricarboxylate-specific outer membrane porin, at 1,618,945 to 1,620,234 _1419 PP_1420: PP_1420 - Transcriptional regulatory protein tctD, at 1,620,435 to 1,621,106 _1420 PP_1421: PP_1421 - putative Sensor histidine kinase TctE, at 1,621,087 to 1,622,478 _1421 PP_1422: PP_1422 - conserved protein of unknown function, at 1,622,544 to 1,623,356 _1422 PP_1423: PP_1423 - conserved protein of unknown function, at 1,623,406 to 1,624,347 _1423 Position (kb) 1621 1622 1623Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 1620.190 kb on - strandat 1620.261 kb on - strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.394 kb on + strandat 1620.445 kb on + strandat 1620.446 kb on - strandat 1620.446 kb on - strandat 1620.514 kb on + strand, within PP_1420at 1620.514 kb on + strand, within PP_1420at 1620.514 kb on + strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.568 kb on - strand, within PP_1420at 1620.619 kb on + strand, within PP_1420at 1620.619 kb on + strand, within PP_1420at 1620.620 kb on - strand, within PP_1420at 1620.662 kb on + strand, within PP_1420at 1620.663 kb on - strand, within PP_1420at 1620.663 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.835 kb on - strand, within PP_1420at 1621.011 kb on + strand, within PP_1420at 1621.137 kb on + strandat 1621.182 kb on + strandat 1621.183 kb on - strandat 1621.223 kb on - strandat 1621.223 kb on - strandat 1621.306 kb on + strand, within PP_1421at 1621.307 kb on - strand, within PP_1421at 1621.307 kb on - strand, within PP_1421at 1621.330 kb on + strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.351 kb on + strand, within PP_1421at 1621.351 kb on + strand, within PP_1421at 1621.352 kb on - strand, within PP_1421at 1621.355 kb on - strand, within PP_1421at 1621.463 kb on - strand, within PP_1421at 1621.463 kb on - strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.475 kb on - strand, within PP_1421at 1622.226 kb on + strand, within PP_1421at 1622.226 kb on + strand, within PP_1421at 1622.227 kb on - strand, within PP_1421at 1622.301 kb on + strand, within PP_1421at 1622.341 kb on + strandat 1622.341 kb on + strandat 1622.467 kb on - strandat 1622.539 kb on - strandat 1622.696 kb on - strand, within PP_1422at 1622.821 kb on + strand, within PP_1422at 1622.821 kb on + strand, within PP_1422at 1622.821 kb on + strand, within PP_1422at 1622.822 kb on - strand, within PP_1422at 1622.869 kb on + strand, within PP_1422at 1622.869 kb on + strand, within PP_1422at 1622.869 kb on + strand, within PP_1422at 1622.869 kb on + strand, within PP_1422at 1622.869 kb on + strand, within PP_1422at 1622.870 kb on - strand, within PP_1422at 1622.877 kb on + strand, within PP_1422at 1623.082 kb on + strand, within PP_1422at 1623.220 kb on - strand, within PP_1422at 1623.360 kb on + strandat 1623.360 kb on + strandat 1623.441 kb on - strandat 1623.441 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH7 and (C) Trisodium citrate
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1,620,190 - -1.8
1,620,261 - +1.7
1,620,318 + -3.4
1,620,318 + -2.6
1,620,318 + -3.1
1,620,318 + -4.0
1,620,394 + +1.5
1,620,445 + -3.8
1,620,446 - -3.6
1,620,446 - -3.7
1,620,514 + PP_1420 0.12 -3.3
1,620,514 + PP_1420 0.12 -3.2
1,620,514 + PP_1420 0.12 -3.4
1,620,515 - PP_1420 0.12 -3.4
1,620,515 - PP_1420 0.12 -3.9
1,620,515 - PP_1420 0.12 -1.5
1,620,567 + PP_1420 0.20 -3.2
1,620,567 + PP_1420 0.20 -4.7
1,620,567 + PP_1420 0.20 -2.0
1,620,568 - PP_1420 0.20 -3.4
1,620,619 + PP_1420 0.27 -3.7
1,620,619 + PP_1420 0.27 -3.2
1,620,620 - PP_1420 0.28 -1.0
1,620,662 + PP_1420 0.34 -4.0
1,620,663 - PP_1420 0.34 -4.0
1,620,663 - PP_1420 0.34 -3.3
1,620,782 - PP_1420 0.52 -4.0
1,620,782 - PP_1420 0.52 -2.4
1,620,782 - PP_1420 0.52 -2.4
1,620,834 + PP_1420 0.59 -3.7
1,620,834 + PP_1420 0.59 -1.5
1,620,834 + PP_1420 0.59 -3.9
1,620,835 - PP_1420 0.60 -3.2
1,621,011 + PP_1420 0.86 +0.7
1,621,137 + -2.5
1,621,182 + -2.9
1,621,183 - -2.8
1,621,223 - -0.7
1,621,223 - -0.3
1,621,306 + PP_1421 0.16 -3.4
1,621,307 - PP_1421 0.16 -3.8
1,621,307 - PP_1421 0.16 -1.1
1,621,330 + PP_1421 0.17 -4.3
1,621,331 - PP_1421 0.18 -3.6
1,621,331 - PP_1421 0.18 -3.7
1,621,331 - PP_1421 0.18 -3.7
1,621,351 + PP_1421 0.19 -3.4
1,621,351 + PP_1421 0.19 -3.9
1,621,352 - PP_1421 0.19 -2.1
1,621,355 - PP_1421 0.19 -4.0
1,621,463 - PP_1421 0.27 -2.7
1,621,463 - PP_1421 0.27 -2.0
1,621,474 + PP_1421 0.28 -3.5
1,621,474 + PP_1421 0.28 -2.9
1,621,474 + PP_1421 0.28 -3.5
1,621,474 + PP_1421 0.28 -3.2
1,621,475 - PP_1421 0.28 -3.3
1,622,226 + PP_1421 0.82 -4.9
1,622,226 + PP_1421 0.82 -3.0
1,622,227 - PP_1421 0.82 -3.6
1,622,301 + PP_1421 0.87 -3.0
1,622,341 + -0.9
1,622,341 + -2.4
1,622,467 - -4.0
1,622,539 - -2.9
1,622,696 - PP_1422 0.19 +0.1
1,622,821 + PP_1422 0.34 -2.3
1,622,821 + PP_1422 0.34 +0.8
1,622,821 + PP_1422 0.34 +0.7
1,622,822 - PP_1422 0.34 +1.6
1,622,869 + PP_1422 0.40 +1.2
1,622,869 + PP_1422 0.40 -0.4
1,622,869 + PP_1422 0.40 -3.1
1,622,869 + PP_1422 0.40 +0.3
1,622,869 + PP_1422 0.40 +1.4
1,622,870 - PP_1422 0.40 -3.0
1,622,877 + PP_1422 0.41 +0.9
1,623,082 + PP_1422 0.66 +2.0
1,623,220 - PP_1422 0.83 -3.2
1,623,360 + +2.1
1,623,360 + +0.3
1,623,441 - -1.4
1,623,441 - +1.1

Or see this region's nucleotide sequence