Strain Fitness in Pseudomonas putida KT2440 around PP_3539

Experiment: Growth at pH9 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_3538 and PP_3539 are separated by 75 nucleotidesPP_3539 and PP_3540 are separated by 19 nucleotides PP_3538: PP_3538 - transcriptional regulator, at 4,010,793 to 4,011,671 _3538 PP_3539: PP_3539 - putative Transcriptional regulator, at 4,011,747 to 4,012,145 _3539 PP_3540: PP_3540 - Hydroxymethylglutaryl-CoA lyase, at 4,012,165 to 4,013,064 _3540 Position (kb) 4011 4012 4013Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 4010.773 kb on - strandat 4010.833 kb on - strandat 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.955 kb on + strand, within PP_3538at 4010.956 kb on - strand, within PP_3538at 4010.956 kb on - strand, within PP_3538at 4010.956 kb on - strand, within PP_3538at 4010.956 kb on - strand, within PP_3538at 4010.956 kb on - strand, within PP_3538at 4010.959 kb on + strand, within PP_3538at 4010.960 kb on - strand, within PP_3538at 4010.960 kb on - strand, within PP_3538at 4011.082 kb on - strand, within PP_3538at 4011.082 kb on - strand, within PP_3538at 4011.098 kb on + strand, within PP_3538at 4011.099 kb on - strand, within PP_3538at 4011.109 kb on + strand, within PP_3538at 4011.109 kb on + strand, within PP_3538at 4011.110 kb on - strand, within PP_3538at 4011.110 kb on - strand, within PP_3538at 4011.229 kb on - strand, within PP_3538at 4011.366 kb on + strand, within PP_3538at 4011.367 kb on - strand, within PP_3538at 4011.367 kb on - strand, within PP_3538at 4011.536 kb on + strandat 4011.536 kb on + strand, within PP_3538at 4011.536 kb on + strand, within PP_3538at 4011.536 kb on + strand, within PP_3538at 4011.537 kb on - strand, within PP_3538at 4011.537 kb on - strand, within PP_3538at 4011.540 kb on + strand, within PP_3538at 4011.670 kb on - strandat 4011.708 kb on - strandat 4011.762 kb on + strandat 4011.762 kb on + strandat 4011.762 kb on + strandat 4011.870 kb on + strand, within PP_3539at 4011.870 kb on + strand, within PP_3539at 4011.870 kb on + strand, within PP_3539at 4012.294 kb on + strand, within PP_3540at 4012.458 kb on - strand, within PP_3540at 4013.062 kb on + strandat 4013.062 kb on + strandat 4013.062 kb on + strandat 4013.062 kb on + strandat 4013.063 kb on - strandat 4013.100 kb on + strandat 4013.100 kb on + strandat 4013.101 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) Trisodium citrate
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4,010,773 - -1.5
4,010,833 - +0.9
4,010,955 + PP_3538 0.18 +0.2
4,010,955 + PP_3538 0.18 +1.3
4,010,955 + PP_3538 0.18 -2.1
4,010,955 + PP_3538 0.18 -0.2
4,010,955 + PP_3538 0.18 +0.8
4,010,955 + PP_3538 0.18 -0.3
4,010,955 + PP_3538 0.18 +0.1
4,010,955 + PP_3538 0.18 +1.0
4,010,955 + PP_3538 0.18 -0.9
4,010,955 + PP_3538 0.18 -0.6
4,010,955 + PP_3538 0.18 +0.2
4,010,956 - PP_3538 0.19 +1.0
4,010,956 - PP_3538 0.19 +1.1
4,010,956 - PP_3538 0.19 +0.0
4,010,956 - PP_3538 0.19 +0.3
4,010,956 - PP_3538 0.19 -0.8
4,010,959 + PP_3538 0.19 +0.6
4,010,960 - PP_3538 0.19 +0.8
4,010,960 - PP_3538 0.19 +0.9
4,011,082 - PP_3538 0.33 -2.2
4,011,082 - PP_3538 0.33 +0.0
4,011,098 + PP_3538 0.35 +0.6
4,011,099 - PP_3538 0.35 -2.2
4,011,109 + PP_3538 0.36 +0.9
4,011,109 + PP_3538 0.36 -3.4
4,011,110 - PP_3538 0.36 -1.3
4,011,110 - PP_3538 0.36 +0.6
4,011,229 - PP_3538 0.50 +0.4
4,011,366 + PP_3538 0.65 +0.2
4,011,367 - PP_3538 0.65 -0.4
4,011,367 - PP_3538 0.65 +1.4
4,011,536 + +0.2
4,011,536 + PP_3538 0.85 -0.3
4,011,536 + PP_3538 0.85 -1.6
4,011,536 + PP_3538 0.85 +0.1
4,011,537 - PP_3538 0.85 -0.4
4,011,537 - PP_3538 0.85 +2.1
4,011,540 + PP_3538 0.85 -1.6
4,011,670 - +0.5
4,011,708 - +1.6
4,011,762 + -0.9
4,011,762 + +1.6
4,011,762 + +0.4
4,011,870 + PP_3539 0.31 -0.0
4,011,870 + PP_3539 0.31 +1.0
4,011,870 + PP_3539 0.31 +0.8
4,012,294 + PP_3540 0.14 +2.2
4,012,458 - PP_3540 0.33 -0.4
4,013,062 + +0.6
4,013,062 + -0.3
4,013,062 + +0.8
4,013,062 + -0.3
4,013,063 - +1.3
4,013,100 + +0.7
4,013,100 + +0.2
4,013,101 - -0.9

Or see this region's nucleotide sequence