Strain Fitness in Pseudomonas putida KT2440 around PP_4980

Experiment: Growth at pH9 and (C) D-Glucose

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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_4979 and PP_4980 are separated by 218 nucleotidesPP_4980 and PP_4981 are separated by 139 nucleotidesPP_4981 and PP_4982 overlap by 4 nucleotides PP_4979: PP_4979 - putative Periplasmic binding protein, at 5,671,751 to 5,672,539 _4979 PP_4980: PP_4980 - ATP-dependent RNA helicase, at 5,672,758 to 5,674,638 _4980 PP_4981: PP_4981 - polyisoprene-binding protein, acidic stress response factor, at 5,674,778 to 5,675,392 _4981 PP_4982: PP_4982 - putative cytochrome b561, iron-regulated, at 5,675,389 to 5,675,940 _4982 Position (kb) 5672 5673 5674 5675Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 5671.759 kb on + strandat 5671.759 kb on + strandat 5671.853 kb on + strand, within PP_4979at 5671.853 kb on + strand, within PP_4979at 5671.853 kb on + strand, within PP_4979at 5671.853 kb on + strand, within PP_4979at 5671.854 kb on - strand, within PP_4979at 5671.854 kb on - strand, within PP_4979at 5671.854 kb on - strand, within PP_4979at 5671.893 kb on - strand, within PP_4979at 5671.893 kb on - strand, within PP_4979at 5672.036 kb on + strand, within PP_4979at 5672.037 kb on - strand, within PP_4979at 5672.045 kb on + strand, within PP_4979at 5672.045 kb on + strand, within PP_4979at 5672.045 kb on + strand, within PP_4979at 5672.045 kb on + strand, within PP_4979at 5672.046 kb on - strand, within PP_4979at 5672.046 kb on - strand, within PP_4979at 5672.046 kb on - strand, within PP_4979at 5672.218 kb on + strand, within PP_4979at 5672.218 kb on + strand, within PP_4979at 5672.218 kb on + strand, within PP_4979at 5672.219 kb on - strand, within PP_4979at 5672.219 kb on - strand, within PP_4979at 5672.294 kb on + strand, within PP_4979at 5672.295 kb on - strand, within PP_4979at 5672.347 kb on - strand, within PP_4979at 5672.367 kb on - strand, within PP_4979at 5672.454 kb on - strand, within PP_4979at 5672.474 kb on + strandat 5672.476 kb on + strandat 5672.476 kb on + strandat 5672.477 kb on - strandat 5672.546 kb on + strandat 5672.546 kb on + strandat 5672.549 kb on - strandat 5672.549 kb on - strandat 5672.818 kb on + strandat 5672.850 kb on + strandat 5672.851 kb on - strandat 5672.902 kb on - strandat 5672.907 kb on + strandat 5673.061 kb on + strand, within PP_4980at 5673.061 kb on + strand, within PP_4980at 5673.062 kb on - strand, within PP_4980at 5673.440 kb on + strand, within PP_4980at 5673.440 kb on + strand, within PP_4980at 5673.442 kb on + strand, within PP_4980at 5673.442 kb on + strand, within PP_4980at 5673.443 kb on - strand, within PP_4980at 5673.443 kb on - strand, within PP_4980at 5673.754 kb on + strand, within PP_4980at 5673.755 kb on - strand, within PP_4980at 5673.755 kb on - strand, within PP_4980at 5673.804 kb on + strand, within PP_4980at 5673.805 kb on - strand, within PP_4980at 5673.805 kb on - strand, within PP_4980at 5673.911 kb on + strand, within PP_4980at 5673.912 kb on - strand, within PP_4980at 5673.996 kb on + strand, within PP_4980at 5673.996 kb on + strand, within PP_4980at 5673.996 kb on + strand, within PP_4980at 5674.153 kb on - strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.237 kb on + strand, within PP_4980at 5674.639 kb on + strandat 5674.639 kb on + strandat 5674.640 kb on - strandat 5674.640 kb on - strandat 5674.645 kb on + strandat 5674.645 kb on + strandat 5674.646 kb on - strandat 5674.671 kb on - strandat 5674.779 kb on + strandat 5674.780 kb on - strandat 5674.807 kb on + strandat 5674.808 kb on - strandat 5675.050 kb on - strand, within PP_4981at 5675.203 kb on + strand, within PP_4981at 5675.221 kb on - strand, within PP_4981at 5675.373 kb on + strandat 5675.374 kb on - strandat 5675.615 kb on + strand, within PP_4982

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) D-Glucose
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5,671,759 + +0.8
5,671,759 + +1.5
5,671,853 + PP_4979 0.13 -4.0
5,671,853 + PP_4979 0.13 -0.2
5,671,853 + PP_4979 0.13 -0.8
5,671,853 + PP_4979 0.13 -0.7
5,671,854 - PP_4979 0.13 -1.9
5,671,854 - PP_4979 0.13 -2.3
5,671,854 - PP_4979 0.13 -0.9
5,671,893 - PP_4979 0.18 +0.0
5,671,893 - PP_4979 0.18 -1.7
5,672,036 + PP_4979 0.36 -0.0
5,672,037 - PP_4979 0.36 +0.3
5,672,045 + PP_4979 0.37 -1.3
5,672,045 + PP_4979 0.37 +0.4
5,672,045 + PP_4979 0.37 -0.0
5,672,045 + PP_4979 0.37 -3.4
5,672,046 - PP_4979 0.37 +0.4
5,672,046 - PP_4979 0.37 +1.1
5,672,046 - PP_4979 0.37 +0.8
5,672,218 + PP_4979 0.59 +1.1
5,672,218 + PP_4979 0.59 -0.3
5,672,218 + PP_4979 0.59 +0.9
5,672,219 - PP_4979 0.59 -0.3
5,672,219 - PP_4979 0.59 +0.1
5,672,294 + PP_4979 0.69 +0.1
5,672,295 - PP_4979 0.69 +1.0
5,672,347 - PP_4979 0.76 +1.3
5,672,367 - PP_4979 0.78 +0.6
5,672,454 - PP_4979 0.89 -2.4
5,672,474 + -0.2
5,672,476 + +0.1
5,672,476 + +0.2
5,672,477 - +0.2
5,672,546 + +0.7
5,672,546 + -0.1
5,672,549 - -1.5
5,672,549 - -0.4
5,672,818 + -1.3
5,672,850 + -2.0
5,672,851 - +0.2
5,672,902 - +1.5
5,672,907 + +1.3
5,673,061 + PP_4980 0.16 +0.5
5,673,061 + PP_4980 0.16 +2.0
5,673,062 - PP_4980 0.16 -0.3
5,673,440 + PP_4980 0.36 -1.0
5,673,440 + PP_4980 0.36 +0.6
5,673,442 + PP_4980 0.36 +0.9
5,673,442 + PP_4980 0.36 +0.5
5,673,443 - PP_4980 0.36 +1.2
5,673,443 - PP_4980 0.36 +1.4
5,673,754 + PP_4980 0.53 -0.7
5,673,755 - PP_4980 0.53 -0.1
5,673,755 - PP_4980 0.53 +1.4
5,673,804 + PP_4980 0.56 +2.0
5,673,805 - PP_4980 0.56 +0.8
5,673,805 - PP_4980 0.56 +0.5
5,673,911 + PP_4980 0.61 -3.0
5,673,912 - PP_4980 0.61 -0.8
5,673,996 + PP_4980 0.66 +0.6
5,673,996 + PP_4980 0.66 -1.6
5,673,996 + PP_4980 0.66 -2.3
5,674,153 - PP_4980 0.74 -0.6
5,674,237 + PP_4980 0.79 +1.4
5,674,237 + PP_4980 0.79 +1.4
5,674,237 + PP_4980 0.79 +1.2
5,674,237 + PP_4980 0.79 -0.4
5,674,237 + PP_4980 0.79 +0.7
5,674,237 + PP_4980 0.79 +1.7
5,674,639 + +0.0
5,674,639 + -1.0
5,674,640 - +1.2
5,674,640 - +0.2
5,674,645 + +1.0
5,674,645 + -0.5
5,674,646 - +0.2
5,674,671 - +0.0
5,674,779 + +0.0
5,674,780 - +0.3
5,674,807 + +0.0
5,674,808 - -2.4
5,675,050 - PP_4981 0.44 -2.0
5,675,203 + PP_4981 0.69 +0.1
5,675,221 - PP_4981 0.72 +1.6
5,675,373 + +0.8
5,675,374 - +1.7
5,675,615 + PP_4982 0.41 -0.0

Or see this region's nucleotide sequence