Strain Fitness in Shewanella oneidensis MR-1 around SO2103

Experiment: Fumarate electron acceptor; ground control

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 ntSO2102 and SO2103 are separated by 266 nucleotidesSO2103 and SO2104 are separated by 9 nucleotidesSO2104 and SO2105 are separated by 79 nucleotides SO2102: SO2102 - hypothetical protein (NCBI ptt file), at 2,199,122 to 2,200,465 SO2102 SO2103: SO2103 - apbE family protein (NCBI ptt file), at 2,200,732 to 2,201,559 SO2103 SO2104: SO2104 - DNA-binding response regulator YgiX, putative (NCBI ptt file), at 2,201,569 to 2,202,228 SO2104 SO2105: SO2105 - sensor protein YgiY, putative (NCBI ptt file), at 2,202,308 to 2,203,738 SO2105 Position (kb) 2200 2201 2202Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 2199.888 kb on - strand, within SO2102at 2199.947 kb on + strand, within SO2102at 2199.947 kb on + strand, within SO2102at 2199.947 kb on + strand, within SO2102at 2199.955 kb on - strand, within SO2102at 2199.955 kb on - strand, within SO2102at 2200.092 kb on - strand, within SO2102at 2200.112 kb on + strand, within SO2102at 2200.168 kb on + strand, within SO2102at 2200.283 kb on + strand, within SO2102at 2200.284 kb on + strand, within SO2102at 2200.292 kb on - strand, within SO2102at 2200.292 kb on - strand, within SO2102at 2200.292 kb on - strand, within SO2102at 2200.530 kb on - strandat 2200.569 kb on + strandat 2200.613 kb on + strandat 2200.794 kb on + strandat 2200.884 kb on + strand, within SO2103at 2201.034 kb on + strand, within SO2103at 2201.042 kb on - strand, within SO2103at 2201.168 kb on + strand, within SO2103at 2201.178 kb on + strand, within SO2103at 2201.179 kb on + strand, within SO2103at 2201.229 kb on + strand, within SO2103at 2201.421 kb on - strand, within SO2103at 2201.582 kb on - strandat 2201.626 kb on - strandat 2201.762 kb on - strand, within SO2104at 2201.762 kb on - strand, within SO2104at 2201.762 kb on - strand, within SO2104at 2201.873 kb on + strand, within SO2104at 2201.881 kb on - strand, within SO2104at 2201.881 kb on - strand, within SO2104at 2201.974 kb on - strand, within SO2104at 2201.987 kb on - strand, within SO2104at 2202.070 kb on + strand, within SO2104at 2202.070 kb on + strand, within SO2104at 2202.078 kb on - strand, within SO2104at 2202.078 kb on - strand, within SO2104at 2202.115 kb on + strand, within SO2104at 2202.117 kb on + strand, within SO2104at 2202.197 kb on + strandat 2202.317 kb on - strandat 2202.375 kb on - strandat 2202.456 kb on - strand, within SO2105at 2202.463 kb on + strand, within SO2105at 2202.531 kb on - strand, within SO2105at 2202.533 kb on + strand, within SO2105

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Fumarate electron acceptor; ground control
remove
2,199,888 - SO2102 0.57 -1.4
2,199,947 + SO2102 0.61 +1.0
2,199,947 + SO2102 0.61 +1.7
2,199,947 + SO2102 0.61 +1.0
2,199,955 - SO2102 0.62 -0.4
2,199,955 - SO2102 0.62 +0.1
2,200,092 - SO2102 0.72 -2.5
2,200,112 + SO2102 0.74 +1.6
2,200,168 + SO2102 0.78 +1.0
2,200,283 + SO2102 0.86 +0.6
2,200,284 + SO2102 0.86 -1.7
2,200,292 - SO2102 0.87 +0.1
2,200,292 - SO2102 0.87 +2.0
2,200,292 - SO2102 0.87 +0.6
2,200,530 - +0.2
2,200,569 + +3.3
2,200,613 + -0.9
2,200,794 + -0.0
2,200,884 + SO2103 0.18 -1.0
2,201,034 + SO2103 0.36 -1.5
2,201,042 - SO2103 0.37 -1.7
2,201,168 + SO2103 0.53 -1.6
2,201,178 + SO2103 0.54 -0.5
2,201,179 + SO2103 0.54 -0.6
2,201,229 + SO2103 0.60 -3.3
2,201,421 - SO2103 0.83 -1.4
2,201,582 - +0.3
2,201,626 - -2.6
2,201,762 - SO2104 0.29 -0.5
2,201,762 - SO2104 0.29 +0.4
2,201,762 - SO2104 0.29 +0.2
2,201,873 + SO2104 0.46 -1.4
2,201,881 - SO2104 0.47 -1.3
2,201,881 - SO2104 0.47 -0.8
2,201,974 - SO2104 0.61 +0.3
2,201,987 - SO2104 0.63 +3.2
2,202,070 + SO2104 0.76 +0.2
2,202,070 + SO2104 0.76 +2.9
2,202,078 - SO2104 0.77 -0.0
2,202,078 - SO2104 0.77 +1.1
2,202,115 + SO2104 0.83 +0.2
2,202,117 + SO2104 0.83 +0.2
2,202,197 + +2.4
2,202,317 - -2.0
2,202,375 - +0.3
2,202,456 - SO2105 0.10 -0.0
2,202,463 + SO2105 0.11 +2.0
2,202,531 - SO2105 0.16 +0.4
2,202,533 + SO2105 0.16 +0.1

Or see this region's nucleotide sequence