Strain Fitness in Dinoroseobacter shibae DFL-12 around Dshi_3714

Experiment: L-Lactate (C)

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 ntDshi_3712 and Dshi_3713 are separated by 183 nucleotidesDshi_3713 and Dshi_3714 overlap by 20 nucleotidesDshi_3714 and Dshi_3715 are separated by 116 nucleotides Dshi_3712: Dshi_3712 - short-chain dehydrogenase/reductase SDR (RefSeq), at 117,527 to 118,285 _3712 Dshi_3713: Dshi_3713 - hypothetical protein (RefSeq), at 118,469 to 118,945 _3713 Dshi_3714: Dshi_3714 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase (RefSeq), at 118,926 to 119,519 _3714 Dshi_3715: Dshi_3715 - transcriptional regulator, LysR family (RefSeq), at 119,636 to 120,550 _3715 Position (kb) 118 119 120Strain fitness (log2 ratio) -3 -2 -1 0 1at 117.926 kb on - strand, within Dshi_3712at 117.926 kb on - strand, within Dshi_3712at 117.933 kb on + strand, within Dshi_3712at 117.934 kb on - strand, within Dshi_3712at 117.980 kb on - strand, within Dshi_3712at 117.999 kb on - strand, within Dshi_3712at 118.007 kb on + strand, within Dshi_3712at 118.008 kb on + strand, within Dshi_3712at 118.008 kb on + strand, within Dshi_3712at 118.008 kb on + strand, within Dshi_3712at 118.008 kb on + strand, within Dshi_3712at 118.015 kb on - strand, within Dshi_3712at 118.016 kb on - strand, within Dshi_3712at 118.016 kb on - strand, within Dshi_3712at 118.016 kb on - strand, within Dshi_3712at 118.068 kb on - strand, within Dshi_3712at 118.102 kb on + strand, within Dshi_3712at 118.111 kb on + strand, within Dshi_3712at 118.125 kb on + strand, within Dshi_3712at 118.133 kb on - strand, within Dshi_3712at 118.133 kb on - strand, within Dshi_3712at 118.133 kb on - strand, within Dshi_3712at 118.135 kb on + strand, within Dshi_3712at 118.143 kb on - strand, within Dshi_3712at 118.152 kb on + strand, within Dshi_3712at 118.160 kb on - strand, within Dshi_3712at 118.196 kb on + strand, within Dshi_3712at 118.202 kb on + strand, within Dshi_3712at 118.211 kb on + strandat 118.213 kb on + strandat 118.216 kb on + strandat 118.219 kb on - strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.235 kb on + strandat 118.243 kb on - strandat 118.243 kb on - strandat 118.254 kb on - strandat 118.256 kb on - strandat 118.339 kb on - strandat 118.414 kb on - strandat 118.428 kb on + strandat 118.436 kb on - strandat 118.446 kb on - strandat 118.450 kb on - strandat 118.463 kb on + strandat 118.463 kb on + strandat 118.473 kb on - strandat 118.495 kb on - strandat 118.506 kb on + strandat 118.549 kb on + strand, within Dshi_3713at 118.565 kb on + strand, within Dshi_3713at 118.565 kb on + strand, within Dshi_3713at 118.565 kb on + strand, within Dshi_3713at 118.572 kb on + strand, within Dshi_3713at 118.573 kb on - strand, within Dshi_3713at 118.573 kb on - strand, within Dshi_3713at 118.573 kb on - strand, within Dshi_3713at 118.614 kb on + strand, within Dshi_3713at 118.662 kb on + strand, within Dshi_3713at 118.666 kb on + strand, within Dshi_3713at 118.676 kb on - strand, within Dshi_3713at 118.704 kb on + strand, within Dshi_3713at 118.729 kb on - strand, within Dshi_3713at 118.729 kb on - strand, within Dshi_3713at 118.760 kb on + strand, within Dshi_3713at 118.768 kb on - strand, within Dshi_3713at 118.793 kb on + strand, within Dshi_3713at 118.793 kb on + strand, within Dshi_3713at 118.798 kb on + strand, within Dshi_3713at 118.816 kb on + strand, within Dshi_3713at 118.903 kb on - strandat 118.903 kb on - strandat 118.903 kb on - strandat 118.910 kb on + strandat 118.910 kb on + strandat 119.040 kb on + strand, within Dshi_3714at 119.058 kb on + strand, within Dshi_3714at 119.099 kb on + strand, within Dshi_3714at 119.120 kb on + strand, within Dshi_3714at 119.153 kb on + strand, within Dshi_3714at 119.196 kb on + strand, within Dshi_3714at 119.218 kb on - strand, within Dshi_3714at 119.219 kb on - strand, within Dshi_3714at 119.302 kb on + strand, within Dshi_3714at 119.312 kb on + strand, within Dshi_3714at 119.313 kb on - strand, within Dshi_3714at 119.318 kb on - strand, within Dshi_3714at 119.320 kb on - strand, within Dshi_3714at 119.457 kb on + strand, within Dshi_3714at 119.468 kb on + strandat 119.476 kb on + strandat 119.532 kb on - strandat 119.540 kb on - strandat 119.540 kb on - strandat 119.543 kb on + strandat 119.543 kb on + strandat 119.543 kb on + strandat 119.551 kb on - strandat 119.558 kb on + strandat 119.558 kb on + strandat 119.558 kb on + strandat 119.566 kb on - strandat 119.566 kb on - strandat 119.566 kb on - strandat 119.681 kb on - strandat 119.705 kb on - strandat 119.717 kb on + strandat 119.778 kb on + strand, within Dshi_3715at 119.778 kb on + strand, within Dshi_3715at 119.792 kb on - strand, within Dshi_3715at 119.792 kb on - strand, within Dshi_3715at 119.812 kb on + strand, within Dshi_3715at 119.858 kb on + strand, within Dshi_3715at 119.883 kb on - strand, within Dshi_3715at 119.903 kb on + strand, within Dshi_3715at 119.906 kb on - strand, within Dshi_3715at 119.906 kb on - strand, within Dshi_3715at 119.939 kb on - strand, within Dshi_3715at 119.953 kb on + strand, within Dshi_3715at 119.953 kb on + strand, within Dshi_3715at 119.953 kb on + strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 119.961 kb on - strand, within Dshi_3715at 120.118 kb on - strand, within Dshi_3715at 120.163 kb on + strand, within Dshi_3715at 120.182 kb on - strand, within Dshi_3715at 120.266 kb on + strand, within Dshi_3715at 120.308 kb on - strand, within Dshi_3715at 120.377 kb on + strand, within Dshi_3715at 120.385 kb on - strand, within Dshi_3715at 120.391 kb on - strand, within Dshi_3715at 120.397 kb on + strand, within Dshi_3715at 120.397 kb on - strand, within Dshi_3715at 120.412 kb on - strand, within Dshi_3715at 120.415 kb on + strand, within Dshi_3715at 120.471 kb on + strandat 120.487 kb on + strandat 120.487 kb on + strandat 120.489 kb on + strandat 120.497 kb on - strandat 120.518 kb on + strandat 120.518 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction L-Lactate (C)
remove
117,926 - Dshi_3712 0.53 +1.5
117,926 - Dshi_3712 0.53 -0.7
117,933 + Dshi_3712 0.53 -0.5
117,934 - Dshi_3712 0.54 -0.4
117,980 - Dshi_3712 0.60 -0.2
117,999 - Dshi_3712 0.62 -0.0
118,007 + Dshi_3712 0.63 -2.8
118,008 + Dshi_3712 0.63 -0.1
118,008 + Dshi_3712 0.63 +0.3
118,008 + Dshi_3712 0.63 -0.4
118,008 + Dshi_3712 0.63 +0.5
118,015 - Dshi_3712 0.64 +1.2
118,016 - Dshi_3712 0.64 +0.7
118,016 - Dshi_3712 0.64 +0.5
118,016 - Dshi_3712 0.64 +0.4
118,068 - Dshi_3712 0.71 -0.4
118,102 + Dshi_3712 0.76 -0.2
118,111 + Dshi_3712 0.77 +0.6
118,125 + Dshi_3712 0.79 -0.5
118,133 - Dshi_3712 0.80 -0.9
118,133 - Dshi_3712 0.80 +0.8
118,133 - Dshi_3712 0.80 +0.4
118,135 + Dshi_3712 0.80 -0.1
118,143 - Dshi_3712 0.81 +0.1
118,152 + Dshi_3712 0.82 -0.2
118,160 - Dshi_3712 0.83 -0.2
118,196 + Dshi_3712 0.88 +0.4
118,202 + Dshi_3712 0.89 +0.2
118,211 + +0.4
118,213 + +1.5
118,216 + -0.4
118,219 - +0.7
118,235 + -1.0
118,235 + -0.3
118,235 + -0.2
118,235 + -0.5
118,235 + -0.4
118,235 + -1.4
118,235 + -0.0
118,243 - -0.3
118,243 - +0.1
118,254 - +0.9
118,256 - -0.5
118,339 - +0.1
118,414 - +0.5
118,428 + -0.6
118,436 - +0.5
118,446 - +0.1
118,450 - +0.2
118,463 + +0.2
118,463 + -0.6
118,473 - +0.3
118,495 - -0.1
118,506 + -0.4
118,549 + Dshi_3713 0.17 +1.0
118,565 + Dshi_3713 0.20 +0.1
118,565 + Dshi_3713 0.20 -0.7
118,565 + Dshi_3713 0.20 -0.3
118,572 + Dshi_3713 0.22 -0.0
118,573 - Dshi_3713 0.22 -0.1
118,573 - Dshi_3713 0.22 +0.3
118,573 - Dshi_3713 0.22 +0.1
118,614 + Dshi_3713 0.30 -0.1
118,662 + Dshi_3713 0.40 +0.2
118,666 + Dshi_3713 0.41 +0.7
118,676 - Dshi_3713 0.43 -0.4
118,704 + Dshi_3713 0.49 -0.1
118,729 - Dshi_3713 0.55 -0.4
118,729 - Dshi_3713 0.55 +0.3
118,760 + Dshi_3713 0.61 +0.1
118,768 - Dshi_3713 0.63 +0.6
118,793 + Dshi_3713 0.68 -0.2
118,793 + Dshi_3713 0.68 +1.0
118,798 + Dshi_3713 0.69 -0.2
118,816 + Dshi_3713 0.73 +0.1
118,903 - -0.1
118,903 - +0.0
118,903 - +0.5
118,910 + -0.8
118,910 + -2.0
119,040 + Dshi_3714 0.19 +0.3
119,058 + Dshi_3714 0.22 -0.8
119,099 + Dshi_3714 0.29 +0.8
119,120 + Dshi_3714 0.33 +0.2
119,153 + Dshi_3714 0.38 +0.2
119,196 + Dshi_3714 0.45 -0.3
119,218 - Dshi_3714 0.49 -0.0
119,219 - Dshi_3714 0.49 +0.1
119,302 + Dshi_3714 0.63 +0.0
119,312 + Dshi_3714 0.65 -0.0
119,313 - Dshi_3714 0.65 +0.6
119,318 - Dshi_3714 0.66 +0.3
119,320 - Dshi_3714 0.66 -0.6
119,457 + Dshi_3714 0.89 -0.5
119,468 + -0.7
119,476 + -0.3
119,532 - -1.7
119,540 - +0.1
119,540 - -0.4
119,543 + -0.7
119,543 + -0.0
119,543 + -0.2
119,551 - -0.2
119,558 + +0.6
119,558 + +0.2
119,558 + +0.0
119,566 - -0.4
119,566 - -0.3
119,566 - -1.6
119,681 - +0.4
119,705 - +0.4
119,717 + -0.8
119,778 + Dshi_3715 0.16 -0.6
119,778 + Dshi_3715 0.16 -1.5
119,792 - Dshi_3715 0.17 -0.7
119,792 - Dshi_3715 0.17 -0.2
119,812 + Dshi_3715 0.19 +0.3
119,858 + Dshi_3715 0.24 -0.1
119,883 - Dshi_3715 0.27 -0.0
119,903 + Dshi_3715 0.29 +0.6
119,906 - Dshi_3715 0.30 +0.7
119,906 - Dshi_3715 0.30 -0.4
119,939 - Dshi_3715 0.33 -1.3
119,953 + Dshi_3715 0.35 -0.1
119,953 + Dshi_3715 0.35 -0.2
119,953 + Dshi_3715 0.35 -0.2
119,961 - Dshi_3715 0.36 +0.6
119,961 - Dshi_3715 0.36 +1.1
119,961 - Dshi_3715 0.36 -0.4
119,961 - Dshi_3715 0.36 -0.7
119,961 - Dshi_3715 0.36 +0.6
119,961 - Dshi_3715 0.36 +0.5
120,118 - Dshi_3715 0.53 -0.3
120,163 + Dshi_3715 0.58 -0.3
120,182 - Dshi_3715 0.60 -0.7
120,266 + Dshi_3715 0.69 +0.1
120,308 - Dshi_3715 0.73 +0.6
120,377 + Dshi_3715 0.81 +0.1
120,385 - Dshi_3715 0.82 -0.5
120,391 - Dshi_3715 0.83 +0.1
120,397 + Dshi_3715 0.83 +0.4
120,397 - Dshi_3715 0.83 -0.4
120,412 - Dshi_3715 0.85 +0.2
120,415 + Dshi_3715 0.85 +0.0
120,471 + -0.1
120,487 + +0.0
120,487 + -1.3
120,489 + +0.1
120,497 - +0.1
120,518 + +0.8
120,518 - +0.3

Or see this region's nucleotide sequence