Strain Fitness in Variovorax sp. SCN45 around GFF7288

Experiment: M9 with calcium pantothenate 10 mg/mL

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 ntGFF7287 and GFF7288 are separated by 36 nucleotidesGFF7288 and GFF7289 are separated by 161 nucleotidesGFF7289 and GFF7290 overlap by 8 nucleotides GFF7287 - Dipeptide ABC transporter, ATP-binding protein DppF (TC 3.A.1.5.2), at 5,028 to 6,062 GFF7287 GFF7288 - Dipeptide ABC transporter, substrate-binding protein DppA (TC 3.A.1.5.2), at 6,099 to 7,730 GFF7288 GFF7289 - 5'-methylthioadenosine nucleosidase (EC 3.2.2.16) @ S-adenosylhomocysteine nucleosidase (EC 3.2.2.9), at 7,892 to 8,629 GFF7289 GFF7290 - Putative transmembrane protein, at 8,622 to 9,380 GFF7290 Position (kb) 6 7 8Strain fitness (log2 ratio) -3 -2 -1 0 1at 5.282 kb on + strand, within GFF7287at 5.283 kb on - strand, within GFF7287at 5.478 kb on + strand, within GFF7287at 5.661 kb on + strand, within GFF7287at 5.724 kb on + strand, within GFF7287at 5.724 kb on + strand, within GFF7287at 5.725 kb on - strand, within GFF7287at 5.725 kb on - strand, within GFF7287at 5.725 kb on - strand, within GFF7287at 5.725 kb on - strand, within GFF7287at 5.787 kb on + strand, within GFF7287at 5.787 kb on + strand, within GFF7287at 5.979 kb on + strandat 5.979 kb on + strandat 6.060 kb on + strandat 6.061 kb on - strandat 6.213 kb on + strandat 6.214 kb on - strandat 6.244 kb on - strandat 6.294 kb on + strand, within GFF7288at 6.294 kb on + strand, within GFF7288at 6.295 kb on - strand, within GFF7288at 6.295 kb on - strand, within GFF7288at 6.295 kb on - strand, within GFF7288at 6.295 kb on - strand, within GFF7288at 6.295 kb on - strand, within GFF7288at 6.384 kb on + strand, within GFF7288at 6.384 kb on + strand, within GFF7288at 6.384 kb on + strand, within GFF7288at 6.384 kb on + strand, within GFF7288at 6.385 kb on - strand, within GFF7288at 6.540 kb on + strand, within GFF7288at 6.540 kb on + strand, within GFF7288at 6.541 kb on - strand, within GFF7288at 6.541 kb on - strand, within GFF7288at 6.597 kb on + strand, within GFF7288at 6.598 kb on - strand, within GFF7288at 6.660 kb on + strand, within GFF7288at 6.681 kb on + strand, within GFF7288at 6.684 kb on + strand, within GFF7288at 6.756 kb on + strand, within GFF7288at 6.756 kb on + strand, within GFF7288at 6.810 kb on + strand, within GFF7288at 6.996 kb on + strand, within GFF7288at 6.996 kb on + strand, within GFF7288at 6.997 kb on - strand, within GFF7288at 7.005 kb on + strand, within GFF7288at 7.005 kb on + strand, within GFF7288at 7.005 kb on + strand, within GFF7288at 7.005 kb on + strand, within GFF7288at 7.006 kb on - strand, within GFF7288at 7.006 kb on - strand, within GFF7288at 7.006 kb on - strand, within GFF7288at 7.095 kb on + strand, within GFF7288at 7.096 kb on - strand, within GFF7288at 7.149 kb on + strand, within GFF7288at 7.149 kb on + strand, within GFF7288at 7.150 kb on - strand, within GFF7288at 7.177 kb on - strand, within GFF7288at 7.270 kb on - strand, within GFF7288at 7.513 kb on - strand, within GFF7288at 7.513 kb on - strand, within GFF7288at 7.513 kb on - strand, within GFF7288at 7.513 kb on - strand, within GFF7288at 7.522 kb on - strand, within GFF7288at 7.581 kb on + strandat 7.673 kb on - strandat 7.729 kb on - strandat 8.477 kb on + strand, within GFF7289at 8.477 kb on + strand, within GFF7289at 8.478 kb on - strand, within GFF7289at 8.577 kb on - strandat 8.658 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
remove
5,282 + GFF7287 0.25 -0.7
5,283 - GFF7287 0.25 -1.0
5,478 + GFF7287 0.43 +0.1
5,661 + GFF7287 0.61 -0.2
5,724 + GFF7287 0.67 -1.0
5,724 + GFF7287 0.67 -0.7
5,725 - GFF7287 0.67 +0.1
5,725 - GFF7287 0.67 -0.1
5,725 - GFF7287 0.67 +0.0
5,725 - GFF7287 0.67 -0.8
5,787 + GFF7287 0.73 -0.3
5,787 + GFF7287 0.73 -1.0
5,979 + +0.9
5,979 + +0.9
6,060 + -0.7
6,061 - +0.0
6,213 + -0.1
6,214 - +0.4
6,244 - +0.2
6,294 + GFF7288 0.12 -0.3
6,294 + GFF7288 0.12 +0.5
6,295 - GFF7288 0.12 +0.4
6,295 - GFF7288 0.12 -0.4
6,295 - GFF7288 0.12 +1.2
6,295 - GFF7288 0.12 +0.1
6,295 - GFF7288 0.12 -2.1
6,384 + GFF7288 0.17 -0.1
6,384 + GFF7288 0.17 +1.1
6,384 + GFF7288 0.17 +0.2
6,384 + GFF7288 0.17 +0.9
6,385 - GFF7288 0.18 +0.0
6,540 + GFF7288 0.27 -0.1
6,540 + GFF7288 0.27 -0.2
6,541 - GFF7288 0.27 +0.4
6,541 - GFF7288 0.27 -1.0
6,597 + GFF7288 0.31 -0.4
6,598 - GFF7288 0.31 -0.6
6,660 + GFF7288 0.34 +0.2
6,681 + GFF7288 0.36 +0.0
6,684 + GFF7288 0.36 -1.1
6,756 + GFF7288 0.40 -0.8
6,756 + GFF7288 0.40 -0.8
6,810 + GFF7288 0.44 -0.6
6,996 + GFF7288 0.55 +0.4
6,996 + GFF7288 0.55 +0.0
6,997 - GFF7288 0.55 +0.8
7,005 + GFF7288 0.56 +0.5
7,005 + GFF7288 0.56 -1.1
7,005 + GFF7288 0.56 +0.6
7,005 + GFF7288 0.56 +0.3
7,006 - GFF7288 0.56 -1.7
7,006 - GFF7288 0.56 -2.7
7,006 - GFF7288 0.56 +1.0
7,095 + GFF7288 0.61 +0.6
7,096 - GFF7288 0.61 +0.0
7,149 + GFF7288 0.64 +0.2
7,149 + GFF7288 0.64 +0.9
7,150 - GFF7288 0.64 +1.0
7,177 - GFF7288 0.66 -0.5
7,270 - GFF7288 0.72 -1.1
7,513 - GFF7288 0.87 -0.0
7,513 - GFF7288 0.87 -1.5
7,513 - GFF7288 0.87 +0.3
7,513 - GFF7288 0.87 -2.8
7,522 - GFF7288 0.87 +1.1
7,581 + +0.8
7,673 - +0.9
7,729 - +0.0
8,477 + GFF7289 0.79 -0.1
8,477 + GFF7289 0.79 -0.8
8,478 - GFF7289 0.79 +1.2
8,577 - -1.1
8,658 - +0.2

Or see this region's nucleotide sequence