Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS28240

Experiment: Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=no_outgrowth_LB; Time=7_days

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 ntBPHYT_RS28230 and BPHYT_RS28235 are separated by 16 nucleotidesBPHYT_RS28235 and BPHYT_RS28240 are separated by 45 nucleotidesBPHYT_RS28240 and BPHYT_RS28245 are separated by 36 nucleotides BPHYT_RS28230: BPHYT_RS28230 - LysR family transcriptional regulator, at 1,891,087 to 1,892,094 _RS28230 BPHYT_RS28235: BPHYT_RS28235 - L-rhamnose-1-dehydrogenase ( EC 1.1.1.173) (from data), at 1,892,111 to 1,892,893 _RS28235 BPHYT_RS28240: BPHYT_RS28240 - L-rhamnonate dehydratase, at 1,892,939 to 1,894,117 _RS28240 BPHYT_RS28245: BPHYT_RS28245 - MFS transporter, at 1,894,154 to 1,895,482 _RS28245 Position (kb) 1892 1893 1894 1895Strain fitness (log2 ratio) -2 -1 0 1at 1892.166 kb on + strandat 1892.788 kb on - strand, within BPHYT_RS28235at 1892.916 kb on - strandat 1893.149 kb on - strand, within BPHYT_RS28240at 1893.150 kb on + strand, within BPHYT_RS28240at 1893.151 kb on - strand, within BPHYT_RS28240at 1893.151 kb on - strand, within BPHYT_RS28240at 1893.367 kb on - strand, within BPHYT_RS28240at 1893.678 kb on - strand, within BPHYT_RS28240at 1893.749 kb on - strand, within BPHYT_RS28240at 1894.173 kb on - strandat 1894.227 kb on - strandat 1894.584 kb on + strand, within BPHYT_RS28245

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=no_outgrowth_LB; Time=7_days
remove
1,892,166 + +1.5
1,892,788 - BPHYT_RS28235 0.86 -0.8
1,892,916 - -0.5
1,893,149 - BPHYT_RS28240 0.18 -1.7
1,893,150 + BPHYT_RS28240 0.18 -0.6
1,893,151 - BPHYT_RS28240 0.18 +0.1
1,893,151 - BPHYT_RS28240 0.18 -2.1
1,893,367 - BPHYT_RS28240 0.36 -1.8
1,893,678 - BPHYT_RS28240 0.63 -0.0
1,893,749 - BPHYT_RS28240 0.69 -1.3
1,894,173 - +0.1
1,894,227 - -0.3
1,894,584 + BPHYT_RS28245 0.32 -0.2

Or see this region's nucleotide sequence