Strain Fitness in Shewanella oneidensis MR-1 around SO0217

Experiment: Paraquat dichloride 0.25 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 ntpanK and SO0216 are separated by 112 nucleotidesSO0216 and tRNA-Thr-2 overlap by 10 nucleotidestRNA-Thr-2 and tRNA-Tyr-1 are separated by 7 nucleotidestRNA-Tyr-1 and tRNA-Gly-6 are separated by 34 nucleotidestRNA-Gly-6 and tRNA-Thr-1 are separated by 9 nucleotidestRNA-Thr-1 and tufB are separated by 115 nucleotidestufB and secE are separated by 276 nucleotidessecE and nusG are separated by 9 nucleotides SO0215: panK - pantothenate kinase (NCBI ptt file), at 225,619 to 226,569 panK SO0216: SO0216 - hypothetical protein (NCBI ptt file), at 226,682 to 226,813 SO0216 SO_t005: tRNA-Thr-2 - tRNA-Thr (RefSeq), at 226,804 to 226,879 tRNA-Thr-2 SO_t006: tRNA-Tyr-1 - tRNA-Tyr (RefSeq), at 226,887 to 226,971 tRNA-Tyr-1 SO_t007: tRNA-Gly-6 - tRNA-Gly (RefSeq), at 227,006 to 227,079 tRNA-Gly-6 SO_t008: tRNA-Thr-1 - tRNA-Thr (RefSeq), at 227,089 to 227,164 tRNA-Thr-1 SO0217: tufB - translation elongation factor Tu (NCBI ptt file), at 227,280 to 228,464 tufB SO0218: secE - preprotein translocase, SecE subunit (NCBI ptt file), at 228,741 to 229,112 secE SO0219: nusG - transcription antitermination protein NusG (NCBI ptt file), at 229,122 to 229,673 nusG Position (kb) 227 228 229Strain fitness (log2 ratio) -2 -1 0 1at 226.604 kb on - strandat 226.676 kb on + strandat 226.704 kb on + strand, within SO0216at 227.133 kb on + strand, within tRNA-Thr-1at 228.121 kb on + strand, within tufB

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Paraquat dichloride 0.25 mg/ml
remove
226,604 - +1.5
226,676 + +0.2
226,704 + SO0216 0.17 -0.4
227,133 + tRNA-Thr-1 SO_t008 0.58 +0.1
228,121 + tufB SO0217 0.71 -1.8

Or see this region's nucleotide sequence