Strain Fitness in Pseudomonas putida KT2440 around PP_3989

Experiment: Growth at pH9 and (C) Trisodium citrate

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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.

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500 ntPP_3988 and PP_3989 are separated by 11 nucleotidesPP_3989 and PP_t60 are separated by 254 nucleotidesPP_t60 and PP_3990 are separated by 133 nucleotides PP_3988: PP_3988 - conserved protein of unknown function, at 4,497,955 to 4,500,003 _3988 PP_3989: PP_3989 - DNA-cytosine methyltransferase, at 4,500,015 to 4,501,061 _3989 PP_t60: PP_t60 - tRNA-Ser, at 4,501,316 to 4,501,403 _t60 PP_3990: PP_3990 - substrate or modulator of FtsH-mediated proteolysis, at 4,501,537 to 4,502,208 _3990 Position (kb) 4500 4501 4502Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 4499.015 kb on + strand, within PP_3988at 4499.015 kb on + strand, within PP_3988at 4499.037 kb on + strand, within PP_3988at 4499.121 kb on + strand, within PP_3988at 4499.121 kb on + strand, within PP_3988at 4499.128 kb on - strand, within PP_3988at 4499.213 kb on - strand, within PP_3988at 4499.674 kb on + strand, within PP_3988at 4499.721 kb on + strand, within PP_3988at 4499.908 kb on + strandat 4500.005 kb on + strandat 4500.119 kb on + strandat 4500.173 kb on + strand, within PP_3989at 4500.302 kb on + strand, within PP_3989at 4500.679 kb on + strand, within PP_3989at 4500.725 kb on + strandat 4500.762 kb on + strand, within PP_3989at 4500.814 kb on + strand, within PP_3989at 4500.814 kb on + strand, within PP_3989at 4500.814 kb on + strand, within PP_3989at 4500.837 kb on + strand, within PP_3989at 4500.837 kb on + strand, within PP_3989at 4500.883 kb on + strand, within PP_3989at 4501.097 kb on - strandat 4501.102 kb on - strandat 4501.269 kb on - strandat 4501.492 kb on - strandat 4501.492 kb on - strandat 4501.492 kb on - strandat 4501.520 kb on + strandat 4501.520 kb on + strandat 4501.521 kb on - strandat 4501.552 kb on + strandat 4501.553 kb on - strandat 4501.615 kb on + strand, within PP_3990at 4501.615 kb on + strand, within PP_3990at 4501.616 kb on - strand, within PP_3990at 4501.616 kb on - strand, within PP_3990at 4501.632 kb on + strand, within PP_3990at 4501.710 kb on - strand, within PP_3990at 4501.720 kb on + strand, within PP_3990at 4501.720 kb on + strand, within PP_3990at 4501.721 kb on - strand, within PP_3990at 4501.738 kb on - strand, within PP_3990at 4501.859 kb on + strand, within PP_3990at 4501.860 kb on - strand, within PP_3990at 4501.912 kb on + strand, within PP_3990at 4501.912 kb on + strand, within PP_3990at 4501.912 kb on + strand, within PP_3990at 4501.913 kb on - strand, within PP_3990at 4501.913 kb on - strand, within PP_3990at 4501.913 kb on - strand, within PP_3990at 4502.035 kb on - strand, within PP_3990

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) Trisodium citrate
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4,499,015 + PP_3988 0.52 -0.3
4,499,015 + PP_3988 0.52 +0.8
4,499,037 + PP_3988 0.53 +1.2
4,499,121 + PP_3988 0.57 -2.4
4,499,121 + PP_3988 0.57 +0.7
4,499,128 - PP_3988 0.57 -0.8
4,499,213 - PP_3988 0.61 -3.2
4,499,674 + PP_3988 0.84 +0.4
4,499,721 + PP_3988 0.86 -0.9
4,499,908 + +0.9
4,500,005 + +0.4
4,500,119 + +0.4
4,500,173 + PP_3989 0.15 +0.5
4,500,302 + PP_3989 0.27 -1.7
4,500,679 + PP_3989 0.63 +1.7
4,500,725 + +0.7
4,500,762 + PP_3989 0.71 +0.5
4,500,814 + PP_3989 0.76 -1.3
4,500,814 + PP_3989 0.76 -0.8
4,500,814 + PP_3989 0.76 +1.3
4,500,837 + PP_3989 0.79 -0.1
4,500,837 + PP_3989 0.79 +1.5
4,500,883 + PP_3989 0.83 +2.2
4,501,097 - -2.1
4,501,102 - -3.2
4,501,269 - +0.3
4,501,492 - +0.2
4,501,492 - +1.7
4,501,492 - +1.3
4,501,520 + -3.5
4,501,520 + +3.1
4,501,521 - +1.1
4,501,552 + -1.5
4,501,553 - +0.4
4,501,615 + PP_3990 0.12 -3.5
4,501,615 + PP_3990 0.12 +1.0
4,501,616 - PP_3990 0.12 -0.1
4,501,616 - PP_3990 0.12 +1.2
4,501,632 + PP_3990 0.14 -0.9
4,501,710 - PP_3990 0.26 +1.3
4,501,720 + PP_3990 0.27 +2.7
4,501,720 + PP_3990 0.27 +0.4
4,501,721 - PP_3990 0.27 -1.1
4,501,738 - PP_3990 0.30 -3.2
4,501,859 + PP_3990 0.48 +0.4
4,501,860 - PP_3990 0.48 -2.7
4,501,912 + PP_3990 0.56 +0.7
4,501,912 + PP_3990 0.56 -1.4
4,501,912 + PP_3990 0.56 -2.6
4,501,913 - PP_3990 0.56 -3.2
4,501,913 - PP_3990 0.56 -1.8
4,501,913 - PP_3990 0.56 -1.1
4,502,035 - PP_3990 0.74 -1.9

Or see this region's nucleotide sequence