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Table 3 Comparison of gene transcription level ratios MT/WT obtained in the model and sig3 and sig4 gene knockout experiments for Locus 3 in Arabidopsis

From: Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level

Gene

sig3-knockout

Model (sig3)

sig4-knockout

Model (sig4)

psbB

1.02 ± 0.36

1.27 ± 0.12

0.69 ± 0.19

0.84 ± 0.11

psbT

0.98 ± 0.25

1.30 ± 0.12

0.96 ± 0.15

0.85 ± 0.11

psbN

0.49 ± 0.46

0.41 ± 0.12

1.03 ± 0.02

1.02 ± 0.19

psbH

1.31 ± 0.05

1.28 ± 0.12

1.01 ± 0.08

0.83 ± 0.11

petB

0.91 ± 0.15

1.09 ± 0.11

0.87 ± 0.29

0.83 ± 0.11

petD

0.92 ± 0.09

0.89 ± 0.10

0.81 ± 0.21

0.81 ± 0.11

rpoA

0.94 ± 0.14

0.82 ± 0.20

0.79 ± 0.11

1.01 ± 0.14

rps11

0.92 ± 0.33

0.90 ± 0.21

0.98 ± 0.31

1.01 ± 0.13

rpl36

0.88 ± 0.11

1.03 ± 0.21

1.54 ± 0.62

1.08 ± 0.18

rps8

1.11 ± 0.04

1.03 ± 0.21

0.83 ± 0.15

1.08 ± 0.18

rpl14

1.04 ± 0.15

1.03 ± 0.21

1.11 ± 0.02

1.08 ± 0.18

rpl16

1.09 ± 0.03

1.03 ± 0.21

1.18 ± 0.03

1.08 ± 0.18

rps3

1.24 ± 0.26

1.03 ± 0.21

1.25 ± 0.02

1.08 ± 0.18

rpl22

1.09 ± 0.13

1.03 ± 0.21

1.20 ± 0.12

1.08 ± 0.18

rps19

1.15 ± 0.50

1.03 ± 0.21

0.96 ± 0.07

1.08 ± 0.17

rpl2

0.94 ± 0.15

1.03 ± 0.21

0.95 ± 0.06

1.08 ± 0.17

rpl23

1.05 ± 0.04

1.06 ± 0.20

1.35 ± 0.33

1.10 ± 0.17

  1. Termination probabilities are T1 = 0.25 and T2 = 0.25; binding intensities are P1 = 0.555/0.867/1.355, P2 = 0.075/0.227/0.284, P3 = 0.116/0.146/0.182 (sig3, sig4 mutants and the wild type, correspondingly), N = 0.116, ref. to the Results. Other designations as in Table 2.