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Table 1 Summary of ICEclc core transcripts.

From: Transcriptome analysis of the mobile genome ICEclc in Pseudomonas knackmussii B13

Transcript

Stranda

Size on Northernb

RT-PCRc

Promoterd

Log2 Stat-Expo Ratioe

intB13

+

2.5

+

102,729 (Pcirc)

3.1 ± 1.0

ORF50240

-

ND (1.8)

ND

 

1.6 ± 0.6

52324-53196

+

1.5 (1.2)

+

51,218

-1.2 ± 0.4

53587-58432

-

4.7 (5.3)

+

58,771

4.2 ± 1.4

59110-62755

-

3.5 (4.0)

+

63,191

2.6 ± 1.3

63176-66202

-

3.5 (3.4)

+

66,976

2.3 ± 1.7

66625-67231

-

ND (1.0)

+

67,610

5.8 ± 2.2

67800

+

2.6 (0.5)

+

67,817

-0.9 ± 0.2

68241-81655

-

4-6

+

 

4.0 ± 1.7

  

8.5 (14.3)

(exc. 73676-74436)

 

5.7 ± 1.6

83350-84835

-

2.6 (2.3)

+

 

6.3 ± 1.6

85934-88400

-

3.0 (2.7)

+

89,109

6.5 ± 0.8

89247-89746

-

2.5 (2.1)

+

 

2.2 ± 1.9

91884-95213

-

3.5/2 (4.1)

+

96,204 (RACE)

5.6 ± 1.5

96323-100033

-

2.5-3.5 (4.5)

  

2.1 ± 1.6

100952

-

0.5

+

 

ND

100033-101284

-

2.6 (2.0)

+

102,270 (RACE)

2.0 ± 0.2

  1. a) plus strand is same orientation as intB13.
  2. b) in kilobase observed; within brackets, size calculated from sequence.
  3. c) ORF connections detected by reverse-transcriptase PCR on RNA from strain B13 during stationary phase after growth on 3-chlorobenzoate.
  4. d) Predicted location from bioinformatic analysis or observed by 5'RACE. Position according to numbering of AJ617740.
  5. e) Log2-average ratio of hybridization intensities over all microarray probes covering the presumed transcript during stationary phase versus exponential phase on 3-chlorobenzoate.