Spotted PCR-product array

Coverage

 

Genes with a

Chromosome

SCP1

Total

Unique probe

6997

180

7177

Non-unique probe*

86

74

160

Alternative probe*

52

69

121

No probe

690

33

723**

Total

7825

356

8181

*Many multi-gene probes are directed against the terminal inverted repeats. In order to conform to restrictions in data analysis software these probes have been named after one of the duplicated genes.
**Of which 168 were removed prior to design including insertion elements, transposons, pseudogenes, partial sequences and genes < 100 bp. The primer design program could not find suitable primer pairs for 213 genes and 342 PCR products failed to give a single band. Details can be found here. We plan to make probes for these missing genes.

 

Controls

Positives - A dilution series of probes against 16s and 23s rRNA.

Negatives - A number of PCR products from Pseudomonas aeruginosa PA01, an unrelated bacteria of similar GC content. These may also be used as probes against suitable exogenous RNA spiked into the samples before reverse transcription.

Other - Landing lights, PCR and spotting buffer blanks.

 

Known issues

A few naming inconsistencies have been corrected in the files for SCp14 onwards.

 

Gene

Pre-SCp14 probe name

Current probe name

SCO0506

SCO2238 (2P20)

SCO0506 (2P20)

SCO0509

SCO1660 (2E17)

SCO0509 (2E17)

SCO1290

SCO1289 (19D10)

SCO1290 (19D10)

SCO5106

SCO5107 (20H19)

SCO5106 (20H19)

SCO5634

SCO5635 (7D14)

SCO5634 (7D14)

 

Grid Map

 

Page Owner: bss2el
Page Created: Monday 27 July 2009 10:59:04 by t00345
Last Modified: Thursday 1 September 2016 09:58:42 by m07326
Expiry Date: Wednesday 27 October 2010 10:55:20
Assembly date: Mon Jun 26 12:30:35 BST 2017
Content ID: 10590
Revision: 2
Community: 1020

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