Curation Information

Publication
Identification of CodY targets in Bacillus anthracis by genome-wide in vitro binding analysis.;Château A, van Schaik W, Joseph P, Handke LD, McBride SM, Smeets FM, Sonenshein AL, Fouet A;Journal of bacteriology 2013 Mar; 195(6):1204-13 [23292769]
TF
CodY [Q81WK7, view regulon]
Reported TF sp.
Bacillus subtilis subsp. subtilis str. SMY
Reported site sp.
Bacillus subtilis subsp. subtilis str. SMY
Created by
Elliot White
Curation notes
-
External databases
ArrayExpress (E-MEXP-1706) http://www.ebi.ac.uk/arrayexpress/arrays/E-MEXP-1706/.

Experimental Process

Experimenters ran 3 chip-seq experiments; sites that appeared in two of three were cross-referenced against a previously published micro-array to determine regulation. MEME was used to identify an 11 bp motif

ChIP assay conditions
Growth of the cultures was followed by measuring the absorbance at 600 nm (A600). B. anthracis precultures were grown overnight at 37°C in BHI (brain heart infusion) (Difco) medium supplemented with 0.5% glycerol, with rotary shaking at 150 rpm. Experimental cultures were grown at 37°C under a 5% CO2 atmosphere in R medium (27) supplemented with 0.6% sodium bicarbonate (RBic) (2). RBic was inoculated from an overnight culture to a starting A600 of 0.05. Aeration of the culture was achieved by continuous stirring with a magnetic bar at 450 rpm. For DNA extraction, the culture was grown at 37°C in BHI until it reached mid-exponential phase (A600 = 0.8). The antibiotics used were spectinomycin (100 μg/ml) and kanamycin (40 μg/ml).
ChIP notes
Genomic DNA was extracted from B. anthracis RTC10 as described in reference 31. Four samples of 10 μg of DNA each were dissolved in 500 μl of sterile deionized water and sheared by sonication. The method used was initially developed by Majerczyk et al. (25) and improved by Dineen et al. (24). In brief, adapters were ligated to the ends of the sheared DNA fragments and DNA fragments of 300 to 500 bp were purified. Amplification of the fragments was performed by PCR using primers that were complementary to the adapter sequences. The DNA fragments were incubated with purified His6-tagged B. anthracis CodY (50 or 100 nM) in the presence of the coeffectors, 5 mM GTP and 10 mM each isoleucine, leucine, and valine. A negative control consisted of carrying out the same experiment using purified Bacillus subtilis His10-aconitase (32) in place of B. anthracis CodY. Purification of CodY that was bound to its target genes was performed on a Talon Co2+ metal affinity resin (Clontech). The DNA fragments that copurified with the His-tagged proteins were sequenced bidirectionally by the Tufts University Nucleic Acid and Protein Core Facility using an Illumina genome analyzer II.

Transcription Factor Binding Sites


TCAGAAAATT
TCAGAATATT
ACAGAAAATT
ACAGAATATT
ACAGAATATT
ACAGAAAATT
ACAGAAAATT
ACAGAAAATT
TCTGAAAATT
TCTGAATATT
TCTGAATATT
TCTGAATATT
TCTGAAAATT
TCAGAATTTT
TCAGAATTTT
TCAGAATTTT
TCAGAATTTT
TCAGAAAAAT
TCAGAAAAAT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAAAAAT
ACAGAAAAAT
TCTGAATTTT
TCTGAATTTT
ACAGAATAAT
ACAGAATAAT
TCAGAAAATT
TCAGAATATT
TCAGAATATT
TCAGAAAATT
TCAGAAAATT
TCAGAAAATT
TCAGAAAATT
TCAGAATATT
TCAGAATATT
TCAGAAAATT
TCAAAAAATT
TCAAAAAATT
ACTGAAATTT
TCAAAAAATT
TCAAAAAATT
ACTGAATTTT
TCAAAAAATT
TCAGAAACTT
TCAGAAGATT
ACAGAAAATT
ACAGAAAATT
TCTGAATATT
TCTGAATATT
TCTGAAAATT
ACAGAATATT
ACAGAAAATT
ACAGAAAATT
TCTGAAAATT
ACAAAAAATT
TTAGAATATT
TTAGAATATT
TTAGAATATT
TTAGAATATT
TCTGAAAATT
TCAGAATTAT
TTAGAATATT
TTAGAAAATT
TCTGAAAATT
TCTGAATATT
TCAGAATATA
TCTAAAAATT
TCCGAAAATT
TCCGAAAATT
TCGAAAAATT
ACTGAAAATT
ACGGAATATT
TCAGATAATT
ACTAAAAATT
ACTAAAAATT
ACAGAAAATA
ACTAAAAATT
GCAGAAAATT
GCAGAAAATT
ACGAAATATT
TCGGAATTAT
TCACAATATT
ACAGATTATT
TCAGAAAAAT
TCAGAAAAAT
TCAGAAAAAT
TGAGAAAATT
TGAGAAAATT
ACAGAATTTT
ACAGAATTTT
ATTGAATATT
TCAAAAAAAT
ACAAAATTTT
ACAAAATTTT
TCTGAATTTT
TTAGAATTTT
TTAGAATTTT
ACACAATATT
TCTGAATTTT
ACAGAATACT
TCTGAATTTT
ACAGAAAAAT
ACAGAATACT
ACAAAATAAT
ACAAAATAAT
TCTGAAAAAT
TCTGAAAAAT
TCTGAAAAAT
TTAGAATAAT
TCGGAAAAAT
TCTGAAAAAT
TCAAAATATT
TCAAAATATT
TCAAAAAATT
ACTGAAATTT
TCGGAATAAT
TCGGAATAAT
TAAGAAAATT
TCCGAAAAAT
ACAGAATCTT
ACAGAATCTT
TCAGAAAAGT
TCAGAAAAGT
ACAAAATATT
TTAGAATATT
ACAGAATCTT
AAAGAAAATT
TCAGAATTAT
ACAAAAGATT
TCTAAATATT
ACAGAAAAGT
TCGAAATATT
ACAGAATTAT
ACAAAATTAT
ACGGAACATT
TCAGATTATT
TTTGAATATT
TTGGAATATT
TTGGAATATT
TTTGAATATT
TCTGAATTAT
TCTGAATTAT
ACGAAATATT
ACGAAATATT
ACTGAAATAT
ACTGAAATAT
TCAAAATTTT
TCAAAATTTT
TGAGAAAATT
TGAGAAAATT
ATTGAAAATT
AGTGAATTTT
TCTGATAAGT
TCTCAATATT
TCTCAATATT
TAAGAAAATT
ACTAAATTTT
TTAGACAATT
ATTGATAATT
ATTGATAATT
TCGGAAATTA
TCGGAAATTA
TCTAAATCTT
TGACAAAATT
TTTGAATCTT
TTACAAAAAT
ACAGAAAAGA
TCTGACTTTT
ATTGAAAATA
ATTGAAAATA
GTTGAATTGT
TCAGAAAATT
TCAGAATATT
ACAGAAAATT
ACAGAATATT
ACAGAATATT
ACAGAAAATT
ACAGAAAATT
ACAGAAAATT
TCTGAAAATT
TCTGAATATT
TCTGAATATT
TCTGAATATT
TCTGAAAATT
TCAGAATTTT
TCAGAATTTT
TCAGAATTTT
TCAGAATTTT
TCAGAAAAAT
TCAGAAAAAT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAATTTT
ACAGAAAAAT
ACAGAAAAAT
TCTGAATTTT
TCTGAATTTT
ACAGAATAAT
ACAGAATAAT
TCAGAAAATT
TCAGAATATT
TCAGAATATT
TCAGAAAATT
TCAGAAAATT
TCAGAAAATT
TCAGAAAATT
TCAGAATATT
TCAGAATATT
TCAGAAAATT
TCAAAAAATT
TCAAAAAATT
ACTGAAATTT
TCAAAAAATT
TCAAAAAATT
ACTGAATTTT
TCAAAAAATT
TCAGAAACTT
TCAGAAGATT
ACAGAAAATT
ACAGAAAATT
TCTGAATATT
TCTGAATATT
TCTGAAAATT
ACAGAATATT
ACAGAAAATT
ACAGAAAATT
TCTGAAAATT
ACAAAAAATT
TTAGAATATT
TTAGAATATT
TTAGAATATT
TTAGAATATT
TCTGAAAATT
TCAGAATTAT
TTAGAATATT
TTAGAAAATT
TCTGAAAATT
TCTGAATATT
TCAGAATATA
TCTAAAAATT
TCCGAAAATT
TCCGAAAATT
TCGAAAAATT
ACTGAAAATT
ACGGAATATT
TCAGATAATT
ACTAAAAATT
ACTAAAAATT
ACAGAAAATA
ACTAAAAATT
GCAGAAAATT
GCAGAAAATT
ACGAAATATT
TCGGAATTAT
TCACAATATT
ACAGATTATT
TCAGAAAAAT
TCAGAAAAAT
TCAGAAAAAT
TGAGAAAATT
TGAGAAAATT
ACAGAATTTT
ACAGAATTTT
ATTGAATATT
TCAAAAAAAT
ACAAAATTTT
ACAAAATTTT
TCTGAATTTT
TTAGAATTTT
TTAGAATTTT
ACACAATATT
TCTGAATTTT
ACAGAATACT
TCTGAATTTT
ACAGAAAAAT
ACAGAATACT
ACAAAATAAT
ACAAAATAAT
TCTGAAAAAT
TCTGAAAAAT
TCTGAAAAAT
TTAGAATAAT
TCGGAAAAAT
TCTGAAAAAT
TCAAAATATT
TCAAAATATT
TCAAAAAATT
ACTGAAATTT
TCGGAATAAT
TCGGAATAAT
TAAGAAAATT
TCCGAAAAAT
ACAGAATCTT
ACAGAATCTT
TCAGAAAAGT
TCAGAAAAGT
ACAAAATATT
TTAGAATATT
ACAGAATCTT
AAAGAAAATT
TCAGAATTAT
ACAAAAGATT
TCTAAATATT
ACAGAAAAGT
TCGAAATATT
ACAGAATTAT
ACAAAATTAT
ACGGAACATT
TCAGATTATT
TTTGAATATT
TTGGAATATT
TTGGAATATT
TTTGAATATT
TCTGAATTAT
TCTGAATTAT
ACGAAATATT
ACGAAATATT
ACTGAAATAT
ACTGAAATAT
TCAAAATTTT
TCAAAATTTT
TGAGAAAATT
TGAGAAAATT
ATTGAAAATT
AGTGAATTTT
TCTGATAAGT
TCTCAATATT
TCTCAATATT
TAAGAAAATT
ACTAAATTTT
TTAGACAATT
ATTGATAATT
ATTGATAATT
TCGGAAATTA
TCGGAAATTA
TCTAAATCTT
TGACAAAATT
TTTGAATCTT
TTACAAAAAT
ACAGAAAAGA
TCTGACTTTT
ATTGAAAATA
ATTGAAAATA
GTTGAATTGT

Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type
TCAGAAAATT
... ... acpD BAS1772 BAS1773
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATT
... ... BAS2066 BAS2065 BAS2067 BAS2068 BAS2069 BAS2070 BAS2072
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS4664 BAS4663 BAS4665 BAS4666 BAS4667
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATATT
... ... BAS4261 BAS4260 BAS4259 BAS4258 BAS4262 BAS4263 BAS4264 BAS4265
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATATT
... ... BAS2970 BAS2969 BAS2971 BAS2972 BAS2973 BAS2974
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS2497 BAS2498 BAS2499 BAS2500 BAS2501 BAS2502 BAS2503
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS2667 BAS2665 BAS2668 BAS2669 BAS2670 BAS2671
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS2099 BAS2098 BAS2097 BAS2096 BAS2095 BAS2100 BAS2101
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS3949 mtnB mtnX mtnW BAS3950 BAS3951 BAS3952 BAS3953
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... BAS3219 BAS3218 BAS3217 BAS3216 BAS3215 BAS3220 BAS3221 BAS3223
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... BAS2227 BAS2229 BAS2230 BAS2231 BAS2232 BAS2233 BAS2234 BAS2235
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... BAS0604 BAS0603 BAS0602 BAS0601 BAS0600 BAS0599 BAS0598 BAS0597 BAS0605 BAS0606 BAS0607 BAS0608 BAS0609
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS1311 BAS1310 ilvH BAS1308 BAS1312 BAS1313 leuD
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATTTT
... ... BAS3109 BAS3110 BAS3111 BAS3112 BAS3113
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATTTT
... ... BAS3109 BAS3110 BAS3111 BAS3112 BAS3113
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATTTT
... ... BAS1292 BAS1293
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATTTT
... ... BAS1292 BAS1293
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAAAT
... ... BAS3109 BAS3108 BAS3107 BAS3106 BAS3110 BAS3111 BAS3112 BAS3113
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAAAT
... ... BAS3109 BAS3108 BAS3107 BAS3106 BAS3110 BAS3111 BAS3112 BAS3113
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS4678 BAS4677 BAS4676 BAS4675 BAS4674 BAS4673 BAS4679 BAS4681 BAS4682 BAS4683 BAS4685 BAS4684
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS4510 BAS4509 BAS4508 BAS4507 BAS4506 BAS4511 BAS4512
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS4510 BAS4509 BAS4508 BAS4507 BAS4506 BAS4511 BAS4512
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS4259 BAS4258 BAS4260 BAS4261
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... fabG BAS1820 BAS1821 BAS1822 BAS1823 BAS1824
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS0517 BAS0516 BAS0515 BAS0514 BAS0518
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAAAT
... ... BAS4903 BAS4902 BAS4901 BAS4900 BAS4904
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAAAT
... ... BAS4903 BAS4902 BAS4901 BAS4900 BAS4904
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATTTT
... ... BAS2861 BAS2859 BAS2860 BAS2858 BAS2857 BAS2862 BAS2863 BAS2864 BAS2865
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATTTT
... ... BAS2861 BAS2859 BAS2860 BAS2858 BAS2857 BAS2862 BAS2863 BAS2864 BAS2865
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATAAT
... ... BAS2260 BAS2259 BAS2258 BAS2261 BAS2262
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATAAT
... ... BAS2260 BAS2259 BAS2258 BAS2261 BAS2262
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS3448 BAS3447 BAS3449
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATT
... ... BAS3122 BAS3123 BAS3124
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATT
... ... BAS3122 BAS3123 BAS3124
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS2824 BAS2823 BAS2822 BAS2821 BAS2825 BAS2826 BAS2827
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS1375 BAS1374 BAS1376 BAS1377 BAS1378 BAS1379 BAS1380 BAS1381
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS0761 BAS0762 BAS0764 BAS0765
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS1375 BAS1374 BAS1376 BAS1377 BAS1378 BAS1379 BAS1380 BAS1381
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATT
... ... BAS1228 BAS1227 BAS1226 BAS1225 BAS1224 BAS1229 fabG BAS1231 BAS1232 BAS1233 BAS1234
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATT
... ... BAS1228 BAS1227 BAS1226 BAS1225 BAS1224 BAS1229 fabG BAS1231 BAS1232 BAS1233 BAS1234
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAATT
... ... BAS0609 BAS0608 BAS0607 BAS0606 BAS0605 BAS0610 BAS0611 BAS0612
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAATT
... ... BAS4916 BAS4915 BAS4917 BAS4918 BAS4919 BAS4920 BAS4921 BAS4922
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAATT
... ... BAS3877 BAS3878
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTGAAATTT
... ... BAS1631 BAS1630 BAS1633
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAATT
... ... BAS0522 BAS0521 BAS0523
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAATT
... ... BAS0522 BAS0521 BAS0523
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTGAATTTT
... ... BAS5309 BAS5310 BAS5311
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAATT
... ... BAS3877 BAS3878
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAACTT
... ... xerC BAS3681 hslU BAS3679 BAS3683 BAS3684
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAGATT
... ... BAS3379 BAS3380
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS4666 BAS4665 BAS4667
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS4666 BAS4665 BAS4667
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... alaS BAS4283 BAS4282 BAS4281 BAS4285 BAS4286
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... alaS BAS4283 BAS4282 BAS4281 BAS4285 BAS4286
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS4013 BAS4012 BAS4011 BAS4010 BAS4009 BAS4014 BAS4015 BAS4017 BAS4016
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATATT
... ... BAS1070 BAS1069 rocD
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS0847 BAS0846 BAS0845 BAS0848
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATT
... ... BAS0847 BAS0846 BAS0845 BAS0848
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS0841 BAS0842 BAS0843 BAS0844
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAAAAAATT
... ... BAS4735 BAS4734 BAS4733 BAS4731 BAS4730 BAS4729 BAS4728 BAS4727 BAS4726 BAS4725 BAS4736 BAS4737 BAS4738 BAS4739 BAS4740
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAATATT
... ... BAS5072 BAS5071 BAS5073 BAS5074
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAATATT
... ... BAS5072 BAS5071 BAS5073 BAS5074
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAATATT
... ... BAS3405 BAS3404 BAS3406 BAS3407 BAS3408
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAATATT
... ... BAS3405 BAS3404 BAS3406 BAS3407 BAS3408
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS2785 BAS2784 proC BAS2786 BAS2787
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATTAT
... ... flgG BAS1595 flhA flhB fliR fliQ fliP BAS1588 BAS1587 BAS1585 BAS1584 BAS1583 BAS1597 BAS1598 BAS1599 BAS1600
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAATATT
... ... ipk BAS0045 BAS0046
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TTAGAAAATT
... ... amiF BAS3850 BAS3852 BAS3853 BAS3854 BAS3855 BAS3856 BAS3857
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAAAATT
... ... BAS2785 BAS2784 proC BAS2786 BAS2787
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTGAATATT
... ... BAS1516 BAS1515 BAS1514 BAS1513 BAS1517 BAS1518
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAATATA
... ... BAS5331 BAS5330 BAS5329 BAS5328 BAS5332 BAS5333
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCTAAAAATT
... ... BAS0009 rRNA-5s-1 rRNA-23s-1 tRNA-Ala-2 tRNA-Ile-2 rRNA-16s-1 BAS0011 BAS0012
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCCGAAAATT
... ... BAS1931 BAS1930 BAS1929 BAS1928 BAS1927 BAS1932 BAS1933 BAS1934 BAS1935
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCCGAAAATT
... ... BAS1931 BAS1930 BAS1929 BAS1928 BAS1927 BAS1932 BAS1933 BAS1934 BAS1935
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCGAAAAATT
... ... BAS3320 BAS3319 BAS3321
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTGAAAATT
... ... BAS0523 BAS0524 BAS0525
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACGGAATATT
... ... BAS0435 BAS0434 BAS0433 BAS0432 BAS0436
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGATAATT
... ... BAS4891 BAS4892
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTAAAAATT
... ... BAS1686 BAS1685 BAS1684 BAS1687 BAS1688
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTAAAAATT
... ... BAS1686 BAS1685 BAS1684 BAS1687 BAS1688
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAAAATA
... ... trpA BAS1161 BAS1160 trpC trpD BAS1157 BAS1156 BAS1163 BAS1165 BAS1166 BAS1167
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACTAAAAATT
... ... BAS1077 BAS1078 BAS1079
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
GCAGAAAATT
... ... BAS0310 BAS0311 BAS0312 BAS0313 BAS0314 BAS0315
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
GCAGAAAATT
... ... BAS0304 gatC gatA gatB
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACGAAATATT
... ... hisG hisZ hisD hisB hisH BAS1320 BAS1321 hisI hisE BAS1324
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCGGAATTAT
... ... BAS4901 BAS4900 BAS4902 BAS4903
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCACAATATT
... ... BAS4808 BAS4807 BAS4809 BAS4810 BAS4811
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGATTATT
... ... BAS4451 BAS4450 BAS4449 BAS4448 BAS4447 BAS4452 BAS4453
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAAAT
... ... BAS0831 BAS0832 BAS0833
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAAAT
... ... BAS0036 BAS0035 BAS0034 BAS0033 BAS0032 BAS0031 BAS0030 tmk BAS0028 BAS0027 metG
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAGAAAAAT
... ... BAS0036 BAS0035 BAS0034 BAS0033 BAS0032 BAS0031 BAS0030 tmk BAS0028 BAS0027 metG
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TGAGAAAATT
... ... BAS4693 BAS4692 BAS4694
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TGAGAAAATT
... ... BAS4693 BAS4692 BAS4694
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS3467 BAS3466 BAS3465 BAS3464 BAS3468 BAS3469
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAGAATTTT
... ... BAS2659 BAS2658 BAS2657 BAS2656 BAS2660
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ATTGAATATT
... ... BAS1160 trpC trpD BAS1157 BAS1156 BAS1161 trpA BAS1163 BAS1165 BAS1166 BAS1167
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
TCAAAAAAAT
... ... BAS1915 BAS1916 BAS1917 BAS1918 BAS1919 BAS1920 BAS1921
Experimental technique details ChIP-Seq (ECO:0006009) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details Motif-discovery (ECO:0005558) - not specified not specified
ACAAAATTTT
... ... BAS2359 BAS2360