Skip to main content

Table 3 Predicted RpoN-binding sites in X. fastidios a genome.

From: Global gene expression under nitrogen starvation in Xylella fastidiosa: contribution of the σ54 regulon

Gene ID

Position*

Sequence

Score

Product

XF2542

-76

TGGCACACCTTCTGCT

12.38

fimbrial protein

XF1354

-122

TGGTACGGTATTTGCT

11.58

MarR family transcriptional regulator

XF0158

-127

CGGCACGTGTGTTGCT

11.32

hypothetical protein (XF0158-59-60)

XF1842#

-46

TGGTATGCCAATTGCT

10.52

glutamine synthetase

XF0623

-246

TGGCACGGGAATTGAA

10.62

hypothetical protein

XF0220

-129

TGGGATGGTTCTTGCT

10.46

proline dipeptidase

XF0178

-177

TGGCATGCCAAATGCA

10.39

conserved hypothetical protein (XF0178-79)

XF0414

-189

TGGCGAGCATCTTGCA

10.29

hypothetical protein (XF0414-15)

XF1850

-7

CGGCACATGCGTTGCT

10.26

hypothetical protein (probable transposase)

XF1471

-230

CGGCACGGAATTCGCA

10.22

hypothetical protein

XF1315

-116

AGGCACTGCGGTTGCA

10.10

hypothetical protein (XF1315-relA-XF1317-18)

XF0746

-227

TGGCACTGCCAATGCA

9.93

hypothetical protein

XF1121

-82

CGGCACGACCCCTGCC

9.42

5,10-methylenetetrahydrofolate reductase

XF0010

-63

TGGTCCGGCCAGTGCA

9.36

biopolymer transport ExbB protein (exbB-exbD-exbD2-XF0013)

XF0507

-213

CGGCGCGGGTTTCGCT

9.29

hypothetical protein (XF0507-08)

XF1784

-151

TGGCACGTCAAGCGCA

9.26

hypothetical protein (ParB-like nuclease domain) (XF1784-83-82-81)

XF1943

-342

CGGCACGCTGATGGCA

9.20

histone-like protein

XF0305

-65

GGGCACCATATTTGCT

9.14

NADH dehydrogenase subunit A (nuoABCDEFGHIJKLMN)

XF1249

-207

CGGCCCGCAGCATGCT

8.97

hypothetical protein

XF1749

-27

TGGCGCGGCGTTTCCT

8.92

MFS transporter (XF1749-48-47-46)

XF0290

-30

CGGCACTGCCACTGCA

8.90

aconitate hydratase

XF2580

-109

CGGCACGGAGGCGGCA

8.81

30S ribosomal protein S2

XF2639

-43

TGGCGCGCCACTTTCT

8.79

preprotein translocase subunit SecE (secE-nusG)

XF0177

-161

TGGCCTGCATTTGGCA

8.79

hypothetical protein

XF2260

-305

TGGAACAGAAGGTGCT

8.75

alanyl dipeptidyl peptidase

XF1213

-151

CGGCTCCCCTCTTGCT

8.74

GTP-binding elongation factor protein

XF2724

-28

TGGCACAGTGCCAGCA

8.69

type I restriction-modification system (XF2724-23-22-21)

XF2677

-164

GGGCGTGATGCTTGCA

8.65

L-ascorbate oxidase

XF1609

-164

TGGCAGGTGTTGTGCT

8.60

MFS glucose/galactose transporter (XF1609-10-11)

XF2745

-15

CGGCGTGGCCGGTGCA

8.59

hypothetical protein

XF0695

-50

AGGCGCGCCGTTCGCA

8.59

hypothetical protein

XF1355

-223

TGGCAGTGCCGGTGCA

8.51

hypothetical protein

XF2501

-183

CGGCACGGAGGGGGCA

8.44

hypothetical protein (phage-related protein)

XF0710

-183

CGGCACGGAGGGGGCA

8.44

hypothetical protein (phage-related protein)

XF2093

-263

TGGCATCCAAAGTGCA

8.40

HlyD family secretion protein (XF2093-94)

XF1640

-56

TGGCAGTGCTACTGCA

8.40

ankyrin-like protein

XF2008

-44

CGGCACGCAACACGCA

8.30

hypothetical protein

XF2733

-86

TGGCAACCGCATTGCG

8.28

hypothetical protein

XF2408

-25

AGGCCCCGCAGTTGCG

8.28

hypothetical protein (XF2408-09-10)

XF0567

-16

TGGAGCACTCTTTGCA

8.22

hypothetical protein

XF2358

-36

TGGAACGCAATCTGCG

8.17

23S rRNA 5-methyluridine methyltransferase

XF0726

-255

TGGCGTGGTGGCCGCA

8.14

hypothetical protein (XF0726-27-28-29)

XF2202

-80

GGGGATGGGTGTTGCT

8.11

hypothetical protein

XF0625

-46

TGGAATTGCTATTGCT

8.11

hypothetical protein

XF0641

-179

TGGCAAAGCGGTTGAA

8.07

DNA methyltransferase (XF0641-40)

  1. * Distance between the -12 region of the promoter relative to the initiation codon.
  2. # Predicted RpoN-binding site detected upstream of the re-annotated initiation codon of XF1842 (glnA).