DoriC database

DoriC accession number ORI10010008
Organism Campylobacter jejuni subsp. jejuni NCTC 11168
RefSeq NC_002163.1
Topology Circular
Lineage Bacteria, Proteobacteria, Epsilonproteobacteria, Campylobacterales, Campylobacteraceae, Campylobacter.
Chromosome size 1641481 nt
Chromosome GC content 0.3055
OriC length 159 nt
OriC AT content 0.7799
The number of DnaA box 3
The location of oriC region 1324..1482 nt
The location of dnaA gene 1..1323 nt
The extremes of GC disparity 1641389 nt (minimum), 814405 nt (maximum)
Note Note that the DnaA box motif (tttttcaca) was looked for with no more than one mismatch instead of E. coli perfect DnaA box (ttatccaca).
OriC Sequence

gtgaaaggaTGTGAAAAAtaaattctagagTGTGAAAAAaagaaattaagcaaagtatgataaaatacaaatttgattattttgcTTTGAAAAAtttcacaatttcaacaagcttattattacaacgaatttaaaattaaaataaaccaaggagaaaaa

The information of repeat
The following lines contain repeats found, one line each.
[1] - repeat length of the first part
[2] - starting position of the first part
[4] - repeat length of the second part
[5] - starting position of the second part
[6] - distance of this repeat
[7] - calculated evalue of this repeat
[8] - repeat sequence

For more details, please refer to The Manual of REPuter.

12 131 R 12 131 0 4.24e-04 taaaattaaaat
9 9 F 9 30 0 2.71e-02 tgtgaaaaa
9 33 R 9 33 0 2.71e-02 gaaaaaaag
11 13 F 11 36 -1 5.59e-02 aaaaa[tg]aaatt
11 42 R 11 123 -1 5.59e-02 aa[at]ttaagcaa
11 127 R 11 130 -1 5.59e-02 aa[ta]ttaaaatt
11 127 P 11 127 -1 5.59e-02 aattt[at]aaatt
8 11 F 8 87 0 1.08e-01 tgaaaaat
8 14 F 8 138 0 1.08e-01 aaaataaa
8 59 R 8 59 0 1.08e-01 ataaaata
8 67 P 8 67 0 1.08e-01 caaatttg
8 113 R 8 113 0 1.08e-01 ttattatt
10 47 P 10 77 -1 2.03e-01 aagcaaa[ga]ta
10 127 F 10 133 -1 2.03e-01 aa[ta]ttaaaat
7 9 P 7 94 0 4.34e-01 tgtgaaa
7 14 P 7 76 0 4.34e-01 aaaataa
7 15 R 7 139 0 4.34e-01 aaataaa
7 15 R 7 15 0 4.34e-01 aaataaa
7 18 P 7 126 0 4.34e-01 taaattc
7 28 R 7 28 0 4.34e-01 agtgtga
7 30 P 7 94 0 4.34e-01 tgtgaaa
7 32 F 7 87 0 4.34e-01 tgaaaaa
7 36 R 7 152 0 4.34e-01 aaaaaga
7 38 R 7 38 0 4.34e-01 aaagaaa
7 42 F 7 133 0 4.34e-01 aaattaa
7 42 R 7 134 0 4.34e-01 aaattaa
7 53 R 7 53 0 4.34e-01 agtatga
7 59 R 7 137 0 4.34e-01 ataaaat
7 60 F 7 137 0 4.34e-01 taaaata
7 76 P 7 138 0 4.34e-01 ttatttt
7 90 R 7 129 0 4.34e-01 aaaattt
7 92 F 7 100 0 4.34e-01 aatttca
7 115 R 7 115 0 4.34e-01 attatta
7 127 R 7 127 0 4.34e-01 aatttaa
7 139 R 7 139 0 4.34e-01 aaataaa
9 12 C 9 112 -1 7.32e-01 gaa[at]aataa
9 13 F 9 132 -1 7.32e-01 aaaa[at]taaa
9 13 R 9 133 -1 7.32e-01 aaaa[at]taaa
9 13 R 9 62 -1 7.32e-01 aaa[ac]ataaa
9 18 C 9 128 -1 7.32e-01 taaatt[ct]ta
9 28 R 9 51 -1 7.32e-01 agt[ga]tgaaa
9 28 C 9 96 -1 7.32e-01 agtgt[gt]aaa
9 36 C 9 79 -1 7.32e-01 aaaa[ac]gaaa
9 69 C 9 136 -1 7.32e-01 aattt[gt]att
9 78 C 9 120 -1 7.32e-01 at[tg]ttgctt
9 84 R 9 89 -1 7.32e-01 cttt[ga]aaaa
9 106 P 9 109 -1 7.32e-01 aa[ct]aagctt
9 134 R 9 137 -1 7.32e-01 aa[ta]taaaat
6 0 F 6 31 0 1.74e+00 gtgaaa
6 0 F 6 10 0 1.74e+00 gtgaaa

Refseq NC_002163.1
Legend Figure1 shows the Z-curves for the original sequence. Figure2 shows the Z-curves for the rotated sequence beginning and ending in dif site or the maximum of the GC disparity curve. Short vertical red line indicates the indicator gene (such as dnaA, dnaN, gidA, hemE etc) location, and short up vertical dark blue arrow indicates the identified oriC location, short down vertical brown arrow indicates dif site location. Purple peaks with the diamonds indicates the DnaA box clusters.
Figure 1
zcurve
Figure 2
zcurve

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