oriTDB
The information of the oriT region
oriTDB accession number 100157
Name oriT_pSRQ900  insolico
Sequence Completeness intact
oriT length 417 nt
oriT sequence CATGGTTTTAGAAAAAAGAGGGACGATTTCGGAAGACGAAATTCGTCTCTTTTTTTCTTC TTTTTGTATGACAAAAAGAAAGATCTTTTGCCCATTTTATAAAAATAAAATGGGTAGGTG GCGTTTGCGTAAAGCAAATCGACACAATCCAAAGGGGATAAAAGGGGAAAGTGAAACTTC CCTCTTTTCAAGCCACATTGTAATACAAGAACGAAGTGCTTTGTATTACAATGTGATAGC TTGCAGTATTTATGGTTTTATATGGTCTATTTTGTTGTGAGGATTGTAACCGAATAGGGC GCAATACTTATTACAAAATCAATGACAAAGGGCGATTGAGGAATGAGCGCTGAGGCATTT TATTTTAAAAAAAAACTATTTATAAGTTCGAAATATGTATCACAACTTTAATACGTG
IR (inverted repeat)IR1: [91-100] [105-114] nt  (CCCATTTTAT..ATAAAATGGG)
IR2: [160-172] [176-188] nt  (AAAAGGGGAAAGT..ACTTCCCTCTTTT)
IR3: [195-208] [221-234] nt  (ACATTGTAATACAA..TTGTATTACAATGT)
Location of nic site [243-244] nt
Conserved sequence flanking the
  nic site 		CTTG|CA
Note similar to lactococcal plasmids transfer origins (pGL3, pGL4, pCD4, pSRQ800 and pIL7)
L:91-100;R:105-114;L:160-172;R:176-188;L:195-208;R:221-234;D:243-244
Visualization of oriT structure
1...5....10....15....20....25....30....35....40....45....50....55....60
1

CATGGTTTTAGAAAAAAGAGGGACGATTTCGGAAGACGAAATTCGTCTCTTTTTTTCTTC

61

TTTTTGTATGACAAAAAGAAAGATCTTTTGCCCATTTTATAAAAATAAAATGGGTAGGTG

121

GCGTTTGCGTAAAGCAAATCGACACAATCCAAAGGGGATAAAAGGGGAAAGTGAAACTTC

181

CCTCTTTTCAAGCCACATTGTAATACAAGAACGAAGTGCTTTGTATTACAATGTGATAGC

241

TTGCAGTATTTATGGTTTTATATGGTCTATTTTGTTGTGAGGATTGTAACCGAATAGGGC

301

GCAATACTTATTACAAAATCAATGACAAAGGGCGATTGAGGAATGAGCGCTGAGGCATTT

361

TATTTTAAAAAAAAACTATTTATAAGTTCGAAATATGTATCACAACTTTAATACGTG

Reference
[1] Boucher I et al (2001) DNA sequence analysis of three Lactococcus lactis plasmids encoding phage resistance mechanisms. J Dairy Sci. 84(7):1610-20. [PMID:11467810]

Microbial Bioinformatics Group in MML, SJTU