ISAs9
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| CP000644 | ND | Aeromonas salmonicida | Aeromonas salmonicida subsp. salmonicida A449 Aeromonas salmonicida subsp. salmonicida A449 plasmid 4 |
DNA section
IS Length : 1626 bp
Ends
IR Length : 16/24
IRL : CCCCCAGTGGCAGGGTAGTTGTCGCCTGATTTTTTCACTGGGGGCTGGAG
IRR : CGGCGTTTTTCAAGGTAGTTGTCGTTTTTTATGCTGCCCGGCGTTCATTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TGAACGCTCA | TTCC | GGCTCAACCT | 4 |
| AGGTTGAGCC | GGAA | TGAGCGTTCA | 4 |
| AGGTTGAACC | GGAA | TGAGCGTTCA | 4 |
| TGAGCCGGAA | TTCACGTTGA | 0 |
DNA sequence
CCCCCAGTGGCAGGGTAGTTGTCGCCTGATTTTTTCACTGGGGGCTGGAGCTGTAAAATGGCTAATCACAGGATTGCGCCTGAGCTTAGGGAGAGAGCCA
TCATGCATATGATGCCACCCTATAACTGGAGCCTCAGACAGGTTGCTGATGATATTGGTGTTGGCATTGCAACTGTTCATGGCTGGCGAAAACAACTGGA
ACTAGAGGGGCTGATCATCCGAAAAATCGAACCCGACTCGGAGCATTCTACAGAGCAAATTTTTACGATCCTGCTTGAAACGGCCGCATTGTCTGAACAT
GAGTTGGCTGAGTATTGTCGGAAACATGGTCTGTACCCTGAGCATCTTGTGGCATGGAAGCAAAATTGCCTGGCGGCCAATCAGCCTAAGCATCGCCAAT
TGGTTGATGAACAGCGAGCTGTTCGTTCAGAGAAAGCCCGCATCCGAGCGCTTGAAAAAGAGCTACGTCGAAAAGACAAGGCTCTAGCCGAATTGGCTGC
ACTGCTGGTGCTTCAGGAAAAGTTATCAGCCCTCCGGGACAACGAAGAGGACGACTGACCTCTTACCCGGAGAGGCAACGGATAATTGCACTGATAGAGG
AAGCTGTAGACCACGGGGCTCGCTATGCGCAGGCCTGCCGAGTTGCGGGTATCACACACAGGACTTTTCAGCGATGGTTCTGTGACGGCAGGCTAAAACC
AGATGGAAGACCATTAGCCAGACGGCCAGTGCCAGCCAATAAGCTGACAGAACATGAGCGAACACGGGTACTACAGGTATGCTCTGAGGCTGAGTACGCG
TCTTTACCTCCGTCGAGGATCGTCCCCATGCTTGCTGACAGGGGCATATACCTTGCGTCGGAAGCAACATTCTATCGGCTCCTGAAGGCAGAAGATCAAT
TGCACCACAGAGCCGGTGGGAAACCCCGTGGTACTTATAGCCGTCCGACCAGCTATACAGCACATGGTCCGAACCAAGTCTGGTCTTGGGACATAACCCA
TTTGCCAGGAGAGGTTAAAGGGGAGCGGTATTATCTATACATGCTCATGGATGTATATAGCCGTAAAATTGTGGCAGCGGAAGTGAGGGAGGTTGAGCGC
GGTGAATATGCCGCAGCCTTGTTACAGCGGGCCGTCATCATGGAAAACTGCCGGAATAGCGGATTAATTTTACACTCAGATAACGGGGCTCCGATGAAGA
GCTTCACAATGCTGGCCAAAATGTATGAACTGGGTGTCTGCTCGTCATTCAGTAGACCCCGGGTCAGCAATGATAACCCCTACTCGGAGTCGCTGTTCCG
AACACTGAAATATTGCCCTGCATGGCCTGCCGATGGCTTTAGCGATATAAGCAAAGCACGGGCATGGGTACACAGCTTCATACGCTGGTACAACACCCAA
CATCGTCATAGCGGGATTAAGTTTGTCACACCAGAACAAAGGCACCAGGGTTTGGATAAGCCCCTGCTTAAACAACGGGAAGCAGTCTATGAAGCCGCAC
GATGCCAGCATCCTGAACGCTGGTCTGGTAAAACAAGGAACTGGACACCAGTAAGTATGGTGGCGCTCAATCCGGAAAATGAACGCCGGGCAGCATAAAA
AACGACAACTACCTTGAAAAACGCCG
TCATGCATATGATGCCACCCTATAACTGGAGCCTCAGACAGGTTGCTGATGATATTGGTGTTGGCATTGCAACTGTTCATGGCTGGCGAAAACAACTGGA
ACTAGAGGGGCTGATCATCCGAAAAATCGAACCCGACTCGGAGCATTCTACAGAGCAAATTTTTACGATCCTGCTTGAAACGGCCGCATTGTCTGAACAT
GAGTTGGCTGAGTATTGTCGGAAACATGGTCTGTACCCTGAGCATCTTGTGGCATGGAAGCAAAATTGCCTGGCGGCCAATCAGCCTAAGCATCGCCAAT
TGGTTGATGAACAGCGAGCTGTTCGTTCAGAGAAAGCCCGCATCCGAGCGCTTGAAAAAGAGCTACGTCGAAAAGACAAGGCTCTAGCCGAATTGGCTGC
ACTGCTGGTGCTTCAGGAAAAGTTATCAGCCCTCCGGGACAACGAAGAGGACGACTGACCTCTTACCCGGAGAGGCAACGGATAATTGCACTGATAGAGG
AAGCTGTAGACCACGGGGCTCGCTATGCGCAGGCCTGCCGAGTTGCGGGTATCACACACAGGACTTTTCAGCGATGGTTCTGTGACGGCAGGCTAAAACC
AGATGGAAGACCATTAGCCAGACGGCCAGTGCCAGCCAATAAGCTGACAGAACATGAGCGAACACGGGTACTACAGGTATGCTCTGAGGCTGAGTACGCG
TCTTTACCTCCGTCGAGGATCGTCCCCATGCTTGCTGACAGGGGCATATACCTTGCGTCGGAAGCAACATTCTATCGGCTCCTGAAGGCAGAAGATCAAT
TGCACCACAGAGCCGGTGGGAAACCCCGTGGTACTTATAGCCGTCCGACCAGCTATACAGCACATGGTCCGAACCAAGTCTGGTCTTGGGACATAACCCA
TTTGCCAGGAGAGGTTAAAGGGGAGCGGTATTATCTATACATGCTCATGGATGTATATAGCCGTAAAATTGTGGCAGCGGAAGTGAGGGAGGTTGAGCGC
GGTGAATATGCCGCAGCCTTGTTACAGCGGGCCGTCATCATGGAAAACTGCCGGAATAGCGGATTAATTTTACACTCAGATAACGGGGCTCCGATGAAGA
GCTTCACAATGCTGGCCAAAATGTATGAACTGGGTGTCTGCTCGTCATTCAGTAGACCCCGGGTCAGCAATGATAACCCCTACTCGGAGTCGCTGTTCCG
AACACTGAAATATTGCCCTGCATGGCCTGCCGATGGCTTTAGCGATATAAGCAAAGCACGGGCATGGGTACACAGCTTCATACGCTGGTACAACACCCAA
CATCGTCATAGCGGGATTAAGTTTGTCACACCAGAACAAAGGCACCAGGGTTTGGATAAGCCCCTGCTTAAACAACGGGAAGCAGTCTATGAAGCCGCAC
GATGCCAGCATCCTGAACGCTGGTCTGGTAAAACAAGGAACTGGACACCAGTAAGTATGGTGGCGCTCAATCCGGAAAATGAACGCCGGGCAGCATAAAA
AACGACAACTACCTTGAAAAACGCCG
Recoding section
- Recoding by frameshift
- Frame
- Type
- Experimentally demonstrated
Stimulators :
- Shine-Dalgarno sequence :
- Secondary structure :
Recoding motif :
Protein section
ORF number : 3
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 450 bp | 149 aa | 109 | 558 | + | No |
Description : First part of the transposase
ORF sequence :
MMPPYNWSLRQVADDIGVGIATVHGWRKQLELEGLIIRKIEPDSEHSTEQIFTILLETAALSEHELAEYCRKHGLYPEHLVAWKQNCLAANQPKHRQLVD
EQRAVRSEKARIRALEKELRRKDKALAELAALLVLQEKLSALRDNEEDD
EQRAVRSEKARIRALEKELRRKDKALAELAALLVLQEKLSALRDNEEDD
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1143 bp | 380 aa | 456 | 1598 | + | No |
Description : Second part of the transposase
ORF sequence :
KRATSKRQGSSRIGCTAGASGKVISPPGQRRGRLTSYPERQRIIALIEEAVDHGARYAQACRVAGITHRTFQRWFCDGRLKPDGRPLARRPVPANKLTEH
ERTRVLQVCSEAEYASLPPSRIVPMLADRGIYLASEATFYRLLKAEDQLHHRAGGKPRGTYSRPTSYTAHGPNQVWSWDITHLPGEVKGERYYLYMLMDV
YSRKIVAAEVREVERGEYAAALLQRAVIMENCRNSGLILHSDNGAPMKSFTMLAKMYELGVCSSFSRPRVSNDNPYSESLFRTLKYCPAWPADGFSDISK
ARAWVHSFIRWYNTQHRHSGIKFVTPEQRHQGLDKPLLKQREAVYEAARCQHPERWSGKTRNWTPVSMVALNPENERRAA
ERTRVLQVCSEAEYASLPPSRIVPMLADRGIYLASEATFYRLLKAEDQLHHRAGGKPRGTYSRPTSYTAHGPNQVWSWDITHLPGEVKGERYYLYMLMDV
YSRKIVAAEVREVERGEYAAALLQRAVIMENCRNSGLILHSDNGAPMKSFTMLAKMYELGVCSSFSRPRVSNDNPYSESLFRTLKYCPAWPADGFSDISK
ARAWVHSFIRWYNTQHRHSGIKFVTPEQRHQGLDKPLLKQREAVYEAARCQHPERWSGKTRNWTPVSMVALNPENERRAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1490 bp | 496 aa | 109 | 1598 | + | Yes |
Chemistry : DDE
ORF sequence :
MMPPYNWSLRQVADDIGVGIATVHGWRKQLELEGLIIRKIEPDSEHSTEQIFTILLETAALSEHELAEYCRKHGLYPEHLVAWKQNCLAANQPKHRQLVD
EQRAVRSEKARIRALEKELRRKDKALAELAALLVLQEKVISPPGQRRGRLTSYPERQRIIALIEEAVDHGARYAQACRVAGITHRTFQRWFCDGRLKPDG
RPLARRPVPANKLTEHERTRVLQVCSEAEYASLPPSRIVPMLADRGIYLASEATFYRLLKAEDQLHHRAGGKPRGTYSRPTSYTAHGPNQVWSWDITHLP
GEVKGERYYLYMLMDVYSRKIVAAEVREVERGEYAAALLQRAVIMENCRNSGLILHSDNGAPMKSFTMLAKMYELGVCSSFSRPRVSNDNPYSESLFRTL
KYCPAWPADGFSDISKARAWVHSFIRWYNTQHRHSGIKFVTPEQRHQGLDKPLLKQREAVYEAARCQHPERWSGKTRNWTPVSMVALNPENERRAA
EQRAVRSEKARIRALEKELRRKDKALAELAALLVLQEKVISPPGQRRGRLTSYPERQRIIALIEEAVDHGARYAQACRVAGITHRTFQRWFCDGRLKPDG
RPLARRPVPANKLTEHERTRVLQVCSEAEYASLPPSRIVPMLADRGIYLASEATFYRLLKAEDQLHHRAGGKPRGTYSRPTSYTAHGPNQVWSWDITHLP
GEVKGERYYLYMLMDVYSRKIVAAEVREVERGEYAAALLQRAVIMENCRNSGLILHSDNGAPMKSFTMLAKMYELGVCSSFSRPRVSNDNPYSESLFRTL
KYCPAWPADGFSDISKARAWVHSFIRWYNTQHRHSGIKFVTPEQRHQGLDKPLLKQREAVYEAARCQHPERWSGKTRNWTPVSMVALNPENERRAA
Blast result :
Comments
ISAs9 is 70% (orfAB) aa similar to IS1240.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
The ends as defined are not typical of the IS3 family, the proposed ends are based on the similarities with closely relative elements.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
The ends as defined are not typical of the IS3 family, the proposed ends are based on the similarities with closely relative elements.
References
1] Reith,M.E., Singh,R.K., Curtis,B., Boyd,J., Bouevitch,A., Kimball,J., Munholland,J., Murphy,C., Sarty,D., Williams,J., Nash,J., Johnson,S. and Brown,L. (2007) Direct submission to GenBank