ISDsh2
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NZ_AAVE01000002 | ND | Dinoroseobacter shibae | Dinoroseobacter shibae DFL 12 |
DNA section
IS Length : 1203 bp
Ends
IR Length : 32/47
IRL : TGACCTGCTCCCCTGAAATGTCCTCAAATTTTGGTTAGCCTGTTCTCTAA
IRR : TGACCTGCTCCCCTTTGAGTCCGCGTTTATAGGTTAGCTCTGTTCAGGGT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CGGCAAGGAC | ATGA | CCATCGAACC | 4 |
DNA sequence
TGACCTGCTCCCCTGAAATGTCCTCAAATTTTGGTTAGCCTGTTCTCTAAGTGAGGAGACAGACGATGAAGAGAAGCCGTTTCAGTGAAGAACAGATCAT
TGGCATTCTTAAGGAGCACCAGGCTGGGTTGGGCGCGAAGGAGTTGTGTCGCAAGTACGGGATCAGTGACGCGACCTTCTACAAGTGGCGATCCAAGTAT
GGTGGCATGGAAGTGTCAGATGCGCGACGTTTGAAGACGCTGGAATCTGAGAACGCCAAACTGAAGAAGATGCTGGCTGAGCAGATGATGGATGTTGCGA
CGCTTAAGGAAATGCTTGGAAAAAACTTCTGAGGCCCGGTTCAAGGAGGAATGCCGTGGACTGGGCCATGAAGACAAAAGGCTACAATCAGCGCCGGGCG
TGCGCGCTGGCGGGGATCGATCCGCGTGTGTATCGGCGTCGGTCGAAGCGCCTTGCCGACACGGAACTGCGGGTGAGGATGAAAGAACTGGCGTCCGAGC
GGCGTCGGTTCGGTTATCGCCGCCTGCACATGCTGCTGAAGCGTGAGGGCTGGGAGGTAAACTGGAAGAAACTGTACCGGCTCTACCGCGACGAAGGGTT
AACCGTTCGTAAACGGGGCGGACGCAAGCGCGCAGTGGGCACCAGGACGCCCATGGCGATCCCGCAGGGGCCAAACCAGAGGTGGTCCCTCGACTTCATG
TCGGATGCGCTGGAAGACGGGCGTCGGTTCAGGGTGCTAAACGTGATTGATGACTTTAGCCGGGAATGTCTGGCCGCTGTGGTCGATACATCCATCAGCG
GCGCACGTGTCGCCCGCGAGTTGGATCGGATCGCCGAGCTGCGTGGGTACCCCTGCCTTGTGGTCAGCGACAATGGAACCGAACTGACAAGCAACGCGAT
GCTGAAATGGCAGGAAGACCGTAAAGTCGACTGGCACTACATCGCGCCCGGAAAGCCCATGCAGAATGGCCTCGTCGAAAGCTTCAACGGGAGGATGCGA
GAGGAATGCCTGAACGAACACCTGTTCCCGTCACTGCGCCATGCCTGCCGCATGATTGCGGCATGGCGCGACGACTACAACCACCACCGCCCGCACTCGA
GTCTCGACGGGCTCACCCCGCGGGAGTATCACCAACGGTCAAGAGAGGACCAAACCCTGAACAGAGCTAACCTATAAACGCGGACTCAAAGGGGAGCAGG
TCA
TGGCATTCTTAAGGAGCACCAGGCTGGGTTGGGCGCGAAGGAGTTGTGTCGCAAGTACGGGATCAGTGACGCGACCTTCTACAAGTGGCGATCCAAGTAT
GGTGGCATGGAAGTGTCAGATGCGCGACGTTTGAAGACGCTGGAATCTGAGAACGCCAAACTGAAGAAGATGCTGGCTGAGCAGATGATGGATGTTGCGA
CGCTTAAGGAAATGCTTGGAAAAAACTTCTGAGGCCCGGTTCAAGGAGGAATGCCGTGGACTGGGCCATGAAGACAAAAGGCTACAATCAGCGCCGGGCG
TGCGCGCTGGCGGGGATCGATCCGCGTGTGTATCGGCGTCGGTCGAAGCGCCTTGCCGACACGGAACTGCGGGTGAGGATGAAAGAACTGGCGTCCGAGC
GGCGTCGGTTCGGTTATCGCCGCCTGCACATGCTGCTGAAGCGTGAGGGCTGGGAGGTAAACTGGAAGAAACTGTACCGGCTCTACCGCGACGAAGGGTT
AACCGTTCGTAAACGGGGCGGACGCAAGCGCGCAGTGGGCACCAGGACGCCCATGGCGATCCCGCAGGGGCCAAACCAGAGGTGGTCCCTCGACTTCATG
TCGGATGCGCTGGAAGACGGGCGTCGGTTCAGGGTGCTAAACGTGATTGATGACTTTAGCCGGGAATGTCTGGCCGCTGTGGTCGATACATCCATCAGCG
GCGCACGTGTCGCCCGCGAGTTGGATCGGATCGCCGAGCTGCGTGGGTACCCCTGCCTTGTGGTCAGCGACAATGGAACCGAACTGACAAGCAACGCGAT
GCTGAAATGGCAGGAAGACCGTAAAGTCGACTGGCACTACATCGCGCCCGGAAAGCCCATGCAGAATGGCCTCGTCGAAAGCTTCAACGGGAGGATGCGA
GAGGAATGCCTGAACGAACACCTGTTCCCGTCACTGCGCCATGCCTGCCGCATGATTGCGGCATGGCGCGACGACTACAACCACCACCGCCCGCACTCGA
GTCTCGACGGGCTCACCCCGCGGGAGTATCACCAACGGTCAAGAGAGGACCAAACCCTGAACAGAGCTAACCTATAAACGCGGACTCAAAGGGGAGCAGG
TCA
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 | |
|---|---|---|---|---|---|
| 267 bp | 88 aa | 66 | 332 | + | No |
Description : First part of the transposase
ORF sequence :
MKRSRFSEEQIIGILKEHQAGLGAKELCRKYGISDATFYKWRSKYGGMEVSDARRLKTLESENAKLKKMLAEQMMDVATLKEMLGKNF
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 870 bp | 289 aa | 308 | 1177 | + | No |
Description : Second part of the transposase
ORF sequence :
GNAWKKLLRPGSRRNAVDWAMKTKGYNQRRACALAGIDPRVYRRRSKRLADTELRVRMKELASERRRFGYRRLHMLLKREGWEVNWKKLYRLYRDEGLTV
RKRGGRKRAVGTRTPMAIPQGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSISGARVARELDRIAELRGYPCLVVSDNGTELTSNAMLK
WQEDRKVDWHYIAPGKPMQNGLVESFNGRMREECLNEHLFPSLRHACRMIAAWRDDYNHHRPHSSLDGLTPREYHQRSREDQTLNRANL
RKRGGRKRAVGTRTPMAIPQGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSISGARVARELDRIAELRGYPCLVVSDNGTELTSNAMLK
WQEDRKVDWHYIAPGKPMQNGLVESFNGRMREECLNEHLFPSLRHACRMIAAWRDDYNHHRPHSSLDGLTPREYHQRSREDQTLNRANL
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1112 bp | 370 aa | 66 | 1177 | + | Yes |
Chemistry : DDE
ORF sequence :
MKRSRFSEEQIIGILKEHQAGLGAKELCRKYGISDATFYKWRSKYGGMEVSDARRLKTLESENAKLKKMLAEQMMDVATLKEMLGKKLLRPGSRRNAVDW
AMKTKGYNQRRACALAGIDPRVYRRRSKRLADTELRVRMKELASERRRFGYRRLHMLLKREGWEVNWKKLYRLYRDEGLTVRKRGGRKRAVGTRTPMAIP
QGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSISGARVARELDRIAELRGYPCLVVSDNGTELTSNAMLKWQEDRKVDWHYIAPGKPMQ
NGLVESFNGRMREECLNEHLFPSLRHACRMIAAWRDDYNHHRPHSSLDGLTPREYHQRSREDQTLNRANL
AMKTKGYNQRRACALAGIDPRVYRRRSKRLADTELRVRMKELASERRRFGYRRLHMLLKREGWEVNWKKLYRLYRDEGLTVRKRGGRKRAVGTRTPMAIP
QGPNQRWSLDFMSDALEDGRRFRVLNVIDDFSRECLAAVVDTSISGARVARELDRIAELRGYPCLVVSDNGTELTSNAMLKWQEDRKVDWHYIAPGKPMQ
NGLVESFNGRMREECLNEHLFPSLRHACRMIAAWRDDYNHHRPHSSLDGLTPREYHQRSREDQTLNRANL
Blast result :
Comments
Genome in progress.
ISDsh2 is 86 % (ORFA) aa similar to ISR1 and 70% (ORFB) aa similar to IS511. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISDsh2 is 86 % (ORFA) aa similar to ISR1 and 70% (ORFB) aa similar to IS511. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Pitluck,S. and Richardson,P. (2006) Direct submission GenBank.