ISSba4
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009052 | ND | Shewanella baltica | Shewanella baltica OS233 Shewanella baltica OS155 Shewanella baltica OS195 Shewanella baltica OS185 |
DNA section
IS Length : 1299 bp
Ends
IR Length : 22/25
IRL : TGTCCCGTCCTGAAATACGTTGACATAAAGAGGACTTCTTTATGACAACA
IRR : TGTCCCGTCCTAAGATAGGTTGACAGTTTCTAGGCCAGCTCCAGTAGCTG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTATTTGGCA | ATC | TACCAGACAG | 3 |
| TTTTAGTTAA | AAG | ATGTAGCGAT | 3 |
DNA sequence
TGTCCCGTCCTGAAATACGTTGACATAAAGAGGACTTCTTTATGACAACATCAAGTAACTCAAGCCGTAAGCGAACTCAACGCGATTATACCTTAGCTTT
TAAATTAGGCGTTGTTGAACGTGTTGAAAAAGGCGAAATGACTTACAAGCAAGCGCAGACTCGTTTTGGCATTCAGGGTAAAACAACGGTACTCGTCTGG
CTGAGAAAGCATGGTAAACTCGATTGGTCGAAACTCTTTCAGCATCCCCTTATGCCTCATTCAAAAGAAACCCCAGCCGAAACTATCAAGCGCCTTGAGC
GTGAGTTAGCCGAAGCGAAGCTGCGTAACCAAATTCTCAATGGTATGGTCGATATCATGGACAATGAATACGGAGCCGGCCTCAGAAAAAAGTACTTATC
CGGTATCTCTGGCAAGCCAAAACCCAAAGCAAAATAAACCTCGCCGTTGCGTGTCGCGCTGTCGGTATTTCACGGCAAGGTATTTATCAGGCTGTCGCCC
GAATGGCGAGCCGAAGCGCTGAGCTATCGGTCATCAAAGACTGGGTCCAATATTGGCGTAACTATATGCCACGATTGGGGACGCGTAAGCTCTATACTTT
GATACAGCCTAAGCTGGTTGAACATGATATCAAACTCGGGCGAGACGGGTTCTTTACCTACTTGAGAAGTGAAGGCTTGCTAGTTAAGCCCAAGAGAAGC
TTCACAAAAACGACATTCAGCAAGCATTGGATGAAGAAGCATCCCAACCTGCTGAAGGAAGAGGGACTACACGATGTCGAGCATGTACTGGTCAGCGATA
TTACCTATCTCGAATCAGACCAAGGCGTGCACTATTTGTCACTGGTGACCGATGCCGCGTCACGTAAGATAGTCGGTCATCACTTGAGTTCGGACATGAA
AGCAGAAAGCGTAGTGAAAGCACTGAAAATGGCGGTCAAAGATAAGCGCTATAGCGCTAATGCGGTCCATCACTCAGACCGAGGTTCGCAATACTGCTCA
GCTGTTTATCAAGATAAACTGCAGGCCAACCATATTCAGCCGTCGATGACAGACGGTTATGATTGCTATCAAAATACGTTAGCAGAACGAGTAAACGGGA
TCCTGAAGCAGGAGTTTTTACTCTACCGATGTAAAACGCTGGAAGAGCTGAAGAGACTTGTTAGAGAATCGATAGCGATATACAACGAAATGAGACCGCA
TCTGAGTTTGGATATGGAAACACCCAATCAGGTGCATAATAGAAAAGGCCAGCTACTGGAGCTGGCCTAGAAACTGTCAACCTATCTTAGGACGGGACA
TAAATTAGGCGTTGTTGAACGTGTTGAAAAAGGCGAAATGACTTACAAGCAAGCGCAGACTCGTTTTGGCATTCAGGGTAAAACAACGGTACTCGTCTGG
CTGAGAAAGCATGGTAAACTCGATTGGTCGAAACTCTTTCAGCATCCCCTTATGCCTCATTCAAAAGAAACCCCAGCCGAAACTATCAAGCGCCTTGAGC
GTGAGTTAGCCGAAGCGAAGCTGCGTAACCAAATTCTCAATGGTATGGTCGATATCATGGACAATGAATACGGAGCCGGCCTCAGAAAAAAGTACTTATC
CGGTATCTCTGGCAAGCCAAAACCCAAAGCAAAATAAACCTCGCCGTTGCGTGTCGCGCTGTCGGTATTTCACGGCAAGGTATTTATCAGGCTGTCGCCC
GAATGGCGAGCCGAAGCGCTGAGCTATCGGTCATCAAAGACTGGGTCCAATATTGGCGTAACTATATGCCACGATTGGGGACGCGTAAGCTCTATACTTT
GATACAGCCTAAGCTGGTTGAACATGATATCAAACTCGGGCGAGACGGGTTCTTTACCTACTTGAGAAGTGAAGGCTTGCTAGTTAAGCCCAAGAGAAGC
TTCACAAAAACGACATTCAGCAAGCATTGGATGAAGAAGCATCCCAACCTGCTGAAGGAAGAGGGACTACACGATGTCGAGCATGTACTGGTCAGCGATA
TTACCTATCTCGAATCAGACCAAGGCGTGCACTATTTGTCACTGGTGACCGATGCCGCGTCACGTAAGATAGTCGGTCATCACTTGAGTTCGGACATGAA
AGCAGAAAGCGTAGTGAAAGCACTGAAAATGGCGGTCAAAGATAAGCGCTATAGCGCTAATGCGGTCCATCACTCAGACCGAGGTTCGCAATACTGCTCA
GCTGTTTATCAAGATAAACTGCAGGCCAACCATATTCAGCCGTCGATGACAGACGGTTATGATTGCTATCAAAATACGTTAGCAGAACGAGTAAACGGGA
TCCTGAAGCAGGAGTTTTTACTCTACCGATGTAAAACGCTGGAAGAGCTGAAGAGACTTGTTAGAGAATCGATAGCGATATACAACGAAATGAGACCGCA
TCTGAGTTTGGATATGGAAACACCCAATCAGGTGCATAATAGAAAAGGCCAGCTACTGGAGCTGGCCTAGAAACTGTCAACCTATCTTAGGACGGGACA
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 | |
|---|---|---|---|---|---|
| 396 bp | 131 aa | 42 | 437 | + | No |
Description : First part of the transposase
ORF sequence :
MTTSSNSSRKRTQRDYTLAFKLGVVERVEKGEMTYKQAQTRFGIQGKTTVLVWLRKHGKLDWSKLFQHPLMPHSKETPAETIKRLERELAEAKLRNQILN
GMVDIMDNEYGAGLRKKYLSGISGKPKPKAK
GMVDIMDNEYGAGLRKKYLSGISGKPKPKAK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 833 bp | 292 aa | 438 | 1270 | + | No |
Description : Second part of the transposase
ORF sequence :
VLIRYLWQAKTQSKINLAVACRAVGISRQGIYQAVARMASRSAELSVIKDWVQYWRNYMPRLGTRKLYTLIQPKLVEHDIKLGRDGFFTYLRSEGLLVKP
KRSFTKTTFSKHWMKKHPNLLKEEGLHDVEHVLVSDITYLESDQGVHYLSLVTDAASRKIVGHHLSSDMKAESVVKALKMAVKDKRYSANAVHHSDRGSQ
YCSAVYQDKLQANHIQPSMTDGYDCYQNTLAERVNGILKQEFLLYRCKTLEELKRLVRESIAIYNEMRPHLSLDMETPNQVHNRKGQLLELA
KRSFTKTTFSKHWMKKHPNLLKEEGLHDVEHVLVSDITYLESDQGVHYLSLVTDAASRKIVGHHLSSDMKAESVVKALKMAVKDKRYSANAVHHSDRGSQ
YCSAVYQDKLQANHIQPSMTDGYDCYQNTLAERVNGILKQEFLLYRCKTLEELKRLVRESIAIYNEMRPHLSLDMETPNQVHNRKGQLLELA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1229 bp | 409 aa | 42 | 1270 | + | Yes |
Chemistry : DDE
ORF sequence :
MTTSSNSSRKRTQRDYTLAFKLGVVERVEKGEMTYKQAQTRFGIQGKTTVLVWLRKHGKLDWSKLFQHPLMPHSKETPAETIKRLERELAEAKLRNQILN
GMVDIMDNEYGAGLRKKVLIRYLWQAKTQSKINLAVACRAVGISRQGIYQAVARMASRSAELSVIKDWVQYWRNYMPRLGTRKLYTLIQPKLVEHDIKLG
RDGFFTYLRSEGLLVKPKRSFTKTTFSKHWMKKHPNLLKEEGLHDVEHVLVSDITYLESDQGVHYLSLVTDAASRKIVGHHLSSDMKAESVVKALKMAVK
DKRYSANAVHHSDRGSQYCSAVYQDKLQANHIQPSMTDGYDCYQNTLAERVNGILKQEFLLYRCKTLEELKRLVRESIAIYNEMRPHLSLDMETPNQVHN
RKGQLLELA
GMVDIMDNEYGAGLRKKVLIRYLWQAKTQSKINLAVACRAVGISRQGIYQAVARMASRSAELSVIKDWVQYWRNYMPRLGTRKLYTLIQPKLVEHDIKLG
RDGFFTYLRSEGLLVKPKRSFTKTTFSKHWMKKHPNLLKEEGLHDVEHVLVSDITYLESDQGVHYLSLVTDAASRKIVGHHLSSDMKAESVVKALKMAVK
DKRYSANAVHHSDRGSQYCSAVYQDKLQANHIQPSMTDGYDCYQNTLAERVNGILKQEFLLYRCKTLEELKRLVRESIAIYNEMRPHLSLDMETPNQVHN
RKGQLLELA
Blast result :
Comments
There are 2 copies of ISSba4 in the Shewanella baltica OS155 genome, one is interrupted by another IS element. ORF3 is the deduced sequence resulting from programmed frameshifting of ORF1 and ORF2. ORF3 has 88% identity with ISShes2_aa3.
References
1] Romine, M. (2008) Direct submission.