ISSde6
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_007954 | ND | Shewanella denitrificans | Shewanella denitrificans OS217 |
DNA section
IS Length : 1235 bp
Ends
IR Length : 25/38
IRL : TGTTCTGGTCTAATTCCATCGGACACTTAATTTTGAGACAGTATGGTCAA
IRR : TGTACTGGTCAACCCAAATTGGACACTTTTAGTTGAGAATTTTCAAATTC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GTCAGCAGGT | GACCTAAGTG | 0 | |
| AACAAGCAGG | ATGCGCTTAG | 0 | |
| TAATGCAACC | CCCATTGTTA | 0 |
DNA sequence
TGTTCTGGTCTAATTCCATCGGACACTTAATTTTGAGACAGTATGGTCAATAAATTAAGAGGTCTATATGAGTCTAAAAAAATCACATAAGAGTTATCCT
CAAGCATATAAAGATGAAGCCGTCTTGATGGTGCTAGAGCAAGGTTATAGCGTTGCTGATGCAGCAAAGTCTCTTGGGGTTAGCACTAGTCTGCTTTACA
ACTGGAAGGAAAAACACCAAGCCCTACAACAAGGTATCGCCTTAGAAGAATCGGAACGTGATGAGTTAAAAAGATTGCGTAGAGAAAACAAAGAATTACG
CATGGAGAAAGAAATTCTAAAAAAGGCAAGTGCCTTCTTTGCGAGAGAAATGAAGTAAAATTTCGCTTCATCAAACAGCAATCAAACCTGTTCCCTATAG
CACTGTTATGTCGAGTAATGAGTGTCAGTAAGTCAGGCTATTACGATTGGCATAAACGCCCTACAAATGTGATAAGCCTTGAAACATTGAAGCTTTATCG
CCTTGTTCGACAGCTATTTAAGCAAAGTCGAGGCAGCTTAGGGAATCGTGAAATGGTGAAGAAATTGCGCAAGGAAGGCTACCAGGTTGGTCGCTATCTC
GTTCGTAAAATTATGCACCGCCTTCGACTCAAAGCTACCCAGCGACGAGCTTACAAGGTGACGACACAGCGAAAACACTCTGATGCAGTGGCTGATAATC
TGTTAAACATGAACTTTAACCCAGTATCCGCAAATCAGGTTTGGGCAGGTGACGTGACCTATTTAAAGACAGGTGAAGGCTGGATGTACTTGGCAGTGGT
AATGGATTTATATTCACGCCGGATTGTTGGATGGCACATAGACAAGCGTATGACCACGGATTTGATATCTAAGGCATTAATGAAAGCCTACAACCTGCGT
CAACCGGCCAGAGGGCTGGTATTTCACAGTGACCGAGGCTCACAGTATACCAGCAAGCAATTCGGTAAGCTGCTATCGAGCTATGGTATCCGAGCCAGTA
TGGGGGATGTGGGTGCGTGTTGGGATAATGCCGTCGTTGAACGTTTCTTTGGTAGTTTGAAACACGATTGGATTTTTAAAGTTGCTCAACCAACAAGGGA
GTTTATGAAGCAAGATGTGACTGCTTACATGAAATATTACAACTTGGAGCGACTTCATTCTGCTAATGGTGATCTGTCACCTGTAGAATTTGAAAATTCT
CAACTAAAAGTGTCCAATTTGGGTTGACCAGTACA
CAAGCATATAAAGATGAAGCCGTCTTGATGGTGCTAGAGCAAGGTTATAGCGTTGCTGATGCAGCAAAGTCTCTTGGGGTTAGCACTAGTCTGCTTTACA
ACTGGAAGGAAAAACACCAAGCCCTACAACAAGGTATCGCCTTAGAAGAATCGGAACGTGATGAGTTAAAAAGATTGCGTAGAGAAAACAAAGAATTACG
CATGGAGAAAGAAATTCTAAAAAAGGCAAGTGCCTTCTTTGCGAGAGAAATGAAGTAAAATTTCGCTTCATCAAACAGCAATCAAACCTGTTCCCTATAG
CACTGTTATGTCGAGTAATGAGTGTCAGTAAGTCAGGCTATTACGATTGGCATAAACGCCCTACAAATGTGATAAGCCTTGAAACATTGAAGCTTTATCG
CCTTGTTCGACAGCTATTTAAGCAAAGTCGAGGCAGCTTAGGGAATCGTGAAATGGTGAAGAAATTGCGCAAGGAAGGCTACCAGGTTGGTCGCTATCTC
GTTCGTAAAATTATGCACCGCCTTCGACTCAAAGCTACCCAGCGACGAGCTTACAAGGTGACGACACAGCGAAAACACTCTGATGCAGTGGCTGATAATC
TGTTAAACATGAACTTTAACCCAGTATCCGCAAATCAGGTTTGGGCAGGTGACGTGACCTATTTAAAGACAGGTGAAGGCTGGATGTACTTGGCAGTGGT
AATGGATTTATATTCACGCCGGATTGTTGGATGGCACATAGACAAGCGTATGACCACGGATTTGATATCTAAGGCATTAATGAAAGCCTACAACCTGCGT
CAACCGGCCAGAGGGCTGGTATTTCACAGTGACCGAGGCTCACAGTATACCAGCAAGCAATTCGGTAAGCTGCTATCGAGCTATGGTATCCGAGCCAGTA
TGGGGGATGTGGGTGCGTGTTGGGATAATGCCGTCGTTGAACGTTTCTTTGGTAGTTTGAAACACGATTGGATTTTTAAAGTTGCTCAACCAACAAGGGA
GTTTATGAAGCAAGATGTGACTGCTTACATGAAATATTACAACTTGGAGCGACTTCATTCTGCTAATGGTGATCTGTCACCTGTAGAATTTGAAAATTCT
CAACTAAAAGTGTCCAATTTGGGTTGACCAGTACA
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 | |
|---|---|---|---|---|---|
| 291 bp | 96 aa | 68 | 358 | + | No |
Description : First part of the transposase
ORF sequence :
MSLKKSHKSYPQAYKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHQALQQGIALEESERDELKRLRRENKELRMEKEILKKASAFFAREMK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 810 bp | 269 aa | 418 | 1227 | + | No |
Description : Second part of the transposase
ORF sequence :
MSVSKSGYYDWHKRPTNVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTTQRKHSDAVADNLLNMNF
NPVSANQVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALMKAYNLRQPARGLVFHSDRGSQYTSKQFGKLLSSYGIRASMGDVGA
CWDNAVVERFFGSLKHDWIFKVAQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSNLG
NPVSANQVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALMKAYNLRQPARGLVFHSDRGSQYTSKQFGKLLSSYGIRASMGDVGA
CWDNAVVERFFGSLKHDWIFKVAQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSNLG
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1160 bp | 386 aa | 68 | 1227 | + | Yes |
Chemistry : DDE
ORF sequence :
MSLKKSHKSYPQAYKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHQALQQGIALEESERDELKRLRRENKELRMEKEILKKGKCLLCERNEVKFR
FIKQQSNLFPIALLCRVMSVSKSGYYDWHKRPTNVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTT
QRKHSDAVADNLLNMNFNPVSANQVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALMKAYNLRQPARGLVFHSDRGSQYTSKQFG
KLLSSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVAQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSNLG
FIKQQSNLFPIALLCRVMSVSKSGYYDWHKRPTNVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTT
QRKHSDAVADNLLNMNFNPVSANQVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALMKAYNLRQPARGLVFHSDRGSQYTSKQFG
KLLSSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVAQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSNLG
Blast result :
Comments
The transposase encoded by ISSde6 is predicted to undergo a -1 programmed frameshift (IS PEP 3). The ISSde6 transposase (ORF 3) has 95% identity to ISSod1. There are 3 full length and 1 5' fragement of ISSde6 encoded in the Shewanella denitrificans genome.
References
1] Romine, M. F. (2008) Direct submission.