ISSba3
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_009052 | ND | Shewanella baltica | Shewanella baltica OS155 |
DNA section
IS Length : 1235 bp
Ends
IR Length : 26/38
IRL : TGTTCTGGTCTAATCCCATCGGACACTTAATTTTGAGACAGTATGGTCAA
IRR : TGTACTGGTCAACCCAAACTGGACACTTTTAGTTGAGAATTTTCAAACTC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
TTGTTATTGC | CAA | TTCACTATAA | 3 |
GTATTCTATA | CCA | TTAATAAATA | 3 |
TCAAATGCAA | CAG | GGCCTGCACC | 3 |
CAGCTCAACG | CCT | TAAACACACA | 3 |
TTCACAGAAT | GTC | CCCAGCGCGA | 3 |
CAATATCATC | TAA | TGCCATACGG | 3 |
TTCAATCTCA | GAA | ACCGCCATGT | 3 |
AGTTTTGGCT | TTA | AACCTCAAGC | 3 |
GCCCATAGCA | ATC | GCATTAGCAG | 3 |
AGGCGGCGAA | GTG | CACCATACAA | 3 |
TCCCTGCTTA | ATA | TATGGCTTTT | 3 |
GCGCAAGAAA | GTG | CTTGAGGCAG | 3 |
AGTTGCTAAG | AAC | GAACCGGGGC | 3 |
ATAACTCGAG | AGC | AACCTACCGA | 3 |
TTTTCTATTT | ATC | TTTCCGTCTT | 3 |
CTTGGATACT | ATACGGGGCA | 0 | |
TAAACAACCT | TTAATTAAGT | 0 |
DNA sequence
TGTTCTGGTCTAATCCCATCGGACACTTAATTTTGAGACAGTATGGTCAATAAATTAAGAGGTCTATATGAGTCTGAAGAAATCACATAAGAGTTATCCG
CAGGCATTTAAAGATGAAGCCGTCTTGATGGTGCTAGAACAAGGTTATAGCGTTGCCGATGCGGCAAAGTCTCTTGGAGTTAGCACGAGCCTGCTTTACA
ACTGGAAGGAAAAACACGAAGCCCTGAAACAAGGTATCACCTTAGAAGAATCTGAGCGTGATGAGTTGAAACGATTGCGTAGAGAAAACAAAGAATTACG
CATGGAGAAAGAAATTCTAAAAAAGGCAAGCGCCTTCTTTGCGAGAGAAATGAAGTAAGATTTCGTTTCATCAAACAGCAATCTAACCTGTTTCCTATAA
CACTGTTATGCCGAGTAATGAGTGTCAGTAAGTCAGGCTATTACGATTGGCATAAACGCCCTGCAAACGTGATAAGCCTTGAAACACTGAAGCTTTATCG
CCTTGTTAGACAGCTATTTAAGCAAAGTCGAGGCAGCTTAGGAAATCGTGAAATGGTGAAGAAATTGCGCAAGGAAGGCTACCAGGTTGGTCGCTATCTC
GTTCGTAAAATTATGCACCGCCTTCGACTCAAAGCAACCCAGCGACGCGCTTACAAGGTGACGACACAGCGAAAACACTCAGATGCAGTGGCAGATAACC
TGCTAAACATGAACTTTAACCCCGTATCGGCTAATGAGGTTTGGGCGGGTGACGTGACCTATTTAAAGACGGGTGAGGGCTGGATGTATTTAGCTGTGGT
GATGGATTTATATTCACGCCGGATTGTGGGATGGCACATAGACAAACGCATGACCACGGATTTGATATCTAAGGCATTAATAAAAGCCTACAACCTGCGC
CAACCGGCCAGAGGGCTGGTATTTCACAGTGACCGAGGCTCGCAATATACCAGTAAGCAATTCGGTAGGCTGCTATTGAGCTATGGTATCCGAGCCAGCA
TGGGTGATGTGGGAGCGTGTTGGGATAATGCCGTTGTTGAGCGATTCTTTGGCAGCTTAAAACACGATTGGATTTTTAAAGTTAATCAACCAACAAGGGA
GTTTATGAAGCAAGATGTGACTGCTTACATGAAATATTACAACTTGGAGCGACTTCATTCTGCTAATGGTGATCTGTCACCTGTAGAGTTTGAAAATTCT
CAACTAAAAGTGTCCAGTTTGGGTTGACCAGTACA
CAGGCATTTAAAGATGAAGCCGTCTTGATGGTGCTAGAACAAGGTTATAGCGTTGCCGATGCGGCAAAGTCTCTTGGAGTTAGCACGAGCCTGCTTTACA
ACTGGAAGGAAAAACACGAAGCCCTGAAACAAGGTATCACCTTAGAAGAATCTGAGCGTGATGAGTTGAAACGATTGCGTAGAGAAAACAAAGAATTACG
CATGGAGAAAGAAATTCTAAAAAAGGCAAGCGCCTTCTTTGCGAGAGAAATGAAGTAAGATTTCGTTTCATCAAACAGCAATCTAACCTGTTTCCTATAA
CACTGTTATGCCGAGTAATGAGTGTCAGTAAGTCAGGCTATTACGATTGGCATAAACGCCCTGCAAACGTGATAAGCCTTGAAACACTGAAGCTTTATCG
CCTTGTTAGACAGCTATTTAAGCAAAGTCGAGGCAGCTTAGGAAATCGTGAAATGGTGAAGAAATTGCGCAAGGAAGGCTACCAGGTTGGTCGCTATCTC
GTTCGTAAAATTATGCACCGCCTTCGACTCAAAGCAACCCAGCGACGCGCTTACAAGGTGACGACACAGCGAAAACACTCAGATGCAGTGGCAGATAACC
TGCTAAACATGAACTTTAACCCCGTATCGGCTAATGAGGTTTGGGCGGGTGACGTGACCTATTTAAAGACGGGTGAGGGCTGGATGTATTTAGCTGTGGT
GATGGATTTATATTCACGCCGGATTGTGGGATGGCACATAGACAAACGCATGACCACGGATTTGATATCTAAGGCATTAATAAAAGCCTACAACCTGCGC
CAACCGGCCAGAGGGCTGGTATTTCACAGTGACCGAGGCTCGCAATATACCAGTAAGCAATTCGGTAGGCTGCTATTGAGCTATGGTATCCGAGCCAGCA
TGGGTGATGTGGGAGCGTGTTGGGATAATGCCGTTGTTGAGCGATTCTTTGGCAGCTTAAAACACGATTGGATTTTTAAAGTTAATCAACCAACAAGGGA
GTTTATGAAGCAAGATGTGACTGCTTACATGAAATATTACAACTTGGAGCGACTTCATTCTGCTAATGGTGATCTGTCACCTGTAGAGTTTGAAAATTCT
CAACTAAAAGTGTCCAGTTTGGGTTGACCAGTACA
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 :
MSLKKSHKSYPQAFKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESERDELKRLRRENKELRMEKEILKKASAFFAREMK
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
869 bp | 300 aa | 359 | 1227 | + | No |
Description : Second part of the transposase
ORF sequence :
GKRLLCERNEVRFRFIKQQSNLFPITLLCRVMSVSKSGYYDWHKRPANVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRL
RLKATQRRAYKVTTQRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVF
HSDRGSQYTSKQFGRLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG
RLKATQRRAYKVTTQRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVF
HSDRGSQYTSKQFGRLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1160 bp | 386 aa | 68 | 1227 | + | Yes |
Chemistry : DDE
ORF sequence :
MSLKKSHKSYPQAFKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESERDELKRLRRENKELRMEKEILKKGKRLLCERNEVRFR
FIKQQSNLFPITLLCRVMSVSKSGYYDWHKRPANVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTT
QRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVFHSDRGSQYTSKQFG
RLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG
FIKQQSNLFPITLLCRVMSVSKSGYYDWHKRPANVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTT
QRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVFHSDRGSQYTSKQFG
RLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG
Blast result :
Comments
There are 14 copies of ISSba3 encoded in the chromosome and 3 in the plasmid. 2 of the chromosome copies are interrupted by other IS elements. ORF3 is deduced from the predicted translational frameshift of orfs 1 and 2. ORF3 has 96% identity with ISSde6_aa3.
References
1] Romine, M. (2008) Direct submission.