ISSpu1
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_009438 | ND | Shewanella putrefaciens | Shewanella putrefaciens CN-32 |
DNA section
IS Length : 1244 bp
Ends
IR Length : 28/36
IRL : TGATCCGTACCAACACTTTTGGACACTTTGCTAAGCGAGTACAATCGCTT
IRR : TGATCTGTACCAGCAACAGTGGACACTTCACTAAGCACTGTTCTTCAATT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CTCCAGAATG | CACATCTCTA | 0 |
DNA sequence
TGATCCGTACCAACACTTTTGGACACTTTGCTAAGCGAGTACAATCGCTTAACGAGGTGAATAATGTCAACAAAGAAAATCCGCAAAACACATACCGCTG
AATTTAAAGCTGAAGCACTGAAACTGGCTGATAAGATTGGTGTTGCAGCCACTGCCAGAGAATTAAAACTGCACGAATCTCAGTTATATAATTGGCGAAC
AGCAGCCGAGAAAAAATCTACCACCAGTGAACGAGAGTCGGAGCTTGCTGCTGAAGTTGCGCGTTTGAAGCGCCAATTGGCTGAGCAGGCAGAGGATTTG
GCCATCTTAAAAAAGGCGGCCACCTACTTCGCGAAGAACCAAAAGTAGCCCGGTTTGAGTTTATTCTGGAGCATCAGCACCTGTTCTCGTTAATCAGAAT
GGTAGCGGTGCTTCAGGTGTCGCGTAGTGGGTATTATGCCTGGCGTAAAACGGGCCTGACACCAAGCCCGAGGGCTGCGAAGCGTGCAAAGCGTGACGTG
CTGATAAAGAAGGCGTTTGACGACTCCAAAGCACGTAATGGCTCCAGACGTATTCAGGTAGACCTTGCTGAGCATGGCAAGAAACCGGATATAAAAACCA
TACTGAACAGCATGGAGCGCCAGGGTTTAGTGGCTAAAGCGGCCCGCAAGTTTAAAGTGACGACCGACAGCAAGCATTCGCTGCCAGTAGCCCCAAACTT
GCTTGAACAGGATTTTAGCGCAACAGGCCCGAACCAAAAATGGGTCGGTGATATCACGTACCTGATGACCAGCGAAGGCTGGCTGTATCTGGCGGTAATC
ATTGATCTGTACTCGCGGGCAGTAATTGGCTGGTCGATGAGCAACCGTATGACAGCAGATCTGGTGTGCAGCGCATTGAACATGGCGTTGTTCCGTCGCG
GCTTCCCTAAATCGGTGATCGTTCATAGTGATCGCGGCAGCCAGTATTGCTCGCATGATTACCGTGACTTGATTAAAAAGCACCAGTTGCTACAAAGCAT
GAGCCGTAAAGGCAACTGCTGGGACAATGCGGTAGCGGAAAGCTTCTTCCATTCATTGAAGGTTGAAACGCTTCAGGACGAGCCGATAATGGATCGGGAA
ACAATGCGCCAACACGTTTTTGAATACATTGAGGTTGATTACAATAAGACCAGAAGGCATAGTGCTCTTGGCTATCTTAGCCCAGAGAATTTTGAATTGA
AGAACAGTGCTTAGTGAAGTGTCCACTGTTGCTGGTACAGATCA
AATTTAAAGCTGAAGCACTGAAACTGGCTGATAAGATTGGTGTTGCAGCCACTGCCAGAGAATTAAAACTGCACGAATCTCAGTTATATAATTGGCGAAC
AGCAGCCGAGAAAAAATCTACCACCAGTGAACGAGAGTCGGAGCTTGCTGCTGAAGTTGCGCGTTTGAAGCGCCAATTGGCTGAGCAGGCAGAGGATTTG
GCCATCTTAAAAAAGGCGGCCACCTACTTCGCGAAGAACCAAAAGTAGCCCGGTTTGAGTTTATTCTGGAGCATCAGCACCTGTTCTCGTTAATCAGAAT
GGTAGCGGTGCTTCAGGTGTCGCGTAGTGGGTATTATGCCTGGCGTAAAACGGGCCTGACACCAAGCCCGAGGGCTGCGAAGCGTGCAAAGCGTGACGTG
CTGATAAAGAAGGCGTTTGACGACTCCAAAGCACGTAATGGCTCCAGACGTATTCAGGTAGACCTTGCTGAGCATGGCAAGAAACCGGATATAAAAACCA
TACTGAACAGCATGGAGCGCCAGGGTTTAGTGGCTAAAGCGGCCCGCAAGTTTAAAGTGACGACCGACAGCAAGCATTCGCTGCCAGTAGCCCCAAACTT
GCTTGAACAGGATTTTAGCGCAACAGGCCCGAACCAAAAATGGGTCGGTGATATCACGTACCTGATGACCAGCGAAGGCTGGCTGTATCTGGCGGTAATC
ATTGATCTGTACTCGCGGGCAGTAATTGGCTGGTCGATGAGCAACCGTATGACAGCAGATCTGGTGTGCAGCGCATTGAACATGGCGTTGTTCCGTCGCG
GCTTCCCTAAATCGGTGATCGTTCATAGTGATCGCGGCAGCCAGTATTGCTCGCATGATTACCGTGACTTGATTAAAAAGCACCAGTTGCTACAAAGCAT
GAGCCGTAAAGGCAACTGCTGGGACAATGCGGTAGCGGAAAGCTTCTTCCATTCATTGAAGGTTGAAACGCTTCAGGACGAGCCGATAATGGATCGGGAA
ACAATGCGCCAACACGTTTTTGAATACATTGAGGTTGATTACAATAAGACCAGAAGGCATAGTGCTCTTGGCTATCTTAGCCCAGAGAATTTTGAATTGA
AGAACAGTGCTTAGTGAAGTGTCCACTGTTGCTGGTACAGATCA
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 | |
|---|---|---|---|---|---|
| 285 bp | 94 aa | 64 | 348 | + | No |
Description : First part of the transposase
ORF sequence :
MSTKKIRKTHTAEFKAEALKLADKIGVAATARELKLHESQLYNWRTAAEKKSTTSERESELAAEVARLKRQLAEQAEDLAILKKAATYFAKNQK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 930 bp | 309 aa | 285 | 1214 | + | No |
Description : Second part of the transposase
ORF sequence :
AGRGFGHLKKGGHLLREEPKVARFEFILEHQHLFSLIRMVAVLQVSRSGYYAWRKTGLTPSPRAAKRAKRDVLIKKAFDDSKARNGSRRIQVDLAEHGKK
PDIKTILNSMERQGLVAKAARKFKVTTDSKHSLPVAPNLLEQDFSATGPNQKWVGDITYLMTSEGWLYLAVIIDLYSRAVIGWSMSNRMTADLVCSALNM
ALFRRGFPKSVIVHSDRGSQYCSHDYRDLIKKHQLLQSMSRKGNCWDNAVAESFFHSLKVETLQDEPIMDRETMRQHVFEYIEVDYNKTRRHSALGYLSP
ENFELKNSA
PDIKTILNSMERQGLVAKAARKFKVTTDSKHSLPVAPNLLEQDFSATGPNQKWVGDITYLMTSEGWLYLAVIIDLYSRAVIGWSMSNRMTADLVCSALNM
ALFRRGFPKSVIVHSDRGSQYCSHDYRDLIKKHQLLQSMSRKGNCWDNAVAESFFHSLKVETLQDEPIMDRETMRQHVFEYIEVDYNKTRRHSALGYLSP
ENFELKNSA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1151 bp | 384 aa | 64 | 1214 | + | Yes |
Chemistry : DDE
ORF sequence :
MSTKKIRKTHTAEFKAEALKLADKIGVAATARELKLHESQLYNWRTAAEKKSTTSERESELAAEVARLKRQLAEQAEDLAILKKGGHLLREEPKVARFEF
ILEHQHLFSLIRMVAVLQVMSRSGYYAWRKTGLTPSPRAAKRAKRDVLIKKAFDDSKARNGSRRIQVDLAEHGKKPDIKTILNSMERQGLVAKAARKFKV
TTDSKHSLPVAPNLLEQDFSATGPNQKWVGDITYLMTSEGWLYLAVIIDLYSRAVIGWSMSNRMTADLVCSALNMALFRRGFPKSVIVHSDRGSQYCSHD
YRDLIKKHQLLQSMSRKGNCWDNAVAESFFHSLKVETLQDEPIMDRETMRQHVFEYIEVDYNKTRRHSALGYLSPENFELKNSA
ILEHQHLFSLIRMVAVLQVMSRSGYYAWRKTGLTPSPRAAKRAKRDVLIKKAFDDSKARNGSRRIQVDLAEHGKKPDIKTILNSMERQGLVAKAARKFKV
TTDSKHSLPVAPNLLEQDFSATGPNQKWVGDITYLMTSEGWLYLAVIIDLYSRAVIGWSMSNRMTADLVCSALNMALFRRGFPKSVIVHSDRGSQYCSHD
YRDLIKKHQLLQSMSRKGNCWDNAVAESFFHSLKVETLQDEPIMDRETMRQHVFEYIEVDYNKTRRHSALGYLSPENFELKNSA
Blast result :
Comments
ISSpu1 is 75% (ORFA) and 77% (ORFB) aa similar to ISVpa2. 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., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S. and Richardson,P. (2005) Direct submission GenBank.