ISSpma1
- Family IS3
- Group IS407
Isoform Synonym(s) ISSsp3
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| AB196775 | ND | Sphingopyxis macrogoltabida | Sphingopyxis macrogoltabida |
DNA section
IS Length : 1269 bp
Ends
IR Length : 20/24
IRL : TGATCTGCCCCCCGCTGAGTGGCCCAGAGACTATGATAGTCTGGACCATG
IRR : TGGTCTGCCCCCACCGAGTGGACCGATTGGTTTGTTAGTGCATTAAGCTC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GGGACAT | AAACTCC | 0 |
DNA sequence
TGATCTGCCCCCCGCTGAGTGGCCCAGAGACTATGATAGTCTGGACCATGAAAGGGACATTGAATGCCGAGCAAGAAGCACAAGCCGGAAGAGATCATCG
GCAAGCTGCGTGAAGTTGAGATTGTGCTGGCGCAGGGAGCGAGCACGGCTGAAGCCTGTCGCCGGATCGCGGTCAGCGAGCAGACCTATTATCGGTGGCG
CAAGGAGTATGGCGGCCTGAAGACCGACCAGGCGCGGCGGATGAAGGATCTGGAGAAGGAGAACCAGCGGCTGCGCCGGGCGATCTCGGACCTGACCTTG
GACAAGCTGATCTTGCAGGAGGCTGCACGGGGAAACTTCTGAGCCCCGCGCGGCGGCGGCGCTGCATCGATCAGGTACGACGGGATCTGCCAGTCCGGGT
ATCCGAGCGACGGATATGCCGGGTGCTGGGTCAGCATCGATCGACGCAGCGCAAGATGCCGCGCGGGGCGGATGACGAACAGGCACTGACCGAGGACATC
ATTGCATTGGCGAAGCAATATGGTCGTTACGGCTACCGCCGGGTCACGGCGTTGCTGTGCCATGCGGGATGGACGGTGAACCATAAACGTGTCGAGCGGA
TATGGCGGCGTGAAGGACTGAAAGTCCCGCAGCGCCAGCCAAAGCGCGGGCGTCTATGGCTCAATGACGGATCGTGCATCCGGCTACGCCCCGAATATCC
GGGGCATGTCTGGGCCTACGATTTCGTCGAGGGGCGGACGCATGACGGTCGCAAGTTCCGCATCCTCACGATCATCGACGAGGCCAGCAGGGAATGCCTG
GCGCTCATCGTTGCACGGCAACTCAAGCATGAGGATGTTCTGGCGGCCCTGGCCGACCTGTTCATCTCGCGTGGGCCGCCAGCGCATATACGATCCGATA
ATGGTAGCGAGTTTATCGCGACCGCCGTCCAGAAATGGCTGGGGCAGATCGGCGTAAAGACCCTCTATATCGCGCCGGGATCACCATGGGAAAATGGCTA
TAACGAAAGCTTCAACGGGTCGCTTCGCGACGAACTGCTCAATGGCGAGATCTTCTACAGCCTCGCCGAGGCCAGGGTGCTGATCGAGGCATGGCGGCGG
CATTACAACACCGTCCGCCCGCATAGCAGCTTGGGCTACCGGCCACCGGCACCGGAAACGGCGACACCGCCATATCCGGCCTCCGGTTCCGCTTCGCTCC
ACCTCCGTCCGGATATGGCGGCGATGAGCTTAATGCACTAACAAACCAATCGGTCCACTCGGTGGGGGCAGACCA
GCAAGCTGCGTGAAGTTGAGATTGTGCTGGCGCAGGGAGCGAGCACGGCTGAAGCCTGTCGCCGGATCGCGGTCAGCGAGCAGACCTATTATCGGTGGCG
CAAGGAGTATGGCGGCCTGAAGACCGACCAGGCGCGGCGGATGAAGGATCTGGAGAAGGAGAACCAGCGGCTGCGCCGGGCGATCTCGGACCTGACCTTG
GACAAGCTGATCTTGCAGGAGGCTGCACGGGGAAACTTCTGAGCCCCGCGCGGCGGCGGCGCTGCATCGATCAGGTACGACGGGATCTGCCAGTCCGGGT
ATCCGAGCGACGGATATGCCGGGTGCTGGGTCAGCATCGATCGACGCAGCGCAAGATGCCGCGCGGGGCGGATGACGAACAGGCACTGACCGAGGACATC
ATTGCATTGGCGAAGCAATATGGTCGTTACGGCTACCGCCGGGTCACGGCGTTGCTGTGCCATGCGGGATGGACGGTGAACCATAAACGTGTCGAGCGGA
TATGGCGGCGTGAAGGACTGAAAGTCCCGCAGCGCCAGCCAAAGCGCGGGCGTCTATGGCTCAATGACGGATCGTGCATCCGGCTACGCCCCGAATATCC
GGGGCATGTCTGGGCCTACGATTTCGTCGAGGGGCGGACGCATGACGGTCGCAAGTTCCGCATCCTCACGATCATCGACGAGGCCAGCAGGGAATGCCTG
GCGCTCATCGTTGCACGGCAACTCAAGCATGAGGATGTTCTGGCGGCCCTGGCCGACCTGTTCATCTCGCGTGGGCCGCCAGCGCATATACGATCCGATA
ATGGTAGCGAGTTTATCGCGACCGCCGTCCAGAAATGGCTGGGGCAGATCGGCGTAAAGACCCTCTATATCGCGCCGGGATCACCATGGGAAAATGGCTA
TAACGAAAGCTTCAACGGGTCGCTTCGCGACGAACTGCTCAATGGCGAGATCTTCTACAGCCTCGCCGAGGCCAGGGTGCTGATCGAGGCATGGCGGCGG
CATTACAACACCGTCCGCCCGCATAGCAGCTTGGGCTACCGGCCACCGGCACCGGAAACGGCGACACCGCCATATCCGGCCTCCGGTTCCGCTTCGCTCC
ACCTCCGTCCGGATATGGCGGCGATGAGCTTAATGCACTAACAAACCAATCGGTCCACTCGGTGGGGGCAGACCA
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 | |
|---|---|---|---|---|---|
| 279 bp | 92 aa | 64 | 342 | + | No |
Description : First part of the transposase
ORF sequence :
MPSKKHKPEEIIGKLREVEIVLAQGASTAEACRRIAVSEQTYYRWRKEYGGLKTDQARRMKDLEKENQRLRRAISDLTLDKLILQEAARGNF
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1089 bp | 362 aa | 153 | 1241 | + | No |
Description : Second part of the transposase
ORF sequence :
SLSPDRGQRADLLSVAQGVWRPEDRPGAADEGSGEGEPAAAPGDLGPDLGQADLAGGCTGKLLSPARRRRCIDQVRRDLPVRVSERRICRVLGQHRSTQR
KMPRGADDEQALTEDIIALAKQYGRYGYRRVTALLCHAGWTVNHKRVERIWRREGLKVPQRQPKRGRLWLNDGSCIRLRPEYPGHVWAYDFVEGRTHDGR
KFRILTIIDEASRECLALIVARQLKHEDVLAALADLFISRGPPAHIRSDNGSEFIATAVQKWLGQIGVKTLYIAPGSPWENGYNESFNGSLRDELLNGEI
FYSLAEARVLIEAWRRHYNTVRPHSSLGYRPPAPETATPPYPASGSASLHLRPDMAAMSLMH
KMPRGADDEQALTEDIIALAKQYGRYGYRRVTALLCHAGWTVNHKRVERIWRREGLKVPQRQPKRGRLWLNDGSCIRLRPEYPGHVWAYDFVEGRTHDGR
KFRILTIIDEASRECLALIVARQLKHEDVLAALADLFISRGPPAHIRSDNGSEFIATAVQKWLGQIGVKTLYIAPGSPWENGYNESFNGSLRDELLNGEI
FYSLAEARVLIEAWRRHYNTVRPHSSLGYRPPAPETATPPYPASGSASLHLRPDMAAMSLMH
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1178 bp | 392 aa | 64 | 1241 | + | Yes |
Chemistry : DDE
ORF sequence :
MPSKKHKPEEIIGKLREVEIVLAQGASTAEACRRIAVSEQTYYRWRKEYGGLKTDQARRMKDLEKENQRLRRAISDLTLDKLILQEAARGKLLSPARRRR
CIDQVRRDLPVRVSERRICRVLGQHRSTQRKMPRGADDEQALTEDIIALAKQYGRYGYRRVTALLCHAGWTVNHKRVERIWRREGLKVPQRQPKRGRLWL
NDGSCIRLRPEYPGHVWAYDFVEGRTHDGRKFRILTIIDEASRECLALIVARQLKHEDVLAALADLFISRGPPAHIRSDNGSEFIATAVQKWLGQIGVKT
LYIAPGSPWENGYNESFNGSLRDELLNGEIFYSLAEARVLIEAWRRHYNTVRPHSSLGYRPPAPETATPPYPASGSASLHLRPDMAAMSLMH
CIDQVRRDLPVRVSERRICRVLGQHRSTQRKMPRGADDEQALTEDIIALAKQYGRYGYRRVTALLCHAGWTVNHKRVERIWRREGLKVPQRQPKRGRLWL
NDGSCIRLRPEYPGHVWAYDFVEGRTHDGRKFRILTIIDEASRECLALIVARQLKHEDVLAALADLFISRGPPAHIRSDNGSEFIATAVQKWLGQIGVKT
LYIAPGSPWENGYNESFNGSLRDELLNGEIFYSLAEARVLIEAWRRHYNTVRPHSSLGYRPPAPETATPPYPASGSASLHLRPDMAAMSLMH
Blast result :
Comments
ISSpma1 is 73 % (ORFA) aa similar to ISMyma1 and 58% (ORFB) aa similar to ISBcen23. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Ohta,T., Tani,A., Kimbara,K. and Kawai,F. (2005) Appl. Microbiol. Biotechnol. 68 (5), 639-646 .