ISCps3
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_003910 | ND | Colwellia psychrerythraea | Colwellia psychrerythraea 34H |
DNA section
IS Length : 1269 bp
Ends
IR Length : 21/26
IRL : TGAAGTTCCCCCGCTTTAACGGACACCAAAATCTAACTAAAGATGAGGTG
IRR : TGATCTTCCCCCGATAAAACGGACACATTTTATTTTACGCTGCCAGGGCT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| AAACCGGGAC | ACTT | TTAATGGCCC | 4 |
DNA sequence
TGAAGTTCCCCCGCTTTAACGGACACCAAAATCTAACTAAAGATGAGGTGTCTTATGCCAAAGTACAACAATCCAAGACGAACTTGGAAGTATTCAAACG
ACTTTAAAGTCAATGCTGTTCAACTGAGTTTTGTTGTCGGCGTCACAATCAAATCTGTCGCTGAAAAACTCGACATACACCCATTTATGCTGTCACGATG
GCGAAAAGAATATCGTGAAGGGATCATTGTGGTGGATAAACGAAAAAAAGTGGCAGGGCAATCAAAAGCCAAAAAAGTACTGACCAAAGAACAGCAACTT
GAACGTGAAAATAAAGCACTCAAGGAGGAGCTGTATATCCTAAAAAAGTGGCAACGGTTTCTTGCAGAGGAACATCAAGTCGATATCGATTCATCGAAAA
ACTCAGAGCCGACATAAAAGTTACGCGATTACTGACGTTTTTTGATGTATCTAAAAGTGGTTATTATGACTGGCGTGAGCGCCAACCGAGTGCTATAGCC
ATAGAAGATGTTGAGCTTAAACATAAAATACAGCAAATTTTCAAAGAGAATATAGGACGATATGGGAGCCCTCGAATATTTAAGGCCTTACAAAAGCAAG
GGTACAACATAGGTAAAAAACGTGTCGAACGTTTGTATCGTGCGCTTGGTTTGGTTGCCAGAGTGATGCGCGTGACGACACGTTCAGCCTTTTATAAACG
CTTCCTAACGACAGGTAAAAACTTACGACCTGATGGCGAAGTCCCATTGGCTAAAGATAAGGTCTGGGTAGCTGATGTCACATATTTGAAAGTTAAAGGC
GTATGGCGTTATTTGTCGGTCATCATGGATTTATATTCACGGCGCATTATTAGCTGGAGTTTGGATAAAAGTAGGACGATGGAAGTGACCAAGCGTACAT
TGCAAAATGCAGTTAAGAAACGCAAACCATCCGGTGACTTAATGCTCCACACTGATAGAGGCGTAGAATATCGTGGGCACATTTACCAGAAAGCATTGAA
ACGACATGGGATCACTCATAGTTTGAGTAGAGCTGGAAAATGTACTGATAATGCGCATATGGAGTCATTTTTCCATTCAATGAAGACGGAAGTTATTCGT
GGTAATGTGTTTAAAAGTGATAAAGAACTGCGCGGAACACTTGGCAACTACATTAACAAATACTACAATGTTTCGAGGATGCATTCAGGGATAAACTATT
GTTCTCCAATAGAATATGAAGCCCTGGCAGCGTAAAATAAAATGTGTCCGTTTTATCGGGGGAAGATCA
ACTTTAAAGTCAATGCTGTTCAACTGAGTTTTGTTGTCGGCGTCACAATCAAATCTGTCGCTGAAAAACTCGACATACACCCATTTATGCTGTCACGATG
GCGAAAAGAATATCGTGAAGGGATCATTGTGGTGGATAAACGAAAAAAAGTGGCAGGGCAATCAAAAGCCAAAAAAGTACTGACCAAAGAACAGCAACTT
GAACGTGAAAATAAAGCACTCAAGGAGGAGCTGTATATCCTAAAAAAGTGGCAACGGTTTCTTGCAGAGGAACATCAAGTCGATATCGATTCATCGAAAA
ACTCAGAGCCGACATAAAAGTTACGCGATTACTGACGTTTTTTGATGTATCTAAAAGTGGTTATTATGACTGGCGTGAGCGCCAACCGAGTGCTATAGCC
ATAGAAGATGTTGAGCTTAAACATAAAATACAGCAAATTTTCAAAGAGAATATAGGACGATATGGGAGCCCTCGAATATTTAAGGCCTTACAAAAGCAAG
GGTACAACATAGGTAAAAAACGTGTCGAACGTTTGTATCGTGCGCTTGGTTTGGTTGCCAGAGTGATGCGCGTGACGACACGTTCAGCCTTTTATAAACG
CTTCCTAACGACAGGTAAAAACTTACGACCTGATGGCGAAGTCCCATTGGCTAAAGATAAGGTCTGGGTAGCTGATGTCACATATTTGAAAGTTAAAGGC
GTATGGCGTTATTTGTCGGTCATCATGGATTTATATTCACGGCGCATTATTAGCTGGAGTTTGGATAAAAGTAGGACGATGGAAGTGACCAAGCGTACAT
TGCAAAATGCAGTTAAGAAACGCAAACCATCCGGTGACTTAATGCTCCACACTGATAGAGGCGTAGAATATCGTGGGCACATTTACCAGAAAGCATTGAA
ACGACATGGGATCACTCATAGTTTGAGTAGAGCTGGAAAATGTACTGATAATGCGCATATGGAGTCATTTTTCCATTCAATGAAGACGGAAGTTATTCGT
GGTAATGTGTTTAAAAGTGATAAAGAACTGCGCGGAACACTTGGCAACTACATTAACAAATACTACAATGTTTCGAGGATGCATTCAGGGATAAACTATT
GTTCTCCAATAGAATATGAAGCCCTGGCAGCGTAAAATAAAATGTGTCCGTTTTATCGGGGGAAGATCA
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 | |
|---|---|---|---|---|---|
| 363 bp | 120 aa | 55 | 417 | + | No |
Description : First part of the transposase
ORF sequence :
MPKYNNPRRTWKYSNDFKVNAVQLSFVVGVTIKSVAEKLDIHPFMLSRWRKEYREGIIVVDKRKKVAGQSKAKKVLTKEQQLERENKALKEELYILKKWQ
RFLAEEHQVDIDSSKNSEPT
RFLAEEHQVDIDSSKNSEPT
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 921 bp | 306 aa | 315 | 1235 | + | No |
Description : Second part of the transposase
ORF sequence :
STQGGAVYPKKVATVSCRGTSSRYRFIEKLRADIKVTRLLTFFDVSKSGYYDWRERQPSARAIEDVELKHKIQQIFKENRGRYGSPRIFKALQKQGYNIG
KKRVERLYRALGLVARVMRVTTRSAFYKRFLTTGKNLRPDGEVPLAKDKVWVADVTYLKVKGVWRYLSVIMDLYSRRIISWSLDKNRTMEVTKRTLQNAV
KKRKPSGDLMLHTDRGVEYRGHIYQKALKRHGITHSLSRAGKCTDNAHMESFFHSMKTEVIRGNVFKSDKELRGTLGNYINKYYNVSRMHSGINYCSPIE
YEALAA
KKRVERLYRALGLVARVMRVTTRSAFYKRFLTTGKNLRPDGEVPLAKDKVWVADVTYLKVKGVWRYLSVIMDLYSRRIISWSLDKNRTMEVTKRTLQNAV
KKRKPSGDLMLHTDRGVEYRGHIYQKALKRHGITHSLSRAGKCTDNAHMESFFHSMKTEVIRGNVFKSDKELRGTLGNYINKYYNVSRMHSGINYCSPIE
YEALAA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1181 bp | 393 aa | 55 | 1235 | + | Yes |
Chemistry : DDE
ORF sequence :
MPKYNNPRRTWKYSNDFKVNAVQLSFVVGVTIKSVAEKLDIHPFMLSRWRKEYREGIIVVDKRKKVAGQSKAKKVLTKEQQLERENKALKEELYILKKVA
TVSCRGTSSRYRFIEKLRADIKVTRLLTFFDVSKSGYYDWRERQPSARAIEDVELKHKIQQIFKENRGRYGSPRIFKALQKQGYNIGKKRVERLYRALGL
VARVMRVTTRSAFYKRFLTTGKNLRPDGEVPLAKDKVWVADVTYLKVKGVWRYLSVIMDLYSRRIISWSLDKNRTMEVTKRTLQNAVKKRKPSGDLMLHT
DRGVEYRGHIYQKALKRHGITHSLSRAGKCTDNAHMESFFHSMKTEVIRGNVFKSDKELRGTLGNYINKYYNVSRMHSGINYCSPIEYEALAA
TVSCRGTSSRYRFIEKLRADIKVTRLLTFFDVSKSGYYDWRERQPSARAIEDVELKHKIQQIFKENRGRYGSPRIFKALQKQGYNIGKKRVERLYRALGL
VARVMRVTTRSAFYKRFLTTGKNLRPDGEVPLAKDKVWVADVTYLKVKGVWRYLSVIMDLYSRRIISWSLDKNRTMEVTKRTLQNAVKKRKPSGDLMLHT
DRGVEYRGHIYQKALKRHGITHSLSRAGKCTDNAHMESFFHSMKTEVIRGNVFKSDKELRGTLGNYINKYYNVSRMHSGINYCSPIEYEALAA
Blast result :
Comments
There are 2 copies of ISCps3 in Colwellia psychrerythraea 34H. ISCps3 is 71% (ORFA) and 63% (ORFB) aa similar to ISVisp1. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Methe,B.A., Nelson,K.E., Deming,J.W., Momen,B., Melamud,E., Zhang,X., Moult,J., Madupu,R., Nelson,W.C., Dodson,R.J., Brinkac,L.M., Daugherty,S.C., Durkin,A.S., Deboy,R.T., Kolonay,J.F., Sullivan,S.A., Zhou,L., Davidsen,T.M., Wu,M., Huston,A.L., Lewis,M., Weaver,B., Weidman,J.F., Khouri,H., Utterback,T.R., Feldblyum,T.V. and Fraser,C.M. (2005) Proc. Natl. Acad. Sci. U.S.A. 102 (31), 10913-10918