ISCps9
- Family IS3
- Group IS3
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NC_003910 | ND | Colwellia psychrerythraea | Colwellia psychrerythraea 34H |
DNA section
IS Length : 1279 bp
Ends
IR Length : 21/27
IRL : TGAAGTTCCCCCGTTTTAGTGGACACCTCCTCATAACATTGAGGAGGCTA
IRR : TGATCTTCCCCCGATAAAGTGGACACCATCCACTTTAATTCACCGCCAAT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTAACGGGGG | AAG | ATCAGGTTTT | 3 |
| CTTAAAAGGA | CAA | AAAAAGTTGG | 3 |
| TTAACAAGGA | CAA | AAAATAGATG | 3 |
| TAAAGCGGGA | CTG | CTAACAGTTT | 3 |
DNA sequence
TGAAGTTCCCCCGTTTTAGTGGACACCTCCTCATAACATTGAGGAGGCTAAAATGCCTAGATATACCCAACCTAAAAAGACGTGGTTTTACCCTGTTAAT
TTCAAAATTAAAGCTGTCGAGCTAAGCTTACGAAACGACATGTTATCTAAGGATGTTGCTCAAGCGTTGGATATTCACCCGTTAATGCTAAGCCGTTGGC
GTAAAGAATACCGAGAAGGGAAGTTTAAAAAAAACCAACACTATCAGAGCAATAGTGAACTCATGAGTAAAATCCCCACAAAGAAAGAACTAAATAAAAT
TAAACAGCTGCAAAAAGAAAACGACCGTTTAAAAATGGAAAATGATTTACTAAAAAAGTGGCAACGGTATCTGGCGGAAGTCCATCAGAGCGATTTGGAT
TCATCGAAAAACACAAAGAAGCCTTAGGTGTTAAATACCTTTGCTCATGGCTTGATGTCTCTCGTAGTGGCTTTTATGCATGGCGACGACGTCCACGTTC
AATGCGTGCTATTAATGATGCGGATTTACTTTTAAATATCAAACAAGTCTTTAATAACAATCATCAAACCTACGGCAGCCCACGCGTATTTCATGCATTA
AAGCGTGAAGGTATTACAACGAGTGAGAAGCGTGTTGCACGGTTGATGCGAGAAAATGGCTTACGCGCTAGAGCGCTCAAGACTTATAGCAGGCCAGCTA
AGGTGAAGTTCTTTTATAAAGCGATCAAAAACAATCGTAAAAACATAAGTAAGCCTGATGCTATCAATCAGCAATGGTCGGGAGATATTACGTACCTGAA
AGTAGGATCGCGCTGGTATTACTTAGCCGTTGTATTAGATTTATTTTCACGTCGTATCATTGGTTGGGCTTTTGGTCAGAACAAATCAACAGCGCTGACA
CTGAAAGCGCTGCAGCTAGCAATAAAGAAGCGTAAACCGACACAACCCTTGTTATTTCATACTGACAGAGGCGCTGAATATCGAGCACATGTAGTGCAGC
AGTTCTTAGTTAAACATAACATTACGGCGAGTATGAACCGTCCAGGTTGTTGTACTGATAATGCTGAAGTTGAATCATTTTTTCATTCATTAAAAGCTGA
TTTAATCAGAGGGAATGTCTTCGCGACTACTGATAAATTACATTCAAAATTAAAAGGTTACATGAACTATTTTTACAATAGACAACGATTGCATTCAAGT
TTAGGATATAAAACACCTGCTGAGTTTGAATTGGCGGTGAATTAAAGTGGATGGTGTCCACTTTATCGGGGGAAGATCA
TTCAAAATTAAAGCTGTCGAGCTAAGCTTACGAAACGACATGTTATCTAAGGATGTTGCTCAAGCGTTGGATATTCACCCGTTAATGCTAAGCCGTTGGC
GTAAAGAATACCGAGAAGGGAAGTTTAAAAAAAACCAACACTATCAGAGCAATAGTGAACTCATGAGTAAAATCCCCACAAAGAAAGAACTAAATAAAAT
TAAACAGCTGCAAAAAGAAAACGACCGTTTAAAAATGGAAAATGATTTACTAAAAAAGTGGCAACGGTATCTGGCGGAAGTCCATCAGAGCGATTTGGAT
TCATCGAAAAACACAAAGAAGCCTTAGGTGTTAAATACCTTTGCTCATGGCTTGATGTCTCTCGTAGTGGCTTTTATGCATGGCGACGACGTCCACGTTC
AATGCGTGCTATTAATGATGCGGATTTACTTTTAAATATCAAACAAGTCTTTAATAACAATCATCAAACCTACGGCAGCCCACGCGTATTTCATGCATTA
AAGCGTGAAGGTATTACAACGAGTGAGAAGCGTGTTGCACGGTTGATGCGAGAAAATGGCTTACGCGCTAGAGCGCTCAAGACTTATAGCAGGCCAGCTA
AGGTGAAGTTCTTTTATAAAGCGATCAAAAACAATCGTAAAAACATAAGTAAGCCTGATGCTATCAATCAGCAATGGTCGGGAGATATTACGTACCTGAA
AGTAGGATCGCGCTGGTATTACTTAGCCGTTGTATTAGATTTATTTTCACGTCGTATCATTGGTTGGGCTTTTGGTCAGAACAAATCAACAGCGCTGACA
CTGAAAGCGCTGCAGCTAGCAATAAAGAAGCGTAAACCGACACAACCCTTGTTATTTCATACTGACAGAGGCGCTGAATATCGAGCACATGTAGTGCAGC
AGTTCTTAGTTAAACATAACATTACGGCGAGTATGAACCGTCCAGGTTGTTGTACTGATAATGCTGAAGTTGAATCATTTTTTCATTCATTAAAAGCTGA
TTTAATCAGAGGGAATGTCTTCGCGACTACTGATAAATTACATTCAAAATTAAAAGGTTACATGAACTATTTTTACAATAGACAACGATTGCATTCAAGT
TTAGGATATAAAACACCTGCTGAGTTTGAATTGGCGGTGAATTAAAGTGGATGGTGTCCACTTTATCGGGGGAAGATCA
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 | |
|---|---|---|---|---|---|
| 375 bp | 124 aa | 53 | 427 | + | No |
Description : First part of the transposase
ORF sequence :
MPRYTQPKKTWFYPVNFKIKAVELSLRNDMLSKDVAQALDIHPLMLSRWRKEYREGKFKKNQHYQSNSELMSKIPTKKELNKIKQLQKENDRLKMENDLL
KKWQRYLAEVHQSDLDSSKNTKKP
KKWQRYLAEVHQSDLDSSKNTKKP
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 888 bp | 295 aa | 358 | 1245 | + | No |
Description : Second part of the transposase
ORF sequence :
MATVSGGSPSERFGFIEKHKEALGVKYLCSWLDVSRSGFYAWRRRPRSMRAINDADLLLNIKQVFNNNHQTYGSPRVFHALKREGITTSEKRVARLMREN
GLRARALKTYSRPAKVKFFYKAIKNNRKNISKPDAINQQWSGDITYLKVGSRWYYLAVVLDLFSRRIIGWAFGQNKSTALTLKALQLAIKKRKPTQPLLF
HTDRGAEYRAHVVQQFLVKHNITASMNRPGCCTDNAEVESFFHSLKADLIRGNVFATTDKLHSKLKGYMNYFYNRQRLHSSLGYKTPAEFELAVN
GLRARALKTYSRPAKVKFFYKAIKNNRKNISKPDAINQQWSGDITYLKVGSRWYYLAVVLDLFSRRIIGWAFGQNKSTALTLKALQLAIKKRKPTQPLLF
HTDRGAEYRAHVVQQFLVKHNITASMNRPGCCTDNAEVESFFHSLKADLIRGNVFATTDKLHSKLKGYMNYFYNRQRLHSSLGYKTPAEFELAVN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1193 bp | 396 aa | 53 | 1245 | + | Yes |
Chemistry : DDE
ORF sequence :
MPRYTQPKKTWFYPVNFKIKAVELSLRNDMLSKDVAQALDIHPLMLSRWRKEYREGKFKKNQHYQSNSELMSKIPTKKELNKIKQLQKENDRLKMENDLL
KKATVSGGSPSERFGFIEKHKEALGVKYLCSWLDVSRSGFYAWRRRPRSMRAINDADLLLNIKQVFNNNHQTYGSPRVFHALKREGITTSEKRVARLMRE
NGLRARALKTYSRPAKVKFFYKAIKNNRKNISKPDAINQQWSGDITYLKVGSRWYYLAVVLDLFSRRIIGWAFGQNKSTALTLKALQLAIKKRKPTQPLL
FHTDRGAEYRAHVVQQFLVKHNITASMNRPGCCTDNAEVESFFHSLKADLIRGNVFATTDKLHSKLKGYMNYFYNRQRLHSSLGYKTPAEFELAVN
KKATVSGGSPSERFGFIEKHKEALGVKYLCSWLDVSRSGFYAWRRRPRSMRAINDADLLLNIKQVFNNNHQTYGSPRVFHALKREGITTSEKRVARLMRE
NGLRARALKTYSRPAKVKFFYKAIKNNRKNISKPDAINQQWSGDITYLKVGSRWYYLAVVLDLFSRRIIGWAFGQNKSTALTLKALQLAIKKRKPTQPLL
FHTDRGAEYRAHVVQQFLVKHNITASMNRPGCCTDNAEVESFFHSLKADLIRGNVFATTDKLHSKLKGYMNYFYNRQRLHSSLGYKTPAEFELAVN
Blast result :
Comments
There are 4 complete copies and 1 truncated copy of ISCPs9 in Colwellia psychrerythraea 34H.
ISCps9 is 67%(ORFA) aa similar to ISVisp1 and 71% (ORFB) to ISVisp1. The third ORF is a putative ORFAB transposase reconstructed in silico by -1 frameshift.
ISCps9 is 67%(ORFA) aa similar to ISVisp1 and 71% (ORFB) to ISVisp1. The third ORF is a putative ORFAB transposase reconstructed in silico 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 .