ISMca6
- Family ISAs1
- Group
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_002977 | ND | Methylococcus capsulatus | Methylococcus capsulatus Bath |
DNA section
IS Length : 1180 bp
Ends
IR Length : 17/21
IRL : CAGGGCTGTTCAATGCTGAAAAATTGATGTAAGAAGTCAAGATTTTCAAA
IRR : CAGGGTTGTTCAACGCTAAATACCGTCATAGGCCAAGAGCCGGTGGAGGC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
AGATCAGCCG | GTTGTCGAAG | GTGGCTCAGG | 10 |
CTTCTCCCAG | AGGGAGAGGG | TATGTTGTCC | 10 |
DNA sequence
CAGGGCTGTTCAATGCTGAAAAATTGATGTAAGAAGTCAAGATTTTCAAAGAGGTTCCCGTTGTCCGCCCTGAAACAAAGCCTGCTGGCCATTCCGGATC
ATCGCCGTGCCCAGGGGCGGCTGTTCGACCTGCCCCATATGCTGCTGTTCAGCATCTTGGCGATCATGAGCGGCGCGACGTCCTACCGGCGCATTCATCA
GTTCCTGCACACCCATCAGGCGGCATTGAACGCGGCCTTCGGTTGCCGGTGGCGCCGCACGCCGGCTTACAGTTCGATCCGCTATGCCTTGCAGGGCTTG
GACGTGCAAGCCCTGGCGCCGCATTTTCGCGCCCATGCCGCGCGCTTGGCCGAAGGGGCGGCGGTGATCGCGCTCGACGGCAAGACCTTGCGCGGCAGCC
TGGACCGTTTCGAGGACCGCAAGGCCGCCCAGGTGCTCAGCGCCTTCGCCACCGAAGAGCGGATCGTGCTGGGCCAGATCCTGATCGAGGATGCGGGCAA
GGACCATGAAATCCAGGCGGCCCAGCGCCTCATCGAAACCTTGGGGCTGAGCGGACGGCTCTATACGCTCGATGCCCTCCACCTTCAAAAAAACGGTTGA
AACCGTGCTTGCCACCGGCAACGACCTCCTGGTGCAGCTCAAAGGCAATCATCCCAAGCTGCTGGCCGCGGTGCGAACGCTGTGCCAGAGCCGAGCCCAC
GCTGAACAGAGCTACACCGTCGACCTGGGCCGGCGCAACCGCATCGAACAGCGCACCGTGCGCCTGTGGCCGCTCCCGCCGGGCAGCGGCACCGACCCCT
GGCATGACCACTTCCAGACCGTGATCGAGGGGCAGCGCCAGATCGAAGTTTTCAATCCCTACCACCGCCGCTTCGAGCCCCGCCAGGAATCCCCTGCTTA
TTACTTGGCGACCTGCACCGCCTCGGCGGCCACTTTAGCTCAGGTCATCCGCGGCCATTGGGCCATCGAAAACCGCCTTCATCATGTGCTCGATGTCTCC
CTCGGCGAGGACTCCAGCCGCATCCGCCGAAATCCCGGCGTCTTTGCCCTGCTGCGCCACTTCGCCTTGAACCTCTTGCGACATAATGGACAAGCCAACA
TCCGCTCCGCCCTTTACGACAACGCCATCTGCCTCCACCGGCTCTTGGCCTATGACGGTATTTAGCGTTGAACAACCCTG
ATCGCCGTGCCCAGGGGCGGCTGTTCGACCTGCCCCATATGCTGCTGTTCAGCATCTTGGCGATCATGAGCGGCGCGACGTCCTACCGGCGCATTCATCA
GTTCCTGCACACCCATCAGGCGGCATTGAACGCGGCCTTCGGTTGCCGGTGGCGCCGCACGCCGGCTTACAGTTCGATCCGCTATGCCTTGCAGGGCTTG
GACGTGCAAGCCCTGGCGCCGCATTTTCGCGCCCATGCCGCGCGCTTGGCCGAAGGGGCGGCGGTGATCGCGCTCGACGGCAAGACCTTGCGCGGCAGCC
TGGACCGTTTCGAGGACCGCAAGGCCGCCCAGGTGCTCAGCGCCTTCGCCACCGAAGAGCGGATCGTGCTGGGCCAGATCCTGATCGAGGATGCGGGCAA
GGACCATGAAATCCAGGCGGCCCAGCGCCTCATCGAAACCTTGGGGCTGAGCGGACGGCTCTATACGCTCGATGCCCTCCACCTTCAAAAAAACGGTTGA
AACCGTGCTTGCCACCGGCAACGACCTCCTGGTGCAGCTCAAAGGCAATCATCCCAAGCTGCTGGCCGCGGTGCGAACGCTGTGCCAGAGCCGAGCCCAC
GCTGAACAGAGCTACACCGTCGACCTGGGCCGGCGCAACCGCATCGAACAGCGCACCGTGCGCCTGTGGCCGCTCCCGCCGGGCAGCGGCACCGACCCCT
GGCATGACCACTTCCAGACCGTGATCGAGGGGCAGCGCCAGATCGAAGTTTTCAATCCCTACCACCGCCGCTTCGAGCCCCGCCAGGAATCCCCTGCTTA
TTACTTGGCGACCTGCACCGCCTCGGCGGCCACTTTAGCTCAGGTCATCCGCGGCCATTGGGCCATCGAAAACCGCCTTCATCATGTGCTCGATGTCTCC
CTCGGCGAGGACTCCAGCCGCATCCGCCGAAATCCCGGCGTCTTTGCCCTGCTGCGCCACTTCGCCTTGAACCTCTTGCGACATAATGGACAAGCCAACA
TCCGCTCCGCCCTTTACGACAACGCCATCTGCCTCCACCGGCTCTTGGCCTATGACGGTATTTAGCGTTGAACAACCCTG
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 | |
---|---|---|---|---|---|
540 bp | 179 aa | 61 | 600 | + | No |
Description : First part of the transposase
ORF sequence :
MSALKQSLLAIPDHRRAQGRLFDLPHMLLFSILAIMSGATSYRRIHQFLHTHQAALNAAFGCRWRRTPAYSSIRYALQGLDVQALAPHFRAHAARLAEGA
AVIALDGKTLRGSLDRFEDRKAAQVLSAFATEERIVLGQILIEDAGKDHEIQAAQRLIETLGLSGRLYTLDALHLQKNG
AVIALDGKTLRGSLDRFEDRKAAQVLSAFATEERIVLGQILIEDAGKDHEIQAAQRLIETLGLSGRLYTLDALHLQKNG
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
594 bp | 197 aa | 572 | 1165 | + | No |
Description : Second part of the transposase
ORF sequence :
MPSTFKKTVETVLATGNDLLVQLKGNHPKLLAAVRTLCQSRAHAEQSYTVDLGRRNRIEQRTVRLWPLPPGSGTDPWHDHFQTVIEGQRQIEVFNPYHRR
FEPRQESPAYYLATCTASAATLAQVIRGHWAIENRLHHVLDVSLGEDSSRIRRNPGVFALLRHFALNLLRHNGQANIRSALYDNAICLHRLLAYDGI
FEPRQESPAYYLATCTASAATLAQVIRGHWAIENRLHHVLDVSLGEDSSRIRRNPGVFALLRHFALNLLRHNGQANIRSALYDNAICLHRLLAYDGI
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1105 bp | 0 aa | 61 | 1165 | - | Yes |
Chemistry : Unknow
ORF sequence :
Blast result :
Comments
There are 2 or more copies of ISMca6 in this strain. ISMca6 is 48% aa similar to ISEc5.
References
1] Ward,N., Larsen,O., Sakwa,J., Bruseth,L., Khouri,H., Durkin,A.S., Dimitrov,G., Jiang,L., Scanlan,D., Kang,K.H., Lewis,M., Nelson,K.E., Methe,B., Wu,M., Heidelberg,J.F., Paulsen,I.T., Fouts,D., Ravel,J., Tettelin,H., Ren,Q., Read,T., DeBoy,R.T., Seshadri,R., Salzberg,S.L., Jensen,H.B., Birkeland,N.K., Nelson,W.C., Dodson,R.J., Grindhaug,S.H., Holt,I., Eidhammer,I., Jonasen,I., Vanaken,S., Utterback,T., Feldblyum,T.V., Fraser,C.M., Lillehaug,J.R. and Eisen,J.A. (2004) PLoS Biol. 2(10):e303.