ISMac16
- Family IS1
- Group
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_003552 | ND | Methanosarcina acetivorans | Methanosarcina acetivorans C2A |
DNA section
IS Length : 740 bp
Ends
IR Length : 20/24
IRL : GGTATTGGTAGTTAATTATAGTTATATATTATGAAAACCTATATTTCTGC
IRR : GGTATTGTTAATTAAATATAGATAACTCTTTATTTCTGTTTTTCATCAAT
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GAAGATAAA | GAAAATAA | AAAGAATAAAAG | 8 |
AGAAAAAATTAGTA | CGAAATGT | TTATCGATAT | 8 |
AAAGCGCACTTA | AATTTGCA | GTTAGTTCAGAA | 8 |
DNA sequence
GGTATTGGTAGTTAATTATAGTTATATATTATGAAAACCTATATTTCTGCATGAACTGCCCAAGATGCAAAAGTTCCAATCACACAAAAAACGGTATAGT
TTGTGGACGTCAACGCTACAAATGCCACGATTGTGGATATAACTATTCAGTCGAGCTAAAATCAACTGCTAGTTCTCCTTTAGTTAAGAGACAGGCTTTG
CAACTTTATCTTGAAGGATTAGGATTTCGCTCAATAGGACGATTTTTAGGGGTAAGTCATGTTTCTGTCCAAAAATGGATAAAGAAATTTGGTCAGGAGA
TAGAGGAGCTAAAAAGCGAAAATGAGATATCTATTGTTGAACTGGATGAGATGCACACTTACATCAGTAACAAAAAAAATATTGCTGGATCTGGATTGCT
GTTGATAGAGTTGGGAAAAAGTTCATCAACTGCTCTTTTGGTAGCAGAGGAACGAAAACTGGACAACTACTCTGGGAAAAATTAAAGAAGAAAGAGATTG
GAGAGGTGATGACTGATCACTGGAGGGCATATGCAGAGTTTATTCCTGAAAATATTCATACTCAATCCAAAGCAGAAACGTATACAGTTGAAGGATATAA
CGGCATACTAAGGCACTTTCTGGCAAGGTTGAGACGAAAGACAAAGTGTTATACGAAGAGTCTTGAAATGCTAAAGTACTCTGCTCTTCTATTGATGAAA
AACAGAAATAAAGAGTTATCTATATTTAATTAACAATACC
TTGTGGACGTCAACGCTACAAATGCCACGATTGTGGATATAACTATTCAGTCGAGCTAAAATCAACTGCTAGTTCTCCTTTAGTTAAGAGACAGGCTTTG
CAACTTTATCTTGAAGGATTAGGATTTCGCTCAATAGGACGATTTTTAGGGGTAAGTCATGTTTCTGTCCAAAAATGGATAAAGAAATTTGGTCAGGAGA
TAGAGGAGCTAAAAAGCGAAAATGAGATATCTATTGTTGAACTGGATGAGATGCACACTTACATCAGTAACAAAAAAAATATTGCTGGATCTGGATTGCT
GTTGATAGAGTTGGGAAAAAGTTCATCAACTGCTCTTTTGGTAGCAGAGGAACGAAAACTGGACAACTACTCTGGGAAAAATTAAAGAAGAAAGAGATTG
GAGAGGTGATGACTGATCACTGGAGGGCATATGCAGAGTTTATTCCTGAAAATATTCATACTCAATCCAAAGCAGAAACGTATACAGTTGAAGGATATAA
CGGCATACTAAGGCACTTTCTGGCAAGGTTGAGACGAAAGACAAAGTGTTATACGAAGAGTCTTGAAATGCTAAAGTACTCTGCTCTTCTATTGATGAAA
AACAGAAATAAAGAGTTATCTATATTTAATTAACAATACC
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 | |
---|---|---|---|---|---|
435 bp | 144 aa | 51 | 485 | + | No |
Description : First part of the transposase
ORF sequence :
MNCPRCKSSNHTKNGIVCGRQRYKCHDCGYNYSVELKSTASSPLVKRQALQLYLEGLGFRSIGRFLGVSHVSVQKWIKKFGQEIEELKSENEISIVELDE
MHTYISNKKNIAGSGLLLIELGKSSSTALLVAEERKLDNYSGKN
MHTYISNKKNIAGSGLLLIELGKSSSTALLVAEERKLDNYSGKN
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
363 bp | 120 aa | 371 | 733 | + | No |
Description : Second part of the transposase
ORF sequence :
QKKYCWIWIAVDRVGKKFINCSFGSRGTKTGQLLWEKLKKKEIGEVMTDHWRAYAEFIPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKCYTKSLEM
LKYSALLLMKNRNKELSIFN
LKYSALLLMKNRNKELSIFN
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
683 bp | 226 aa | 51 | 733 | + | Yes |
Chemistry : DDE
ORF sequence :
MNCPRCKSSNHTKNGIVCGRQRYKCHDCGYNYSVELKSTASSPLVKRQALQLYLEGLGFRSIGRFLGVSHVSVQKWIKKFGQEIEELKSENEISIVELDE
MHTYISNKKYCWIWIAVDRVGKKFINCSFGSRGTKTGQLLWEKLKKKEIGEVMTDHWRAYAEFIPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKCY
TKSLEMLKYSALLLMKNRNKELSIFN
MHTYISNKKYCWIWIAVDRVGKKFINCSFGSRGTKTGQLLWEKLKKKEIGEVMTDHWRAYAEFIPENIHTQSKAETYTVEGYNGILRHFLARLRRKTKCY
TKSLEMLKYSALLLMKNRNKELSIFN
Blast result :
Comments
ISMac16 is 57% (ORFA) and 54% (ORFB) aa similar to ISMae3.
There are 16 complete copies and 7 partial copies in Methanosarcina acetivorans C2A genome.
There are a -1 frameshift site at position 374 : AAAAAAT. The third ORF is the ORF AB, fusion in silico.
There are 16 complete copies and 7 partial copies in Methanosarcina acetivorans C2A genome.
There are a -1 frameshift site at position 374 : AAAAAAT. The third ORF is the ORF AB, fusion in silico.
References
1] Galagan,J.E., Nusbaum,C., Roy,A., Endrizzi,M.G., Macdonald,P., FitzHugh,W., Calvo,S., Engels,R., Smirnov,S., Atnoor,D., Brown,A., Allen,N., Naylor,J., Stange-Thomann,N., DeArellano,K., Johnson,R.,
Linton,L., McEwan,P., McKernan,K., Talamas,J., Tirrell,A., Ye,W.,Zimmer,A., Barber,R.D., Cann,I., Graham,D.E., Grahame,D.A., Guss,A.M., Hedderich,R., Ingram-Smith,C., Kuettner,H.C., Krzycki,J.A., Leigh,J.A., Li,W., Liu,J., Mukhopadhyay,B., Reeve,J.N., Smith,K., Springer,T.A., Umayam,L.A., White,O., White,R.H., Conway de Macario,E., Ferry,J.G., Jarrell,K.F., Jing,H., Macario,A.J., Paulsen,I., Pritchett,M., Sowers,K.R., Swanson,R.V., Zinder,S.H., Lander,E., Metcalf,W.W. and Birren,B. (2002) Genome Res. 12 (4), 532-542
Linton,L., McEwan,P., McKernan,K., Talamas,J., Tirrell,A., Ye,W.,Zimmer,A., Barber,R.D., Cann,I., Graham,D.E., Grahame,D.A., Guss,A.M., Hedderich,R., Ingram-Smith,C., Kuettner,H.C., Krzycki,J.A., Leigh,J.A., Li,W., Liu,J., Mukhopadhyay,B., Reeve,J.N., Smith,K., Springer,T.A., Umayam,L.A., White,O., White,R.H., Conway de Macario,E., Ferry,J.G., Jarrell,K.F., Jing,H., Macario,A.J., Paulsen,I., Pritchett,M., Sowers,K.R., Swanson,R.V., Zinder,S.H., Lander,E., Metcalf,W.W. and Birren,B. (2002) Genome Res. 12 (4), 532-542