ISOba2
- Family IS3
- Group IS407
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| NZ_AAMO01000005 | ND | Oceanicola batsensis | Oceanicola batsensis HTCC2597 |
DNA section
IS Length : 1253 bp
Ends
IR Length : 34/45
IRL : TGACCTGCCCCCCGCGAAATCCCTCACCATGATGTAGAGTCTGCGCCAAC
IRR : TGACCTGCCCCCTGCCGGTCCCTCATTCATAACGAGAGTCTGCAGTTTGG
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GAAGGAGCAG | GAAATCCTCA | 0 |
DNA sequence
TGACCTGCCCCCCGCGAAATCCCTCACCATGATGTAGAGTCTGCGCCAACTCTGAAGGAGCAGACGAATGCGAAAGAGCCGTTTCACCGAGGCGCAGATA
ATCGGGATGATCAAGGAGCAGGAAGCCGGTATGCCGACAGCCGAGGTGTGCCGCAGGCATGGGCTGAGCACGGCGACCTTCTACAAGCTGAAGTCCAAGT
ATGGCGGCATGGAAGTGTCCGAGGCGGCCAGGCTGAAAGCCCTCGAGGACGAGAACGCCAAGCTCAAGCGCCTGCTGGCGGATACGATGCTGGACAACGT
TGTCTTGAAAGACCTGCTGGGAAAGAGCTGACGACGTTGACCAAGCGGCGAGACGCGGCGCTCCGAGTGATGCGGGATCACGACATCTCGCAGCGCCGGG
CCTGCAGGCTGGTCGGTGTCGATCCCAAGACTGTCCGGCGAGACCGCCCGCCGGACAGTGCTGAGATCCGCAAGGAGATGCAGGAGATCGCCGGCAAGCG
GCGTCGGTTCGGCTATCGCCGGATCGGCATATTGCTGGAACGCAAGGGCATGATCATGAACCACAAGAAGCTGTATCGCATTTACCGTGAGGAAGGGTTG
TCGGTAAAACGGCGCCGCGGCCGGAAACGGACGCGCGGCACCAGAGCACCGATGCCCGTTGCCGCGTGTCCCAACGCGCGCTGGTCCCTGGACTTCGTGT
CCGACAGTTTCGGCGCCTCGCGGAAGTTCCGCATCCTCGCCGTAATCGACGACTGCACGCGGGAATGCCTGTGCCTCATCGCGGACACGAGTCTGTCGGG
CGCACGAGTGGCCCGGGAACTCAGCGCCCTGATCCGGGTCTACGGACAGCCGGGCTGCATTGTCAGTGATAACGGGACGGAGTTCACCAGTCGGGCCATC
CTGAAATGGGCTGACGAGAACAGGGTGCCCTGGCACTACATCGATCCGGGCAAGCCGCAGCAGAACGCCTTCATCGAGAGCTTCAACGGCAGCCTGCGCG
ACGAGCTCTTGAACGAGGAGATATTCGACAGCCTGGACGATGCACGCCGCAAGCTGGCCTTGTGGCGCTACGATTACAACACGGTCAGGCCACACTCGTC
GCTCGGCAACCAGACGCCGCAGCAAGCGCGGCGGGCGCTTGAGCAAATTGAGGGCTCCGCGCCCGGCGCGCTTGCGCCAGACGGAGAACCGGAATACCCA
AATCCAAACTGCAGACTCTCGTTATGAATGAGGGACCGGCAGGGGGCAGGTCA
ATCGGGATGATCAAGGAGCAGGAAGCCGGTATGCCGACAGCCGAGGTGTGCCGCAGGCATGGGCTGAGCACGGCGACCTTCTACAAGCTGAAGTCCAAGT
ATGGCGGCATGGAAGTGTCCGAGGCGGCCAGGCTGAAAGCCCTCGAGGACGAGAACGCCAAGCTCAAGCGCCTGCTGGCGGATACGATGCTGGACAACGT
TGTCTTGAAAGACCTGCTGGGAAAGAGCTGACGACGTTGACCAAGCGGCGAGACGCGGCGCTCCGAGTGATGCGGGATCACGACATCTCGCAGCGCCGGG
CCTGCAGGCTGGTCGGTGTCGATCCCAAGACTGTCCGGCGAGACCGCCCGCCGGACAGTGCTGAGATCCGCAAGGAGATGCAGGAGATCGCCGGCAAGCG
GCGTCGGTTCGGCTATCGCCGGATCGGCATATTGCTGGAACGCAAGGGCATGATCATGAACCACAAGAAGCTGTATCGCATTTACCGTGAGGAAGGGTTG
TCGGTAAAACGGCGCCGCGGCCGGAAACGGACGCGCGGCACCAGAGCACCGATGCCCGTTGCCGCGTGTCCCAACGCGCGCTGGTCCCTGGACTTCGTGT
CCGACAGTTTCGGCGCCTCGCGGAAGTTCCGCATCCTCGCCGTAATCGACGACTGCACGCGGGAATGCCTGTGCCTCATCGCGGACACGAGTCTGTCGGG
CGCACGAGTGGCCCGGGAACTCAGCGCCCTGATCCGGGTCTACGGACAGCCGGGCTGCATTGTCAGTGATAACGGGACGGAGTTCACCAGTCGGGCCATC
CTGAAATGGGCTGACGAGAACAGGGTGCCCTGGCACTACATCGATCCGGGCAAGCCGCAGCAGAACGCCTTCATCGAGAGCTTCAACGGCAGCCTGCGCG
ACGAGCTCTTGAACGAGGAGATATTCGACAGCCTGGACGATGCACGCCGCAAGCTGGCCTTGTGGCGCTACGATTACAACACGGTCAGGCCACACTCGTC
GCTCGGCAACCAGACGCCGCAGCAAGCGCGGCGGGCGCTTGAGCAAATTGAGGGCTCCGCGCCCGGCGCGCTTGCGCCAGACGGAGAACCGGAATACCCA
AATCCAAACTGCAGACTCTCGTTATGAATGAGGGACCGGCAGGGGGCAGGTCA
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 | |
|---|---|---|---|---|---|
| 264 bp | 87 aa | 68 | 331 | + | No |
Description : First part of the transposase
ORF sequence :
MRKSRFTEAQIIGMIKEQEAGMPTAEVCRRHGLSTATFYKLKSKYGGMEVSEAARLKALEDENAKLKRLLADTMLDNVVLKDLLGKS
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1224 bp | 407 aa | 4 | 1227 | + | No |
Description : Second part of the transposase
ORF sequence :
PAPREIPHHDVESAPTLKEQTNAKEPFHRGADNRDDQGAGSRYADSRGVPQAWAEHGDLLQAEVQVWRHGSVRGGQAESPRGRERQAQAPAGGYDAGQRC
LERPAGKELTTLTKRRDAALRVMRDHDISQRRACRLVGVDPKTVRRDRPPDSAEIRKEMQEIAGKRRRFGYRRIGILLERKGMIMNHKKLYRIYREEGLS
VKRRRGRKRTRGTRAPMPVAACPNARWSLDFVSDSFGASRKFRILAVIDDCTRECLCLIADTSLSGARVARELSALIRVYGQPGCIVSDNGTEFTSRAIL
KWADENRVPWHYIDPGKPQQNAFIESFNGSLRDELLNEEIFDSLDDARRKLALWRYDYNTVRPHSSLGNQTPQQARRALEQIEGSAPGALAPDGEPEYPN
PNCRLSL
LERPAGKELTTLTKRRDAALRVMRDHDISQRRACRLVGVDPKTVRRDRPPDSAEIRKEMQEIAGKRRRFGYRRIGILLERKGMIMNHKKLYRIYREEGLS
VKRRRGRKRTRGTRAPMPVAACPNARWSLDFVSDSFGASRKFRILAVIDDCTRECLCLIADTSLSGARVARELSALIRVYGQPGCIVSDNGTEFTSRAIL
KWADENRVPWHYIDPGKPQQNAFIESFNGSLRDELLNEEIFDSLDDARRKLALWRYDYNTVRPHSSLGNQTPQQARRALEQIEGSAPGALAPDGEPEYPN
PNCRLSL
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1160 bp | 389 aa | 68 | 1227 | + | Yes |
Chemistry : DDE
ORF sequence :
MRKSRFTEAQIIGMIKEQEAGMPTAEVCRRHGLSTATFYKLKSKYGGMEVSEAARLKALEDENAKLKRLLADTMLDNVVLKDLLGPAGKELTTLTKRRDA
ALRVMRDHDISQRRACRLVGVDPKTVRRDRPPDSAEIRKEMQEIAGKRRRFGYRRIGILLERKGMIMNHKKLYRIYREEGLSVKRRRGRKRTRGTRAPMP
VAACPNARWSLDFVSDSFGASRKFRILAVIDDCTRECLCLIADTSLSGARVARELSALIRVYGQPGCIVSDNGTEFTSRAILKWADENRVPWHYIDPGKP
QQNAFIESFNGSLRDELLNEEIFDSLDDARRKLALWRYDYNTVRPHSSLGNQTPQQARRALEQIEGSAPGALAPDGEPEYPNPNCRLSL
ALRVMRDHDISQRRACRLVGVDPKTVRRDRPPDSAEIRKEMQEIAGKRRRFGYRRIGILLERKGMIMNHKKLYRIYREEGLSVKRRRGRKRTRGTRAPMP
VAACPNARWSLDFVSDSFGASRKFRILAVIDDCTRECLCLIADTSLSGARVARELSALIRVYGQPGCIVSDNGTEFTSRAILKWADENRVPWHYIDPGKP
QQNAFIESFNGSLRDELLNEEIFDSLDDARRKLALWRYDYNTVRPHSSLGNQTPQQARRALEQIEGSAPGALAPDGEPEYPNPNCRLSL
Blast result :
Comments
Genome in Project.
ISOba2 is 93 % (ORFA) aa similar to ISR1 and 63% (ORFB) aa similar to ISXau1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ISOba2 is 93 % (ORFA) aa similar to ISR1 and 63% (ORFB) aa similar to ISXau1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Giovannoni,S.J., Cho,J.-C., Ferriera,S., Johnson,J., Kravitz,S., Halpern,A., Remington,K., Beeson,K., Tran,B., Rogers,Y.-H., Friedman,R. and Venter,J.C. (2006) Direct submission GenBank.