ISRfsp3
- Family IS5
- Group ISL2
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_009523 | ND | Roseiflexus sp. | Roseiflexus sp. RS1 |
DNA section
IS Length : 1126 bp
Ends
IR Length : 15/16
IRL : AGACATCATCAAGATTTAGTGATATACTATTTTTGTACAATCTGAAAATG
IRR : AGACTTCATCAAGATTCGTTTTGATTTTTGGACTGCTTTTTGCGTTTCAG
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GCGCAATTTTTGATAACAGT | AATGATCTCCGCACGCAGCC | 0 | |
GCAAAAGCACCCTGATG | AAT | ATCCTGGGATGTCTCGA | 3 |
ACTCCTCGGACGACCGC | AAT | GAACATCGCGCTTCCCC | 3 |
ATTGACTGATCGCATAC | ATT | GGAGAGTAAATCTCTTG | 3 |
GTTGCGAACACACGCTGAAT | ATTGAACAAATTTGAACGGC | 0 | |
CTTCAGTGATTGCAATT | ATT | AATGAACAACTTGCTGT | 3 |
CGTACCGAACAGCTTTC | ACT | GCTTAGGAATACGCCAG | 3 |
AGTAATTTGTGGTGATG | AGT | CGCTAACAGTCGGCGTC | 3 |
CCGCCGATATTTCGGAT | ACT | GAAGGCGCCGAGTGGCT | 3 |
CGGTCAGAATGTTCTCC | ACT | GATGCGCCTACATCACG | 3 |
TGCAAAGTGCGAATGCC | ATT | GTTGTTTGGCTTGTTCT | 3 |
AAATAGCGACCGGTTTC | AGT | ACTCTTCAACGAGTCGA | 3 |
CACATATTTCCGTTATC | ATA | GCATAGACATCAAAGAT | 3 |
CACGTTCTTCTTCCGTC | AAT | GTATACATGTATGGAAC | 3 |
CTCAGTTCTTAGTTCTC | AGT | TCTCAATTCTCAGTTCT | 3 |
CAGAGTGGGTGGAAAGG | ATA | GAAGAGGAGGCCGAGAA | 3 |
GATGTTCGACGGTGATC | ATA | GGTTACTTCTTTCGCAG | 3 |
ACAAACACCGCTTCTAC | AGT | GTGTATCCGGGCAGAGA | 3 |
CCGGCAATAGCGCATGC | AAT | GTGTCGAGAAACACAAT | 3 |
ACGCCTTTGCCCGCAAC | ATT | ATTCGTTGGACGCACAA | 3 |
GTTTGTTGGGCATAAAG | ATT | GGGTCAGTTCCGCGACT | 3 |
DNA sequence
AGACATCATCAAGATTTAGTGATATACTATTTTTGTACAATCTGAAAATGGAGAAAAACGATGTGTAAGTATCGATCCATTATCGAAAATCCGGAGAAAT
TACGCTCTATGACCGGACTGACCGTTGAAGAGTTCCACGCGCTGGTTCCGATCTTCCACGCCGCATTTGAAGCGTATATGAAACGTCGCACGATTGATGG
CCGCGTCCGATATTGTCGTCGCTACGTCTCGTATGCAAACTCGCCGCTTCCGACAACAGAAGATAAATTGCTCTTTATTTTGACCTACTTAAAACAAAAC
CCAACGCAAGTGATGCACGGACACCTCTTTCAAATGAGCCAATCAAACGTAAGCAAATGGGTGCATCTTTTGCACGGAGCGCTGAACTATGCGCTTTCAC
AGCAAAATCTCCTGCCTGCGCGCACTGCCGACGACCTGGCGAGGCGATTGCAGGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGA
AGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGCATGCGACAAAAGCGCCCCCCTTTTTATCC
ATGACGGCGTAGAACGTCCCATTCGCCGTCCAAGCGACAAAGTCGACCGGGAGTTGTATTACAGCGGTAAGAAGAAACGACATACGCTTAAGAACGTTCT
CATCATTGATGAGTTTGGCTCTATTCACTTTTTGAGTGACACCTACGAAGGAAGGGTCCACGATAAATGTATTGCGGATGAAGCGGGATACACCCTTCCA
AACGCGAGCATTCTCTATCAAGACGCCGGATTTCAAGGATTTACCCTGCCTGGCGTCCAGATTATGCAGCCAAAGAAGAAGCCGCGCAATGGAACCCTCA
CGCCGCAGGAAAAGGAGGAAAACCGGCGTATCTCATCCGTTCGCGTTCGTATTGAACATGTTATCGGCGATATCAAGCGGTATCGAATCATTCACGACAT
TATCCGCTTCAGTTGTTCCGAATTTCGGGATATGGTCATGGAAACATGTTGCGGGCTGCATAACTTCCGAATTTGGCTGAAACGCAAAAAGCAGTCCAAA
AATCAAAACGAATCTTGATGAAGTCT
TACGCTCTATGACCGGACTGACCGTTGAAGAGTTCCACGCGCTGGTTCCGATCTTCCACGCCGCATTTGAAGCGTATATGAAACGTCGCACGATTGATGG
CCGCGTCCGATATTGTCGTCGCTACGTCTCGTATGCAAACTCGCCGCTTCCGACAACAGAAGATAAATTGCTCTTTATTTTGACCTACTTAAAACAAAAC
CCAACGCAAGTGATGCACGGACACCTCTTTCAAATGAGCCAATCAAACGTAAGCAAATGGGTGCATCTTTTGCACGGAGCGCTGAACTATGCGCTTTCAC
AGCAAAATCTCCTGCCTGCGCGCACTGCCGACGACCTGGCGAGGCGATTGCAGGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGA
AGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGTGTGAAGAACCGTCGCATGCGACAAAAGCGCCCCCCTTTTTATCC
ATGACGGCGTAGAACGTCCCATTCGCCGTCCAAGCGACAAAGTCGACCGGGAGTTGTATTACAGCGGTAAGAAGAAACGACATACGCTTAAGAACGTTCT
CATCATTGATGAGTTTGGCTCTATTCACTTTTTGAGTGACACCTACGAAGGAAGGGTCCACGATAAATGTATTGCGGATGAAGCGGGATACACCCTTCCA
AACGCGAGCATTCTCTATCAAGACGCCGGATTTCAAGGATTTACCCTGCCTGGCGTCCAGATTATGCAGCCAAAGAAGAAGCCGCGCAATGGAACCCTCA
CGCCGCAGGAAAAGGAGGAAAACCGGCGTATCTCATCCGTTCGCGTTCGTATTGAACATGTTATCGGCGATATCAAGCGGTATCGAATCATTCACGACAT
TATCCGCTTCAGTTGTTCCGAATTTCGGGATATGGTCATGGAAACATGTTGCGGGCTGCATAACTTCCGAATTTGGCTGAAACGCAAAAAGCAGTCCAAA
AATCAAAACGAATCTTGATGAAGTCT
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 | |
---|---|---|---|---|---|
552 bp | 183 aa | 61 | 612 | + | No |
Description : First part of the transposase
ORF sequence :
MCKYRSIIENPEKLRSMTGLTVEEFHALVPIFHAAFEAYMKRRTIDGRVRYCRRYVSYANSPLPTTEDKLLFILTYLKQNPTQVMHGHLFQMSQSNVSKW
VHLLHGALNYALSQQNLLPARTADDLARRLQEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSHATKAPPFLSMTA
VHLLHGALNYALSQQNLLPARTADDLARRLQEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSHATKAPPFLSMTA
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
468 bp | 185 aa | 651 | 1118 | + | No |
Description : Second part of the transposase
ORF sequence :
RTVACDKSAPLFIHDGVERPIRRPSDKVDRELYYSGKKKRHTLKNVLIIDEFGSIHFLSDTYEGRVHDKCIADEAGYTLPNASILYQDAGFQGFTLPGVQ
IMQPKKKPRNGTLTPQEKEENRRISSVRVRIEHVIGDIKRYRIIHDIIRFSCSEFRDMVMETCCGLHNFRIWLKRKKQSKNQNES
IMQPKKKPRNGTLTPQEKEENRRISSVRVRIEHVIGDIKRYRIIHDIIRFSCSEFRDMVMETCCGLHNFRIWLKRKKQSKNQNES
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1058 bp | 352 aa | 61 | 1118 | + | Yes |
Chemistry : DDE
ORF sequence :
MCKYRSIIENPEKLRSMTGLTVEEFHALVPIFHAAFEAYMKRRTIDGRVRYCRRYVSYANSPLPTTEDKLLFILTYLKQNPTQVMHGHLFQMSQSNVSKW
VHLLHGALNYALSQQNLLPARTADDLARRLQEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSHATKAPPLFIHDGVERPIRRPSDKVDRELY
YSGKKKRHTLKNVLIIDEFGSIHFLSDTYEGRVHDKCIADEAGYTLPNASILYQDAGFQGFTLPGVQIMQPKKKPRNGTLTPQEKEENRRISSVRVRIEH
VIGDIKRYRIIHDIIRFSCSEFRDMVMETCCGLHNFRIWLKRKKQSKNQNES
VHLLHGALNYALSQQNLLPARTADDLARRLQEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSHATKAPPLFIHDGVERPIRRPSDKVDRELY
YSGKKKRHTLKNVLIIDEFGSIHFLSDTYEGRVHDKCIADEAGYTLPNASILYQDAGFQGFTLPGVQIMQPKKKPRNGTLTPQEKEENRRISSVRVRIEH
VIGDIKRYRIIHDIIRFSCSEFRDMVMETCCGLHNFRIWLKRKKQSKNQNES
Blast result :
Comments
ISRfsp3 is 45% aa similar to ISCaa6. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
This tranposase had an insert of 7 x 5 amino acid : EEPSC.
This tranposase had an insert of 7 x 5 amino acid : EEPSC.
References
1] ISfinder annotation (2011)
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Chertkov,O., Brettin,T., Bruce,D., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Bryant,D. and Richardson,P. (2007) Direct submission GenBank.
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Chertkov,O., Brettin,T., Bruce,D., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Bryant,D. and Richardson,P. (2007) Direct submission GenBank.