ISRfsp3

  • Family IS5
  • Group ISL2
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
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 flankDirect repeatRight flankDR Length
GCGCAATTTTTGATAACAGTAATGATCTCCGCACGCAGCC0
GCAAAAGCACCCTGATGAATATCCTGGGATGTCTCGA3
ACTCCTCGGACGACCGCAATGAACATCGCGCTTCCCC3
ATTGACTGATCGCATACATTGGAGAGTAAATCTCTTG3
GTTGCGAACACACGCTGAATATTGAACAAATTTGAACGGC0
CTTCAGTGATTGCAATTATTAATGAACAACTTGCTGT3
CGTACCGAACAGCTTTCACTGCTTAGGAATACGCCAG3
AGTAATTTGTGGTGATGAGTCGCTAACAGTCGGCGTC3
CCGCCGATATTTCGGATACTGAAGGCGCCGAGTGGCT3
CGGTCAGAATGTTCTCCACTGATGCGCCTACATCACG3
TGCAAAGTGCGAATGCCATTGTTGTTTGGCTTGTTCT3
AAATAGCGACCGGTTTCAGTACTCTTCAACGAGTCGA3
CACATATTTCCGTTATCATAGCATAGACATCAAAGAT3
CACGTTCTTCTTCCGTCAATGTATACATGTATGGAAC3
CTCAGTTCTTAGTTCTCAGTTCTCAATTCTCAGTTCT3
CAGAGTGGGTGGAAAGGATAGAAGAGGAGGCCGAGAA3
GATGTTCGACGGTGATCATAGGTTACTTCTTTCGCAG3
ACAAACACCGCTTCTACAGTGTGTATCCGGGCAGAGA3
CCGGCAATAGCGCATGCAATGTGTCGAGAAACACAAT3
ACGCCTTTGCCCGCAACATTATTCGTTGGACGCACAA3
GTTTGTTGGGCATAAAGATTGGGTCAGTTCCGCGACT3

DNA sequence

AGACATCATCAAGATTTAGTGATATACTATTTTTGTACAATCTGAAAATGGAGAAAAACGATGTGTAAGTATCGATCCATTATCGAAAATCCGGAGAAAT
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
LengthBeginEndStrandFusion ORF
552 bp183 aa61612+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MCKYRSIIENPEKLRSMTGLTVEEFHALVPIFHAAFEAYMKRRTIDGRVRYCRRYVSYANSPLPTTEDKLLFILTYLKQNPTQVMHGHLFQMSQSNVSKW
VHLLHGALNYALSQQNLLPARTADDLARRLQEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSCEEPSHATKAPPFLSMTA

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
468 bp185 aa6511118+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RTVACDKSAPLFIHDGVERPIRRPSDKVDRELYYSGKKKRHTLKNVLIIDEFGSIHFLSDTYEGRVHDKCIADEAGYTLPNASILYQDAGFQGFTLPGVQ
IMQPKKKPRNGTLTPQEKEENRRISSVRVRIEHVIGDIKRYRIIHDIIRFSCSEFRDMVMETCCGLHNFRIWLKRKKQSKNQNES

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1058 bp352 aa611118+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MCKYRSIIENPEKLRSMTGLTVEEFHALVPIFHAAFEAYMKRRTIDGRVRYCRRYVSYANSPLPTTEDKLLFILTYLKQNPTQVMHGHLFQMSQSNVSKW
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.
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.