ISShes2

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008321 ND Shewanella sp.
Shewanella sp. MR-4
DNA section
IS Length : 1299 bp

Ends


IR Length : 20/25

IRL : TGTCTAGTCCTGAAATACGTTGACATAAAGAGGACTTCTTTATGACAACA
IRR : TGTCCCGTCCTAAGATAGGTTGACAGTTTTTAGGCCAGCTCCAGTAGCTG

Insertion site


Left flankDirect repeatRight flankDR Length
TTTTATTGCTCTCATTTCATTTC3
TTTCGTTTTCAACCTATGGGTTA3
TTTTTAGTTGTGCGATTTAAGAC3
TGTCGTTACTCTCGAAGCCAAAA3
TTTGTGTTAGTAAACCTCATAAA3
TTTCTAAAACGTTTAATGTCGGA3
TTGCATTGATGGGGGATAAAGAC3

DNA sequence

TGTCTAGTCCTGAAATACGTTGACATAAAGAGGACTTCTTTATGACAACATCAATTAACTCAAGCCGTAAGCGCACACAACGAGATTACACCTTAGCCTT
TAAATTAGGCGTTGTAGAGCGTGTTGAAAAAGGCGAAATGACGTACAAACAAGCCCAAGCCCATTTTGGTATTCAAGGCCGTTCAACGGTACTCGTTTGG
CTTAGAAAACATGGTAGACTCGATTGGTCGAAACCTTTTCAGCATCCCCTTATGCCTAAGTCAAAAGAAACCCCTGCCGAAACTATCAAGCGCCTTGAAC
GTGAGTTAGCAGAAGAGAAACTGCGTAACAAAATCCTCAATGGTATGGTTGATATCATGGACAATGAATATGGAGCAGGCCTCAGAAAAAAGTACTTATC
CGGTACGTCTGGCAAGCAAAAAGCAACGGCGAAATAAACCTCGCTGCCGCATGTCGTGCTGCGGGTATGTCGAGGCAAGGTATTTATCAGGCAGTTGCTC
GAATGGAAAGTCGTAGAGCTGAGCTATCGGTCATCAAAGACTGGGTCCAGTACTGGCGTAAATATATGCCAAGGTTAGGGGCCCGTAAGCTCTACACGTT
GATAAAATCCAAGCTGGTTGAGCACGATATTAAACTCGGGCGAGATGGGTTCTTTACCTATTTGAGAAGTGAAGGTTTACTGGTTAAACCGAAGAAAAGC
TACACAAAAACCACGTTCAGCAAACACTGGATGAAGAAGCATCCTAATTTGCTGAAAGAGGAAGGACTGCATGATGCAGGGCATGTACTGGTCAGTGATA
TCACCTATCTTGAGTCAGACCAAGGTGTGCACTACCTGTCACTGGTCACCGATGCCAGTTCTCGTAAGATAGTCGGTCATCACGTGAGTAAAGACATGAA
AGCCGAGAGTGTGGTGAAAGCGTTAAAAATGGCCATAAAAGATAAACGCTATATCGGCAACGCAGTGCATCACTCAGACAGAGGTTTACAATACTGCTCA
GCAGTTTATCAGAATGCGCTTCAGGCGAGCCAAATCCAGCCGTCAATGACGGATGGTTATGATTGCTACCAAAATGCATTGGCAGAAAGAGTGAATGGCA
TACTGAAGCAGGAGTTTTTACTGCACCGATGTAGGACATTTGCGGAGCTGAAGATACTTGTTAGAGAATCGATAGCAATATACAACGATATGAGACCGCA
TCTGAGTTTGAATATGGCAACCCCTAATCAGGTGCACAATAGAAAAGGCCAGCTACTGGAGCTGGCCTAAAAACTGTCAACCTATCTTAGGACGGGACA
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
396 bp131 aa42437+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTTSINSSRKRTQRDYTLAFKLGVVERVEKGEMTYKQAQAHFGIQGRSTVLVWLRKHGRLDWSKPFQHPLMPKSKETPAETIKRLERELAEEKLRNKILN
GMVDIMDNEYGAGLRKKYLSGTSGKQKTTAK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
903 bp300 aa3681270+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

IWSRPQKKVLIRYVWQAKSNGEINLAAACRAAGMSRQGIYQAVARMESRRAELSVIKDWVQYWRKYMPRLGARKLYTLIKSKLVEHDIKLGRDGFFTYLR
SEGLLVKPKKSYTKTTFSKHWMKKHPNLLKEEGLHDAGHVLVSDITYLESDQGVHYLSLVTDASSRKIVGHHVSKDMKAESVVKALKMAIKDKRYIGNAV
HHSDRGLQYCSAVYQNALQASQIQPSMTDGYDCYQNALAERVNGILKQEFLLHRCRTFAELKILVRESIAIYNDMRPHLSLNMATPNQVHNRKGQLLELA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1229 bp409 aa421270+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTTSINSSRKRTQRDYTLAFKLGVVERVEKGEMTYKQAQAHFGIQGRSTVLVWLRKHGRLDWSKPFQHPLMPKSKETPAETIKRLERELAEEKLRNKILN
GMVDIMDNEYGAGLRKKVLIRYVWQAKNNGEINLAAACRAAGMSRQGIYQAVARMESRRAELSVIKDWVQYWRKYMPRLGARKLYTLIKSKLVEHDIKLG
RDGFFTYLRSEGLLVKPKKSYTKTTFSKHWMKKHPNLLKEEGLHDAGHVLVSDITYLESDQGVHYLSLITDASSRKIVGHHVSKDMKAESVVKALKMAIK
DKRYIGNAVHHSDRGLQYCSAVYQNALQASQIQPSMTDGYDCYQNALAERVNGILKQEFLLHRCRTFAELKILVRESIAIYNDMRPHLSLNMATPNQVHN
RKGQLLELA

 

Blast result :
Comments
There are 7 full length copies of ISShes2 in the Shewanela MR-4 chromosome. The third ORF is deduced from the predicted positions of programmed frameshifting and read through of in frame stop codons. The ISShes2 transposase has 57% identity to ISDde2.
References
1] Romine, M. (2008) Direct submission.