ISSba3

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_009052 ND Shewanella baltica
Shewanella baltica OS155
DNA section
IS Length : 1235 bp

Ends


IR Length : 26/38

IRL : TGTTCTGGTCTAATCCCATCGGACACTTAATTTTGAGACAGTATGGTCAA
IRR : TGTACTGGTCAACCCAAACTGGACACTTTTAGTTGAGAATTTTCAAACTC

Insertion site


Left flankDirect repeatRight flankDR Length
TTGTTATTGCCAATTCACTATAA3
GTATTCTATACCATTAATAAATA3
TCAAATGCAACAGGGCCTGCACC3
CAGCTCAACGCCTTAAACACACA3
TTCACAGAATGTCCCCAGCGCGA3
CAATATCATCTAATGCCATACGG3
TTCAATCTCAGAAACCGCCATGT3
AGTTTTGGCTTTAAACCTCAAGC3
GCCCATAGCAATCGCATTAGCAG3
AGGCGGCGAAGTGCACCATACAA3
TCCCTGCTTAATATATGGCTTTT3
GCGCAAGAAAGTGCTTGAGGCAG3
AGTTGCTAAGAACGAACCGGGGC3
ATAACTCGAGAGCAACCTACCGA3
TTTTCTATTTATCTTTCCGTCTT3
CTTGGATACTATACGGGGCA0
TAAACAACCTTTAATTAAGT0

DNA sequence

TGTTCTGGTCTAATCCCATCGGACACTTAATTTTGAGACAGTATGGTCAATAAATTAAGAGGTCTATATGAGTCTGAAGAAATCACATAAGAGTTATCCG
CAGGCATTTAAAGATGAAGCCGTCTTGATGGTGCTAGAACAAGGTTATAGCGTTGCCGATGCGGCAAAGTCTCTTGGAGTTAGCACGAGCCTGCTTTACA
ACTGGAAGGAAAAACACGAAGCCCTGAAACAAGGTATCACCTTAGAAGAATCTGAGCGTGATGAGTTGAAACGATTGCGTAGAGAAAACAAAGAATTACG
CATGGAGAAAGAAATTCTAAAAAAGGCAAGCGCCTTCTTTGCGAGAGAAATGAAGTAAGATTTCGTTTCATCAAACAGCAATCTAACCTGTTTCCTATAA
CACTGTTATGCCGAGTAATGAGTGTCAGTAAGTCAGGCTATTACGATTGGCATAAACGCCCTGCAAACGTGATAAGCCTTGAAACACTGAAGCTTTATCG
CCTTGTTAGACAGCTATTTAAGCAAAGTCGAGGCAGCTTAGGAAATCGTGAAATGGTGAAGAAATTGCGCAAGGAAGGCTACCAGGTTGGTCGCTATCTC
GTTCGTAAAATTATGCACCGCCTTCGACTCAAAGCAACCCAGCGACGCGCTTACAAGGTGACGACACAGCGAAAACACTCAGATGCAGTGGCAGATAACC
TGCTAAACATGAACTTTAACCCCGTATCGGCTAATGAGGTTTGGGCGGGTGACGTGACCTATTTAAAGACGGGTGAGGGCTGGATGTATTTAGCTGTGGT
GATGGATTTATATTCACGCCGGATTGTGGGATGGCACATAGACAAACGCATGACCACGGATTTGATATCTAAGGCATTAATAAAAGCCTACAACCTGCGC
CAACCGGCCAGAGGGCTGGTATTTCACAGTGACCGAGGCTCGCAATATACCAGTAAGCAATTCGGTAGGCTGCTATTGAGCTATGGTATCCGAGCCAGCA
TGGGTGATGTGGGAGCGTGTTGGGATAATGCCGTTGTTGAGCGATTCTTTGGCAGCTTAAAACACGATTGGATTTTTAAAGTTAATCAACCAACAAGGGA
GTTTATGAAGCAAGATGTGACTGCTTACATGAAATATTACAACTTGGAGCGACTTCATTCTGCTAATGGTGATCTGTCACCTGTAGAGTTTGAAAATTCT
CAACTAAAAGTGTCCAGTTTGGGTTGACCAGTACA
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
291 bp96 aa68358+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSLKKSHKSYPQAFKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESERDELKRLRRENKELRMEKEILKKASAFFAREMK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
869 bp300 aa3591227+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GKRLLCERNEVRFRFIKQQSNLFPITLLCRVMSVSKSGYYDWHKRPANVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRL
RLKATQRRAYKVTTQRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVF
HSDRGSQYTSKQFGRLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1160 bp386 aa681227+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSLKKSHKSYPQAFKDEAVLMVLEQGYSVADAAKSLGVSTSLLYNWKEKHEALKQGITLEESERDELKRLRRENKELRMEKEILKKGKRLLCERNEVRFR
FIKQQSNLFPITLLCRVMSVSKSGYYDWHKRPANVISLETLKLYRLVRQLFKQSRGSLGNREMVKKLRKEGYQVGRYLVRKIMHRLRLKATQRRAYKVTT
QRKHSDAVADNLLNMNFNPVSANEVWAGDVTYLKTGEGWMYLAVVMDLYSRRIVGWHIDKRMTTDLISKALIKAYNLRQPARGLVFHSDRGSQYTSKQFG
RLLLSYGIRASMGDVGACWDNAVVERFFGSLKHDWIFKVNQPTREFMKQDVTAYMKYYNLERLHSANGDLSPVEFENSQLKVSSLG

 

Blast result :
Comments
There are 14 copies of ISSba3 encoded in the chromosome and 3 in the plasmid. 2 of the chromosome copies are interrupted by other IS elements. ORF3 is deduced from the predicted translational frameshift of orfs 1 and 2. ORF3 has 96% identity with ISSde6_aa3.
References
1] Romine, M. (2008) Direct submission.