ISSisp1

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008043 ND Silicibacter sp.
Silicibacter sp. TM1040
DNA section
IS Length : 1236 bp

Ends


IR Length : 27/39

IRL : TGATGTGATCCCCGAAAACGCCCCCGTTTTTGATTAGAGTTTTCCGCAGA
IRR : TGATGTGCTACCCAACGTGCCCTCGGCCGTTGTTAGAATTTCCGCGGTTC

Insertion site


Left flankDirect repeatRight flankDR Length
GAGCTTTTGTCGATGCCAGC0

DNA sequence

TGATGTGATCCCCGAAAACGCCCCCGTTTTTGATTAGAGTTTTCCGCAGAGAAACCCTGGCTGGGAGAGGAGCGGAAACGCATGAAGGCATCGAAGTTCA
CGGACGCGCAGAAGGCGTTCATCATCAAGCAGGCGGAGGACGGCACCTCGGTGGCCGAGGTCTGCCGCAAGGCCGGGATCAGCACGGCGACATTTTTCAA
CTGGAAGAAAAAATATGCTGGCCTGATGCCATCCGAGATGAAACGGCTCAGGGAACTCGAGCAGGAGAACGCGCGTCTGAAGAAGATCGTCGCGGATCTC
GCGCTCGACAAGGAAATGCTGCAGGACGTCATTAAGCGAAAGCTTTGAGGCCTGCCCGGAAAAGGTCGCTGGTCGACGGGATGCGGGCGGATTGGCAGGT
GTCGATCCGCCGGGCCTGCGAGGTGATCCGGTTCGATCCGAGAACCTATCGCTACAAATCCCGCCGGCCTGGGCAGGCCGCTTTGGAACAGCGGATACGA
GAGATTTGCCAGACGCGCGTGCGCTTCGGCTACAGGCGCGTGCATGTGCTGCTGCGCCGGGAGGGCTGGGAGATCAACGCCAAGAAGACCTATCGCATTT
ACAAGGAGTTGGGTATGCAACTTCGGAGCAAGACACCTAAGCGCCGGGTGAAGGCCAAGCTGCGGGATGACCGCAAGGAGGCTGTCAGCCCCAATGACGT
CTGGGCTATGGACTTTGTTCATGATCAGCTGGCTACAGGCTGGAAACTTCGGGTTCTGACGGTCGTCGACACCTTCTCACGCTATGTCCCGGTGCTTGAT
GCTCGGTTCACATATCGCGGGGAGGACGTGGTCGCGACGCTTGAGCAAGTATGCAAGCGCACCGGCTACCCAGCCACCATCCGTGTTGACCAGGGCAGCG
AGTTCATCTCCAAGGATATGGACCTTTGGGCCTATGCCAACGACGTGACATTGGACTTCTCCCGTCCGGGCAAACCTACCGACAACGCCTTCATCGAGGC
GTTCAATGGCCGGTTCCGGGCGGAGTGCCTGAACGCGCACTGGTTCATGAGCCTTGAAGATGCAGCCGAAAAGTTGGAGGCTTGGCGTAGAGACTACAAT
GAAGAACGCCCGCACGGGGCTATCGGGAACAAGGTCCCGGCAGACCTGATGAAATCAGTTCACGACACCAGCCCGTGAACCTGATGGAACCGCGGAAATT
CTAACAACGGCCGAGGGCACGTTGGGTAGCACATCA
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
267 bp88 aa82348+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKASKFTDAQKAFIIKQAEDGTSVAEVCRKAGISTATFFNWKKKYAGLMPSEMKRLRELEQENARLKKIVADLALDKEMLQDVIKRKL

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
843 bp280 aa3361178+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

AKALRPARKRSLVDGMRADWQVSIRRACEVIRFDPRTYRYKSRRPGQAALEQRIREICQTRVRFGYRRVHVLLRREGWEINAKKTYRIYKELGMQLRSKT
PKRRVKAKLRDDRKEAVSPNDVWAMDFVHDQLATGWKLRVLTVVDTFSRYVPVLDARFTYRGEDVVATLEQVCKRTGYPATIRVDQGSEFISKDMDLWAY
ANDVTLDFSRPGKPTDNAFIEAFNGRFRAECLNAHWFMSLEDAAEKLEAWRRDYNEERPHGAIGNKVPADLMKSVHDTSP

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1097 bp365 aa821178+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKASKFTDAQKAFIIKQAEDGTSVAEVCRKAGISTATFFNWKKKYAGLMPSEMKRLRELEQENARLKKIVADLALDKEMLQDVIKRKALRPARKRSLVDG
MRADWQVSIRRACEVIRFDPRTYRYKSRRPGQAALEQRIREICQTRVRFGYRRVHVLLRREGWEINAKKTYRIYKELGMQLRSKTPKRRVKAKLRDDRKE
AVSPNDVWAMDFVHDQLATGWKLRVLTVVDTFSRYVPVLDARFTYRGEDVVATLEQVCKRTGYPATIRVDQGSEFISKDMDLWAYANDVTLDFSRPGKPT
DNAFIEAFNGRFRAECLNAHWFMSLEDAAEKLEAWRRDYNEERPHGAIGNKVPADLMKSVHDTSP

 

Blast result :
Comments
ISSisp1 is 90% (ORFA) and 78% (ORFB) aa similar to ISBrsp1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] 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., Brettin,T., Bruce,D., Han,C., Tapia,R., Goodwin,L., Thompson,L.S., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Kim,E., Belas,R., Moran,M.A., Buchan,A., Gonzalez,J.M., Schell,M.A., Sun,F. and Richardson,P. (2006) Direct submission GenBank.