ISPpr7

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_006370 ND Photobacterium profundum
Photobacterium profundum SS9
DNA section
IS Length : 1665 bp

Ends


IR Length : 17/25

IRL : CCCCCTGTGTCAGACTACTTGTCGCTTCTAATTTTCATTAGAGGTATTAA
IRR : CGGCGATTTTCAAGCTACTTGTCGCCTGTTAGTTAAATATTATGCCGCCT

Insertion site


Left flankDirect repeatRight flankDR Length
GACACTCTCTTTAAAGAACACCGT4
AAGAAATTAGATCTAGAATACCGC4
ATGAAAATCGTATAAAAGGCGAGG4
TCTGTTCCAGATTATTGTTATCAT4
AATGGAGAAGGGAGAAAGGCAAAG4
CATCAAGTGCCTGGCGGCGA0
ATTCACTCTTAAACCGGCAA0
ACTTGGGTACATAGCTGCCA0

DNA sequence

CCCCCTGTGTCAGACTACTTGTCGCTTCTAATTTTCATTAGAGGTATTAAAAATGAGTGTAAAATTCACCGAAGCATTTAAGATACAAGCTGTTCAAAAA
GCACTTAACCGATCTGCTGACAGTAACATTAAAGACGTTGCTGACTCATTAGGTGTTGGCTTTTCAACCTTAACCAAATGGATCCGACAAGCCAAAAATC
ATGAATTTGAAATGGCTTCAGAAGCTGAGTTAAAAATGATGTCTAATGAGAAACGTCCACAAGATTGGACTCTAGAAGAACGACTTGAAATTATCATCCA
GTGTGCTGCCTTGGATGAGAAAGCTATCAATGAATTGTGTCGTGAAAGCGGCATTTATCCTCATCATATTCAGCAATGGAAGACGGATTTTGTTAATGGC
AAAAAATCATCTTCAGTAACACCAAGATCGGGTGAAGTGAAAGAGCTGAAAATAGAGAATAAAGCACTTAAAAAAGAGTTAAACCGCAAGGATAAAGCGC
TGGCTGAAACGGCCGCATTGTTAGTTCTCCAAAAAAAAGTAAACGCCATCTGGGGAGCCGACGAGGACAGCTAATAACAAACAGCGAACGTGAAGAAATC
CTTAGCTTGATCAACGAGGCTCAGGCAACAGGAGCTCGGCAGTCTCAAGCCTGTAAAATTATTGGCCTGAATTCAAAAACCATACAGCGCTGGAAATATA
ACGATAATACTCATGACAAACGGCTAAATGCTCAAAGGGCACCCAAAAACAAGCTAACAGACTTGGAGAGGCAACGTATTATTAATGTTGCCAATGAAGC
TACATATGCAAATTTACCACCGAATCAGATAGTGCCGATACTGGCAGATAAAGGGATTTATCTGGGTTCTGAGTCAACATTTTATCGGATTTTAAAAGCA
CATAAGCTACTAAATCATAGACAACGGAGCAAACCGTGCCAGAAAGTAAAAAAACCAAAAGCATTGGTTGCAACGGGCCCAAACCAAGTCTACACATGGG
ATATTACCTATTTGCCGACAACAGTGAAGGGATTATTTTTCTACCTTTATATGGTTATGGACGTTTTCAGTAGAAAAGTTGTTGGCTGGCAGGTACATGA
TAATGAGTCGAGTGCCTTAGCAGCAGATTTGATGACTGACATTTGTAAACGTGAGGACATTAAACGAGGCCAGGTGGTACTACATTCGGATAACGGTAGT
CCGATGAAGGGAGCGACAATGTTAGCCACACTGCAAGAGTTAGGTGTTATGCCATCGCTGAGCAGGCCGTCTGTAAGTAATGATAATCCGTATTCAGAGT
CACTGTTTAGAACGTTAAAATACCGTCCTGAGTACCCTGAAAAAGCCTTTGAGAATATAGCCTCATCACGTCGTTGGGTAAGTGATTTTGTTTGTTGGTA
TAACAATGAACACCGACATAGCGGGATTAAGTTTGTTACGCCAGCACAACGTCATACAGGGAGAGATATCGAAATTTTAGCGCAACGAACTCGGTTATAT
CATGCTGCGAAAGCACGACATCCAGAGCGATGGCGTGGCAATATTAAAAATTTAGAACCAGTAGGCTCTGTATACCTGAATCCTGAAAAAGGGAAAGCTA
ATAGCAAAGAGGTCGAGGCGGCATAATATTTAACTAACAGGCGACAAGTAGCTTGAAAATCGCCG
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
522 bp173 aa53574+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSVKFTEAFKIQAVQKALNRSADSNIKDVADSLGVGFSTLTKWIRQAKNHEFEMASEAELKMMSNEKRPQDWTLEERLEIIIQCAALDEKAINELCRESG
IYPHHIQQWKTDFVNGKKSSSVTPRSGEVKELKIENKALKKELNRKDKALAETAALLVLQKKVNAIWGADEDS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1119 bp372 aa5081626+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

NGRIVSSPKKSKRHLGSRRGQLITNSEREEILSLINEAQATGARQSQACKIIGLNSKTIQRWKYNDNTHDKRLNAQRAPKNKLTDLERQRIINVANEATY
ANLPPNQIVPILADKGIYLGSESTFYRILKAHKLLNHRQRSKPCQKVKKPKALVATGPNQVYTWDITYLPTTVKGLFFYLYMVMDVFSRKVVGWQVHDNE
SSALAADLMTDICKREDIKRGQVVLHSDNGSPMKGATMLATLQELGVMPSLSRPSVSNDNPYSESLFRTLKYRPEYPEKAFENIASSRRWVSDFVCWYNN
EHRHSGIKFVTPAQRHTGRDIEILAQRTRLYHAAKARHPERWRGNIKNLEPVGSVYLNPEKGKANSKEVEAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1574 bp524 aa531626+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSVKFTEAFKIQAVQKALNRSADSNIKDVADSLGVGFSTLTKWIRQAKNHEFEMASEAELKMMSNEKRPQDWTLEERLEIIIQCAALDEKAINELCRESG
IYPHHIQQWKTDFVNGKKSSSVTPRSGEVKELKIENKALKKELNRKDKALAETAALLVLQKKSKRHLGSRRGQLITNSEREEILSLINEAQATGARQSQA
CKIIGLNSKTIQRWKYNDNTHDKRLNAQRAPKNKLTDLERQRIINVANEATYANLPPNQIVPILADKGIYLGSESTFYRILKAHKLLNHRQRSKPCQKVK
KPKALVATGPNQVYTWDITYLPTTVKGLFFYLYMVMDVFSRKVVGWQVHDNESSALAADLMTDICKREDIKRGQVVLHSDNGSPMKGATMLATLQELGVM
PSLSRPSVSNDNPYSESLFRTLKYRPEYPEKAFENIASSRRWVSDFVCWYNNEHRHSGIKFVTPAQRHTGRDIEILAQRTRLYHAAKARHPERWRGNIKN
LEPVGSVYLNPEKGKANSKEVEAA

 

Blast result :
Comments
ISPpr7 is 55%(ORF A) and 69% (ORF B) aa similar to IS1240. The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
File updated: September 13 2013. Extremities were modified, the proposed ends for this sequence are based on the similarities with closely relative elements.
References
1] Vezzi,A., Campanaro,S., D'Angelo,M., Simonato,F., Vitulo,N., Lauro,F., Cestaro,A., Malacrida,G., Simionati,B., Cannata,N., Bartlett,D. and Valle,G. (2004) Direct submission Genbank.