ISPlsp1

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_009379 ND Polynucleobacter sp.
Polynucleobacter sp. QLW-P1DMWA-1
DNA section
IS Length : 1446 bp

Ends


IR Length : 22/24

IRL : TGAACTGCACCCCAAAAGTTGGACATCCGTCCAACCTAATCAGGTGCAGT
IRR : TGAACTGACCCCCAAAAGTTGGACGGTTTAGCTAGGTTAGCACGAGGGAT

Insertion site


Left flankDirect repeatRight flankDR Length
ATAAAAAAGACTGTCATTGTTGGCAGTCTT4

DNA sequence

TGAACTGCACCCCAAAAGTTGGACATCCGTCCAACCTAATCAGGTGCAGTTTTCATGTCCAAATATAGCAAAGAGTTCAAGTTAACAGTCATACAGCATT
ATCTCTCCGGTAAGGGTGGCTTTAAAAACATTGGGGATCAATTTGGCGTTAAATACGCTTATGTGCGCAAATGGGTTCATGCTTTTAAGGCTCACGGTCA
AAAGAGTTTGAATAAAAGTGCCATCCAGTACTCCAGTATTTTTAAGTTATCCGTCTTGCAGCACATGGAACAACATCAGCTCTCGGTGAACCAAGCGGCA
ACCCACTTCAATATCCCAGCACCAAGCTCAGTACTAGCATGGCAACGCCTCTACAATGAAGGTGGTATTACAGCCCTAGAACCAAAACCCAAGGGACGGC
CACCCATGTCAAAACCTAGCGATATTAAGGCCTTGCTTGCCAAGCCCTTAACCTCACTTACGCATGAAGAGTTACTGCGCAAAGCGCAGTATTTGGAAGT
GGAGAACGCTTACCTAAAAAAGCTCGAAGCCTTAGCCCAGCAAAAGCACTTGGCAAGCAAGAACAAGCCCAAGTCATCACTGAGTTAAGGCAACACCATC
CATTGCAAGTTATTTTGCTGGCAGCCCAAATGCCTAAAAGCGTGTATTACTACTGGCAAAAAGCCAGTAGTAATACTGACCCCCATGCCAATGCCAAGAT
CGAGATCAAGGCCATCTTCAATACCCATCAGGGTCGCTATGGCTACCGGCGAGTCCATTTAGAGCTTCGCAATCGGGGGCAATACCTCAATCACAAGACA
GTACAAAAGCTCATGGGGCAACTTGGACTCAGGTCTATGGTTAGGCCTAAGCGCTATCAGTCCTACAAAGGAGGGGTTGGTAAGGCGGCCCCCAATTTGC
TAGAGCGCAACTTTAGAGCAAGTAAACCGAATCAAAAATGGGTCACTGATGTAACGGAGTTCAGCATCAGGGGGCAAAAGGTCTATCTCTCACCCATCCT
AGACCTTTATAACCAAGAGATCATCTCGTATGAGATTGGTGATCGGCCTCAACTGAGTATGGTGACTACCATGCTTAGCAGCGCTTTTAAACATCTCAAG
CAGGCTGATAAGCCGATGCTGCACTCAGACCAGGGCTGGCAATATCAGATGGGGTTTTATCAACAAGCCTTAAAGAAACAAGGTGTTACTCAAAGCATGT
CTAGAAAAGGTAATTGCTTAGATAACGCCGTGATGGAGAACTGGTTTGGGATTATGAAAACCGAGTTCTTCTATCCGAAGAGGTTTGAGACTATTGAATC
ATTTAAACAAGGGCTGCATGAATATATCCACTACTACAACCATGATCGGATCAAACAAAAACTAAAAGGATTGAGTCCGGTGCAATACCGAACTCAATCC
CTCGTGCTAACCTAGCTAAACCGTCCAACTTTTGGGGGTCAGTTCA
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
534 bp177 aa55588+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MSKYSKEFKLTVIQHYLSGKGGFKNIGDQFGVKYAYVRKWVHAFKAHGQKSLNKSAIQYSSIFKLSVLQHMEQHQLSVNQAATHFNIPAPSSVLAWQRLY
NEGGITALEPKPKGRPPMSKPSDIKALLAKPLTSLTHEELLRKAQYLEVENAYLKKLEALAQQKHLASKNKPKSSLS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
948 bp315 aa4681415+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RVTAQSAVFGSGERLPKKARSLSPAKALGKQEQAQVITELRQHHPLQVILLAAQMPKSVYYYWQKASSNTDPHANAKIEIKAIFNTHQGRYGYRRVHLEL
RNRGQYLNHKTVQKLMGQLGLRSMVRPKRYQSYKGGVGKAAPNLLERNFRASKPNQKWVTDVTEFSIRGQKVYLSPILDLYNQEIISYEIGDRPQLSMVT
TMLSSAFKHLKQADKPMLHSDQGWQYQMGFYQQALKKQGVTQSMSRKGNCLDNAVMENWFGIMKTEFFYPKRFETIESFKQGLHEYIHYYNHDRIKQKLK
GLSPVQYRTQSLVLT

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1361 bp453 aa551415+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSKYSKEFKLTVIQHYLSGKGGFKNIGDQFGVKYAYVRKWVHAFKAHGQKSLNKSAIQYSSIFKLSVLQHMEQHQLSVNQAATHFNIPAPSSVLAWQRLY
NEGGITALEPKPKGRPPMSKPSDIKALLAKPLTSLTHEELLRKAQYLEVENAYLKKARSLSPAKALGKQEQAQVITELRQHHPLQVILLAAQMPKSVYYY
WQKASSNTDPHANAKIEIKAIFNTHQGRYGYRRVHLELRNRGQYLNHKTVQKLMGQLGLRSMVRPKRYQSYKGGVGKAAPNLLERNFRASKPNQKWVTDV
TEFSIRGQKVYLSPILDLYNQEIISYEIGDRPQLSMVTTMLSSAFKHLKQADKPMLHSDQGWQYQMGFYQQALKKQGVTQSMSRKGNCLDNAVMENWFGI
MKTEFFYPKRFETIESFKQGLHEYIHYYNHDRIKQKLKGLSPVQYRTQSLVLT

 

Blast result :
Comments
ISPlsp1 is 69% aa similar to ISBam1.
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., Glavina del Rio,T., Dalin,E., Tice,H., Pitluck,S., Meincke,L., Brettin,T., Bruce,D., Detter,J.C., Han,C., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Poeckl,M., Wu,Q.L., Hahn,M. and Richardson,P. (2007) Direct Submission GenBank.