ISHin1

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_000907 ND Haemophilus influenzae
Haemophilus influenzae Rd KW20
DNA section
IS Length : 1412 bp

Ends


IR Length : 21/25

IRL : TGATCTGCACCCCAAAAGTTGGACTAAATAACCAACTAACTAAGGTGCAG
IRR : TGATCTGACCCCAAAAAGTTAGACTGATTTAGTTCAAGGACTGAGTTCTG

Insertion site


Left flankDirect repeatRight flankDR Length
AAAAACAAAAAGGGCGTATATCTACGCCCTTATCT3

DNA sequence

TGATCTGCACCCCAAAAGTTGGACTAAATAACCAACTAACTAAGGTGCAGTTTTTTATGACCAAATACAATTTTCTTTTCAAGCAACAAGTCATCGAATT
TTATCTTCAAAATGATAAAAATAGTTCACTTACCCGCAGGCATTTTCAACTTGCCGAAACAACATTAGAACGTTGGATTAACCAATTTAATCATAGTGGA
ATCAATGGGCTAGCCTTGCTGGGTAAGAAGCGAAATTACTCACCTGAATTTAAACTTAACGTGATACAAGCGGTTAAAAATGGGAAATTTTCTGCAGAAG
CCGCTTGCTTACATTTTGGCATTGCCAATTCAGGTGTTGTTAGCCAATGGTTGCAAGCCTTTGAAAAACAAGGTATAAACGGCTTAATCCCCAAACCTAA
AGGTCGCCCAACCATGAAACTCCAATATCCTAAAATGCCGCCTAAACCGAAAACACGAGAGGAAGAACTAGAATTGGAAAATCTCCGACTACGTGCGGAG
AATGCCATTCTAAAAAAGTTGCAAGAGCTCAACCAACAAAAAATGCAGAAAAAGCCGCTATCGTAAAGGCATTACGCGTTCATTTTCCGCTGCCCATTTT
ATTAGATTTAATCGGCTTGGCACGCAGTGTTTTCTTCTATCACTTGAAGACGAAAAACGATAAAAATGCAGCACTCTCACAAGAAATCGCCTCTATTTAT
CACGATAATCACGGAAACTATGGTTATCGCCGTGTGACGTTTAAGCTAAGAGAAACCATTAAAATTAACCATAAAAAAGTGCAACGTATTATGCAATGGT
TGGGGCTTAAGGGAAAATGCAAGACACAAAAATATCGTTCTTATCAAGGTGAAGTCGGGCATATTGCGGATAATCTGTTACAACGCGATTTTACGGCAAC
ACAGCCTAATGAAAAATGGACAACCGATATTACCGAGTTCAAGTGTGCGGAAGGCAAGCTCTATTTATCCCCAATTAAGGATTTATTTAACAATGAAATT
ATTGCTTATGATTTAGCGCGAAGCCCGAACTTTGAGCAAATTACCAGAATGATGAAACAAGCTGTAGCAAGGCTTGAAGGCGCAAAACCGATTTTACATT
CCGACCAAGGTTGGCAGTATCAGATGATAGGTTATCAAAACATACTCAGGGAGAATGGCATTCAACAAAGTATGTCAAGGAAGGGGAATTGTTTATATAA
CAGTGCGATGGAAAGCTTCTTTGGGAGATTAAAAACGGAATGTTATTACGGCAAACGATTTGAAACGTTCGAACAACTGGAAAAAACGATTCATGAATAT
ATTCATTATTACAACCATGAACGCATTCAGGGGAAACTAAAAGGACTCAGCCCTGTGAATTACAGAACTCAGTCCTTGAACTAAATCAGTCTAACTTTTT
GGGGTCAGATCA
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
510 bp169 aa57566+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTKYNFLFKQQVIEFYLQNDKNSSLTRRHFQLAETTLERWINQFNHSGINGLALLGKKRNYSPEFKLNVIQAVKNGKFSAEAACLHFGIANSGVVSQWLQ
AFEKQGINGLIPKPKGRPTMKLQYPKMPPKPKTREEELELENLRLRAENAILKKLQELNQQKMQKKPLS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
939 bp312 aa4461384+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

TENTRGRTRIGKSPTTCGECHSKKVARAQPTKNAEKAAIVKALRVHFPLPILLDLIGLARSVFFYHLKTKNDKNAALSQEIASIYHDNHGNYGYRRVTFK
LRETIKINHKKVQRIMQWLGLKGKCKTQKYRSYQGEVGHIADNLLQRDFTATQPNEKWTTDITEFKCAEGKLYLSPIKDLFNNEIIAYDLARSPNFEQIT
RMMKQAVARLEGAKPILHSDQGWQYQMIGYQNILRENGIQQSMSRKGNCLYNSAMESFFGRLKTECYYGKRFETFEQLEKTIHEYIHYYNHERIQGKLKG
LSPVNYRTQSLN

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1328 bp442 aa571384+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTKYNFLFKQQVIEFYLQNDKNSSLTRRHFQLAETTLERWINQFNHSGINGLALLGKKRNYSPEFKLNVIQAVKNGKFSAEAACLHFGIANSGVVSQWLQ
AFEKQGINGLIPKPKGRPTMKLQYPKMPPKPKTREEELELENLRLRAENAILKKVARAQPTKNAEKAAIVKALRVHFPLPILLDLIGLARSVFFYHLKTK
NDKNAALSQEIASIYHDNHGNYGYRRVTFKLRETIKINHKKVQRIMQWLGLKGKCKTQKYRSYQGEVGHIADNLLQRDFTATQPNEKWTTDITEFKCAEG
KLYLSPIKDLFNNEIIAYDLARSPNFEQITRMMKQAVARLEGAKPILHSDQGWQYQMIGYQNILRENGIQQSMSRKGNCLYNSAMESFFGRLKTECYYGK
RFETFEQLEKTIHEYIHYYNHERIQGKLKGLSPVNYRTQSLN

 

Blast result :
Comments
ISHin1 is 83% aa similar to ISApl2.The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Langen,H., Takacs,B., Evers,S., Berndt,P., Lahm,H.W., Wipf,B., Gray,C. and Fountoulakis,M. (2000) Electrophoresis 21 (2), 411-429.
2] Fountoulakis,M., Juranville,J.F., Roder,D., Evers,S., Berndt,P. and Langen,H. (1998) Electrophoresis 19 (10), 1819-1827.
3] Tatusov,R.L., Mushegian,A.R., Bork,P., Brown,N.P., Hayes,W.S., Borodovsky,M., Rudd,K.E. and Koonin,E.V. (1996) Curr. Biol. 6 (3), 279-291.
4] Smith,H.O., Tomb,J.F., Dougherty,B.A., Fleischmann,R.D. and Venter,J.C. (1995) Science 269 (5223), 538-540.
5] Fleischmann,R.D., Adams,M.D., White,O., Clayton,R.A., Kirkness,E.F., Kerlavage,A.R., Bult,C.J., Tomb,J.-F., Dougherty,B.A., Merrick,J.M., McKenney,K., Sutton,G.G., FitzHugh,W., Fields,C.A., Gocayne,J.D., Scott,J.D., Shirley,R., Liu,L.I., Glodek,A., Kelley,J.M., Weidman,J.F., Phillips,C.A., Spriggs,T., Hedblom,E., Cotton,M.D., Utterback,T., Hanna,M.C., Nguyen,D.T., Saudek,D.M., Brandon,R.C., Fine,L.D., Fritchman,J.L., Fuhrmann,J.L., Geoghagen,N.S., Gnehm,C.L., McDonald,L.A., Small,K.V., Fraser,C.M., Smith,H.O. and Venter,J.C. (1995) Science 269 (5223), 496-512.