ISHin1
- Family IS3
- Group IS150
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
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 flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
AAAAACAAAAAGGGCGT | ATA | TCTACGCCCTTATCT | 3 |
DNA sequence
TGATCTGCACCCCAAAAGTTGGACTAAATAACCAACTAACTAAGGTGCAGTTTTTTATGACCAAATACAATTTTCTTTTCAAGCAACAAGTCATCGAATT
TTATCTTCAAAATGATAAAAATAGTTCACTTACCCGCAGGCATTTTCAACTTGCCGAAACAACATTAGAACGTTGGATTAACCAATTTAATCATAGTGGA
ATCAATGGGCTAGCCTTGCTGGGTAAGAAGCGAAATTACTCACCTGAATTTAAACTTAACGTGATACAAGCGGTTAAAAATGGGAAATTTTCTGCAGAAG
CCGCTTGCTTACATTTTGGCATTGCCAATTCAGGTGTTGTTAGCCAATGGTTGCAAGCCTTTGAAAAACAAGGTATAAACGGCTTAATCCCCAAACCTAA
AGGTCGCCCAACCATGAAACTCCAATATCCTAAAATGCCGCCTAAACCGAAAACACGAGAGGAAGAACTAGAATTGGAAAATCTCCGACTACGTGCGGAG
AATGCCATTCTAAAAAAGTTGCAAGAGCTCAACCAACAAAAAATGCAGAAAAAGCCGCTATCGTAAAGGCATTACGCGTTCATTTTCCGCTGCCCATTTT
ATTAGATTTAATCGGCTTGGCACGCAGTGTTTTCTTCTATCACTTGAAGACGAAAAACGATAAAAATGCAGCACTCTCACAAGAAATCGCCTCTATTTAT
CACGATAATCACGGAAACTATGGTTATCGCCGTGTGACGTTTAAGCTAAGAGAAACCATTAAAATTAACCATAAAAAAGTGCAACGTATTATGCAATGGT
TGGGGCTTAAGGGAAAATGCAAGACACAAAAATATCGTTCTTATCAAGGTGAAGTCGGGCATATTGCGGATAATCTGTTACAACGCGATTTTACGGCAAC
ACAGCCTAATGAAAAATGGACAACCGATATTACCGAGTTCAAGTGTGCGGAAGGCAAGCTCTATTTATCCCCAATTAAGGATTTATTTAACAATGAAATT
ATTGCTTATGATTTAGCGCGAAGCCCGAACTTTGAGCAAATTACCAGAATGATGAAACAAGCTGTAGCAAGGCTTGAAGGCGCAAAACCGATTTTACATT
CCGACCAAGGTTGGCAGTATCAGATGATAGGTTATCAAAACATACTCAGGGAGAATGGCATTCAACAAAGTATGTCAAGGAAGGGGAATTGTTTATATAA
CAGTGCGATGGAAAGCTTCTTTGGGAGATTAAAAACGGAATGTTATTACGGCAAACGATTTGAAACGTTCGAACAACTGGAAAAAACGATTCATGAATAT
ATTCATTATTACAACCATGAACGCATTCAGGGGAAACTAAAAGGACTCAGCCCTGTGAATTACAGAACTCAGTCCTTGAACTAAATCAGTCTAACTTTTT
GGGGTCAGATCA
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
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
510 bp | 169 aa | 57 | 566 | + | No |
Description : First part of the transposase
ORF sequence :
MTKYNFLFKQQVIEFYLQNDKNSSLTRRHFQLAETTLERWINQFNHSGINGLALLGKKRNYSPEFKLNVIQAVKNGKFSAEAACLHFGIANSGVVSQWLQ
AFEKQGINGLIPKPKGRPTMKLQYPKMPPKPKTREEELELENLRLRAENAILKKLQELNQQKMQKKPLS
AFEKQGINGLIPKPKGRPTMKLQYPKMPPKPKTREEELELENLRLRAENAILKKLQELNQQKMQKKPLS
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
939 bp | 312 aa | 446 | 1384 | + | No |
Description : Second part of the transposase
ORF sequence :
TENTRGRTRIGKSPTTCGECHSKKVARAQPTKNAEKAAIVKALRVHFPLPILLDLIGLARSVFFYHLKTKNDKNAALSQEIASIYHDNHGNYGYRRVTFK
LRETIKINHKKVQRIMQWLGLKGKCKTQKYRSYQGEVGHIADNLLQRDFTATQPNEKWTTDITEFKCAEGKLYLSPIKDLFNNEIIAYDLARSPNFEQIT
RMMKQAVARLEGAKPILHSDQGWQYQMIGYQNILRENGIQQSMSRKGNCLYNSAMESFFGRLKTECYYGKRFETFEQLEKTIHEYIHYYNHERIQGKLKG
LSPVNYRTQSLN
LRETIKINHKKVQRIMQWLGLKGKCKTQKYRSYQGEVGHIADNLLQRDFTATQPNEKWTTDITEFKCAEGKLYLSPIKDLFNNEIIAYDLARSPNFEQIT
RMMKQAVARLEGAKPILHSDQGWQYQMIGYQNILRENGIQQSMSRKGNCLYNSAMESFFGRLKTECYYGKRFETFEQLEKTIHEYIHYYNHERIQGKLKG
LSPVNYRTQSLN
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1328 bp | 442 aa | 57 | 1384 | + | Yes |
Chemistry : DDE
ORF sequence :
MTKYNFLFKQQVIEFYLQNDKNSSLTRRHFQLAETTLERWINQFNHSGINGLALLGKKRNYSPEFKLNVIQAVKNGKFSAEAACLHFGIANSGVVSQWLQ
AFEKQGINGLIPKPKGRPTMKLQYPKMPPKPKTREEELELENLRLRAENAILKKVARAQPTKNAEKAAIVKALRVHFPLPILLDLIGLARSVFFYHLKTK
NDKNAALSQEIASIYHDNHGNYGYRRVTFKLRETIKINHKKVQRIMQWLGLKGKCKTQKYRSYQGEVGHIADNLLQRDFTATQPNEKWTTDITEFKCAEG
KLYLSPIKDLFNNEIIAYDLARSPNFEQITRMMKQAVARLEGAKPILHSDQGWQYQMIGYQNILRENGIQQSMSRKGNCLYNSAMESFFGRLKTECYYGK
RFETFEQLEKTIHEYIHYYNHERIQGKLKGLSPVNYRTQSLN
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.
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.