IS1397
- Family IS3
- Group IS150
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| X92970 | ND | Escherichia coli | Escherichia coli EPEC24 Escherichia coli ECOR50 Escherichia coli EPEC25 Escherichia coli CI-4 Escherichia coli ECOR49 |
DNA section
IS Length : 1432 bp
Ends
IR Length : 20/25
IRL : TGAACTGCACCCCAAATGTTGGACATAATCTGACATCTGAAGGTGCAGTT
IRR : TGAACTGAACCCCAAAACCTGGACAGTTTCAGTTAACCGGCTTTTTGATA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| GATGCGACGC | TGAC | GCGTCTTATC | 4 |
| CGGATGCGGC | GTGA | ACGCCTTGTC | 4 |
| GATGCGACGC | TTGC | ACGTCTTATC | 4 |
| GATGCGGCGC | GTGA | ACGCCTTATC | 4 |
| CGGATGCGGC | GTAA | ACGCCTTATC | 4 |
| GATGTGGCGT | AAAC | GCCTTATCCG | 4 |
| CGGATGCGGC | GTGA | ACGCCTTATC | 4 |
| ATGCGGCGTG | AAC | GCCTTATCCG | 3 |
| GATGCGGTGT | ATA | ACGCCTTATC | 3 |
DNA sequence
TGAACTGCACCCCAAATGTTGGACATAATCTGACATCTGAAGGTGCAGTTTATGAAACATTCATTTGAAGTAAAACTTGCCGCTGTAAATCATTACCTGG
CTGGTCATGCAGGCATCATTTCTACGGCAAAACTCTTTCAACTTTCTCACACCAGCCTCTCACACTGGATTAATCTTTTTCTTCTTCACGGTCCTCGGGC
ACTGGATTGCAGACACAAGCGTAGCTATTCTCCTGAAGATAAACTTTGCGTGGTTCTTTATGCTCTCGGGCATTCTGAGTCTCTACCCCGGGTAGCTGCC
CGGTTTAACATTCCCAGCCACAACACGGTTAAAAACTGGATAAAAGGCTACCGCAAATCTGGTAATGAGGCCTTTATCAGGTGCAGGAAGGAGAAAAGCA
TGACCCGTTCTGATGATACCCATGAAAACGAGGCAAACATGACGCCGGAAGAGATGAAGAATGAGCTGCGTTATCTTCGCGCAGAAAATGCATATCTGAA
AGCCATGCAGGAGCATCTTCTGGAAAAAAAGCGCCAGGAGCTGGAGAAAAAACGAAAGTCATCCAGAGCCTGAGGTACGGACACTGCCAGTCTGACCTGT
TAAAGGCCGCAGGGCTGGCCAGAAGCACGCTGTACTACCAGCTGTCACTGCAGAAGGCTAAGGACAAGTATGCTGATGTGAAACAGCTCATAGCCTCCAT
CTTCCATGAACACCGGGGATGTTATGGGTACCGGCGGATCCATTGTGAGCTTCAGAAAAGAGGTCTTAAGTTCAGTGGCAAAACGGTGCGAAAACTGATG
CAACAGCTCGGCCTGAAGTCTCCTGTGCGCCTGAAGAAATACCGGTCTTACCGGGGAAATATGGGACTCGCTGCAGAAAATATCCTTCAGCGACAGTTCA
AAGCGGAAGCTCCCTGTGAGAAATGGGTGACAGATATCACCGAATTCAGGGCTGGCGGACAAAAACTGTACCTGTCCCCGATACTTGATTTGTTTAACGG
GGAAATCGTGGCGTGGGAAACGGCCTGCAGGCCTACAGAGGAGCTGGTGAAGCGGATGTTAAATAAGGGGCTGGAAAGCCTTGCTGAAGGGGAGAAACCG
CTGCTCCACAGTGATCAAGGATGGCATTACCGGATAAAAAGTTATCAGTCCGCCCTGGCGGACAGAGGGTTAGTGCAGAGCATGTCGCGCAAGGGCAACT
GTCTTGATAATGCGGTAATGGAGAATTTCTTTGGTCACCTGAAAGAAGAAATGTACTATCGCCGGGACTACAGAAGTGTAGAAGAGCTGGAAAATGCCGT
TAACGAATACATAACTTACTGGAATCAAAAAAGAATAAAACTCAGTCTTGGGGGACTCAGCCCGGTAGAATACCGGACTGAGTATCAAAAAGCCGGTTAA
CTGAAACTGTCCAGGTTTTGGGGTTCAGTTCA
CTGGTCATGCAGGCATCATTTCTACGGCAAAACTCTTTCAACTTTCTCACACCAGCCTCTCACACTGGATTAATCTTTTTCTTCTTCACGGTCCTCGGGC
ACTGGATTGCAGACACAAGCGTAGCTATTCTCCTGAAGATAAACTTTGCGTGGTTCTTTATGCTCTCGGGCATTCTGAGTCTCTACCCCGGGTAGCTGCC
CGGTTTAACATTCCCAGCCACAACACGGTTAAAAACTGGATAAAAGGCTACCGCAAATCTGGTAATGAGGCCTTTATCAGGTGCAGGAAGGAGAAAAGCA
TGACCCGTTCTGATGATACCCATGAAAACGAGGCAAACATGACGCCGGAAGAGATGAAGAATGAGCTGCGTTATCTTCGCGCAGAAAATGCATATCTGAA
AGCCATGCAGGAGCATCTTCTGGAAAAAAAGCGCCAGGAGCTGGAGAAAAAACGAAAGTCATCCAGAGCCTGAGGTACGGACACTGCCAGTCTGACCTGT
TAAAGGCCGCAGGGCTGGCCAGAAGCACGCTGTACTACCAGCTGTCACTGCAGAAGGCTAAGGACAAGTATGCTGATGTGAAACAGCTCATAGCCTCCAT
CTTCCATGAACACCGGGGATGTTATGGGTACCGGCGGATCCATTGTGAGCTTCAGAAAAGAGGTCTTAAGTTCAGTGGCAAAACGGTGCGAAAACTGATG
CAACAGCTCGGCCTGAAGTCTCCTGTGCGCCTGAAGAAATACCGGTCTTACCGGGGAAATATGGGACTCGCTGCAGAAAATATCCTTCAGCGACAGTTCA
AAGCGGAAGCTCCCTGTGAGAAATGGGTGACAGATATCACCGAATTCAGGGCTGGCGGACAAAAACTGTACCTGTCCCCGATACTTGATTTGTTTAACGG
GGAAATCGTGGCGTGGGAAACGGCCTGCAGGCCTACAGAGGAGCTGGTGAAGCGGATGTTAAATAAGGGGCTGGAAAGCCTTGCTGAAGGGGAGAAACCG
CTGCTCCACAGTGATCAAGGATGGCATTACCGGATAAAAAGTTATCAGTCCGCCCTGGCGGACAGAGGGTTAGTGCAGAGCATGTCGCGCAAGGGCAACT
GTCTTGATAATGCGGTAATGGAGAATTTCTTTGGTCACCTGAAAGAAGAAATGTACTATCGCCGGGACTACAGAAGTGTAGAAGAGCTGGAAAATGCCGT
TAACGAATACATAACTTACTGGAATCAAAAAAGAATAAAACTCAGTCTTGGGGGACTCAGCCCGGTAGAATACCGGACTGAGTATCAAAAAGCCGGTTAA
CTGAAACTGTCCAGGTTTTGGGGTTCAGTTCA
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 | |
|---|---|---|---|---|---|
| 522 bp | 173 aa | 52 | 573 | + | No |
Description : First part of the transposase
ORF sequence :
MKHSFEVKLAAVNHYLAGHAGIISTAKLFQLSHTSLSHWINLFLLHGPRALDCRHKRSYSPEDKLCVVLYALGHSESLPRVAARFNIPSHNTVKNWIKGY
RKSGNEAFIRCRKEKSMTRSDDTHENEANMTPEEMKNELRYLRAENAYLKAMQEHLLEKKRQELEKKRKSSRA
RKSGNEAFIRCRKEKSMTRSDDTHENEANMTPEEMKNELRYLRAENAYLKAMQEHLLEKKRQELEKKRKSSRA
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 936 bp | 311 aa | 465 | 1400 | + | No |
Description : Second part of the transposase
ORF sequence :
AALSSRRKCISESHAGASSGKKAPGAGEKTKVIQSLRYGHCQSDLLKAAGLARSTLYYQLSLQKAKDKYADVKQLIASIFHEHRGCYGYRRIHCELQKRG
LKFSGKTVRKLMQQLGLKSPVRLKKYRSYRGNMGLAAENILQRQFKAEAPCEKWVTDITEFRAGGQKLYLSPILDLFNGEIVAWETACRPTEELVKRMLN
KGLESLAEGEKPLLHSDQGWHYRIKSYQSALADRGLVQSMSRKGNCLDNAVMENFFGHLKEEMYYRRDYRSVEELENAVNEYITYWNQKRIKLSLGGLSP
VEYRTEYQKAG
LKFSGKTVRKLMQQLGLKSPVRLKKYRSYRGNMGLAAENILQRQFKAEAPCEKWVTDITEFRAGGQKLYLSPILDLFNGEIVAWETACRPTEELVKRMLN
KGLESLAEGEKPLLHSDQGWHYRIKSYQSALADRGLVQSMSRKGNCLDNAVMENFFGHLKEEMYYRRDYRSVEELENAVNEYITYWNQKRIKLSLGGLSP
VEYRTEYQKAG
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1349 bp | 449 aa | 52 | 1400 | + | Yes |
Chemistry : DDE
ORF sequence :
MKHSFEVKLAAVNHYLAGHAGIISTAKLFQLSHTSLSHWINLFLLHGPRALDCRHKRSYSPEDKLCVVLYALGHSESLPRVAARFNIPSHNTVKNWIKGY
RKSGNEAFIRCRKEKSMTRSDDTHENEANMTPEEMKNELRYLRAENAYLKAMQEHLLEKKAPGAGEKTKVIQSLRYGHCQSDLLKAAGLARSTLYYQLSL
QKAKDKYADVKQLIASIFHEHRGCYGYRRIHCELQKRGLKFSGKTVRKLMQQLGLKSPVRLKKYRSYRGNMGLAAENILQRQFKAEAPCEKWVTDITEFR
AGGQKLYLSPILDLFNGEIVAWETACRPTEELVKRMLNKGLESLAEGEKPLLHSDQGWHYRIKSYQSALADRGLVQSMSRKGNCLDNAVMENFFGHLKEE
MYYRRDYRSVEELENAVNEYITYWNQKRIKLSLGGLSPVEYRTEYQKAG
RKSGNEAFIRCRKEKSMTRSDDTHENEANMTPEEMKNELRYLRAENAYLKAMQEHLLEKKAPGAGEKTKVIQSLRYGHCQSDLLKAAGLARSTLYYQLSL
QKAKDKYADVKQLIASIFHEHRGCYGYRRIHCELQKRGLKFSGKTVRKLMQQLGLKSPVRLKKYRSYRGNMGLAAENILQRQFKAEAPCEKWVTDITEFR
AGGQKLYLSPILDLFNGEIVAWETACRPTEELVKRMLNKGLESLAEGEKPLLHSDQGWHYRIKSYQSALADRGLVQSMSRKGNCLDNAVMENFFGHLKEE
MYYRRDYRSVEELENAVNEYITYWNQKRIKLSLGGLSPVEYRTEYQKAG
Blast result :
Comments
IS1397 has been found to be specifically associated with BIME (Bacterial Interspersed Mosaic Elements), inserted in the central (loop) part of the small PU (Palindromic Units) (Bachellier et al., 1997). The reasons for this target specificity remain unknown. IS1397 is present in a subset of natural Escherichia coli isolates. IS1397 transposase is 40 % identical to that of IS1223 (from Lactobacillus johnsonii).
Consensus of insertion sites in Klebsiella pneumoniae PUs : TTT SCCGGGTGGCGG CTG ACGCYTTACCSGGC CTACR where D is A, G or T ; S is G or C ; W is A or T; and Y is C or T.
Consensus of insertion sites in Klebsiella pneumoniae PUs : TTT SCCGGGTGGCGG CTG ACGCYTTACCSGGC CTACR where D is A, G or T ; S is G or C ; W is A or T; and Y is C or T.
References