ISNha4
- Family IS3
- Group IS407
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
NC_007964 | ND | Nitrobacter hamburgensis | Nitrobacter hamburgensis X14 |
DNA section
IS Length : 1266 bp
Ends
IR Length : 17/24
IRL : TGGTCTGCCCCTGAAAAGTGGTCCTCCCTGAATTAGGCTATTAGCCGTTA
IRR : TGGCCTGCCCCTATGAGGTGGTCCGCTTTCAGTCTTAATGCATGATGGGC
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
CGCCGACCAC | GCCCTTGTAA | 0 |
DNA sequence
TGGTCTGCCCCTGAAAAGTGGTCCTCCCTGAATTAGGCTATTAGCCGTTAGAGAGGACATTGGAATGCCCCAGAAGAAGCACAAGCCGGAAGAGATCGTC
GCGAAGCTGCGCCAGGTCGATGTTTTGCTTTCACAAGGCAGATCGGTTGGCGAAGCGGTTCGTTCGATCGGCGTGACGCAGTTCACGTATTACCGGTGGC
GCAAGGAGTTTGGTGGCCTGAAGGGCGACCAGGTGAAGGCCTCGAGGAACTTGAGAAAGAGAACGACCGGCTGCGCAAGGCTGTGTCGGACCTGACGCTG
GAGAAGCTGATCCTGAAAGAGGCTGCCTCGGGAAACTTCTGAGCCCCTCCCGCCGTCGTCGCTGCGTCGACCATGTCATGGTGAAGTTCTCCATCTCGGA
GCGCTTTGCCTGCAAGGTTCTCGGCCAGCATCGCTCGACCCAGCGCAAGAAGCCGCAAAGCCGACCGGATGAAGAGGCATTGACGACCGACATCATCCGG
CTGGCCTCACGCTACGGCCGCTATGGATATCGCAGGATCACGGCGATGCTGCAGTCCGAGGGTTGGACGGTGAATGCCAAGCGTGTCGAGCGTATCTGGC
GGCGGGAGGGGCTGAAGGTTCCTCAGAAACAACCGAAGAGAGGCCGACTCTGGCTGAATGACGGATCGTGCGTCCGGCTTCGGCCCGAGCATCCAAACCA
TGTTTGGTCCTATGACTTCGTCGAGGGCCGGACCCACAATGGCGGGAAGTTCCGCATGCTCAACATCATCGACGAGTTCACCCGAGAATGTCTGGCGATC
CGGATTGATCGCAAGCTCAACTCGACCGACGTCATCGACGCCCTGTCGGACCTGTTCATCCTACGCGGCGTGCCCGGCCACGTTCGTTCTGATAACGGGC
CGGAGTTCATTGCCAAGGCAGTGCGGGAGTGGATTGCAGCTGTCGGCGCCAAGACCGCGTTCATCGAGCCCGGAAGCCCGTGGGAGAACGGCTACTGCGA
GAGCTTCAACTCGAGGCTGCGCGACGAACTGCTCAACAGCGAGATCTTCTACAGCCTCGCCGAGGCCAAGGTCATCATCGAGGCATGGCGGCGCTACTAC
AACACCGAGCGACCACACTCATCGCTTCGATATAAACCGCCGGCGCCAGAGGTCATCGCCTGGCCTTCAAAGCCAGCCGGATCGCTTCCGCCAGCAGCGC
AAGCAATGGCCGAAAAGCCCATCATGCATTAAGACTGAAAGCGGACCACCTCATAGGGGCAGGCCA
GCGAAGCTGCGCCAGGTCGATGTTTTGCTTTCACAAGGCAGATCGGTTGGCGAAGCGGTTCGTTCGATCGGCGTGACGCAGTTCACGTATTACCGGTGGC
GCAAGGAGTTTGGTGGCCTGAAGGGCGACCAGGTGAAGGCCTCGAGGAACTTGAGAAAGAGAACGACCGGCTGCGCAAGGCTGTGTCGGACCTGACGCTG
GAGAAGCTGATCCTGAAAGAGGCTGCCTCGGGAAACTTCTGAGCCCCTCCCGCCGTCGTCGCTGCGTCGACCATGTCATGGTGAAGTTCTCCATCTCGGA
GCGCTTTGCCTGCAAGGTTCTCGGCCAGCATCGCTCGACCCAGCGCAAGAAGCCGCAAAGCCGACCGGATGAAGAGGCATTGACGACCGACATCATCCGG
CTGGCCTCACGCTACGGCCGCTATGGATATCGCAGGATCACGGCGATGCTGCAGTCCGAGGGTTGGACGGTGAATGCCAAGCGTGTCGAGCGTATCTGGC
GGCGGGAGGGGCTGAAGGTTCCTCAGAAACAACCGAAGAGAGGCCGACTCTGGCTGAATGACGGATCGTGCGTCCGGCTTCGGCCCGAGCATCCAAACCA
TGTTTGGTCCTATGACTTCGTCGAGGGCCGGACCCACAATGGCGGGAAGTTCCGCATGCTCAACATCATCGACGAGTTCACCCGAGAATGTCTGGCGATC
CGGATTGATCGCAAGCTCAACTCGACCGACGTCATCGACGCCCTGTCGGACCTGTTCATCCTACGCGGCGTGCCCGGCCACGTTCGTTCTGATAACGGGC
CGGAGTTCATTGCCAAGGCAGTGCGGGAGTGGATTGCAGCTGTCGGCGCCAAGACCGCGTTCATCGAGCCCGGAAGCCCGTGGGAGAACGGCTACTGCGA
GAGCTTCAACTCGAGGCTGCGCGACGAACTGCTCAACAGCGAGATCTTCTACAGCCTCGCCGAGGCCAAGGTCATCATCGAGGCATGGCGGCGCTACTAC
AACACCGAGCGACCACACTCATCGCTTCGATATAAACCGCCGGCGCCAGAGGTCATCGCCTGGCCTTCAAAGCCAGCCGGATCGCTTCCGCCAGCAGCGC
AAGCAATGGCCGAAAAGCCCATCATGCATTAAGACTGAAAGCGGACCACCTCATAGGGGCAGGCCA
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 | |
---|---|---|---|---|---|
231 bp | 76 aa | 65 | 295 | + | No |
Description : First part of the transposase
ORF sequence :
MPQKKHKPEEIVAKLRQVDVLLSQGRSVGEAVRSIGVTQFTYYRWRKEFGGLKGDQVKASRNLRKRTTGCARLCRT
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
978 bp | 325 aa | 255 | 1232 | + | No |
Description : Second part of the transposase
ORF sequence :
ERERPAAQGCVGPDAGEADPERGCLGKLLSPSRRRRCVDHVMVKFSISERFACKVLGQHRSTQRKKPQSRPDEEALTTDIIRLASRYGRYGYRRITAMLQ
SEGWTVNAKRVERIWRREGLKVPQKQPKRGRLWLNDGSCVRLRPEHPNHVWSYDFVEGRTHNGGKFRMLNIIDEFTRECLAIRIDRKLNSTDVIDALSDL
FILRGVPGHVRSDNGPEFIAKAVREWIAAVGAKTAFIEPGSPWENGYCESFNSRLRDELLNSEIFYSLAEAKVIIEAWRRYYNTERPHSSLRYKPPAPEV
IAWPSKPAGSLPPAAQAMAEKPIMH
SEGWTVNAKRVERIWRREGLKVPQKQPKRGRLWLNDGSCVRLRPEHPNHVWSYDFVEGRTHNGGKFRMLNIIDEFTRECLAIRIDRKLNSTDVIDALSDL
FILRGVPGHVRSDNGPEFIAKAVREWIAAVGAKTAFIEPGSPWENGYCESFNSRLRDELLNSEIFYSLAEAKVIIEAWRRYYNTERPHSSLRYKPPAPEV
IAWPSKPAGSLPPAAQAMAEKPIMH
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1168 bp | 389 aa | 65 | 1232 | + | Yes |
Chemistry : DDE
ORF sequence :
MPQKKHKPEEIVAKLRQVDVLLSQGRSVGEAVRSIGVTQFTYYRWRKEFGGLKGDQVKASRNLRERERPAAQGCVGPDAGEADPERGCLGKLLSPSRRRR
CVDHVMVKFSISERFACKVLGQHRSTQRKKPQSRPDEEALTTDIIRLASRYGRYGYRRITAMLQSEGWTVNAKRVERIWRREGLKVPQKQPKRGRLWLND
GSCVRLRPEHPNHVWSYDFVEGRTHNGGKFRMLNIIDEFTRECLAIRIDRKLNSTDVIDALSDLFILRGVPGHVRSDNGPEFIAKAVREWIAAVGAKTAF
IEPGSPWENGYCESFNSRLRDELLNSEIFYSLAEAKVIIEAWRRYYNTERPHSSLRYKPPAPEVIAWPSKPAGSLPPAAQAMAEKPIMH
CVDHVMVKFSISERFACKVLGQHRSTQRKKPQSRPDEEALTTDIIRLASRYGRYGYRRITAMLQSEGWTVNAKRVERIWRREGLKVPQKQPKRGRLWLND
GSCVRLRPEHPNHVWSYDFVEGRTHNGGKFRMLNIIDEFTRECLAIRIDRKLNSTDVIDALSDLFILRGVPGHVRSDNGPEFIAKAVREWIAAVGAKTAF
IEPGSPWENGYCESFNSRLRDELLNSEIFYSLAEAKVIIEAWRRYYNTERPHSSLRYKPPAPEVIAWPSKPAGSLPPAAQAMAEKPIMH
Blast result :
Comments
ISNha4 is 61 % (ORFA) aa similar to ISMyma1 and 58% (ORFB) aa similar to ISBcen23. 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., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Chain,P., Malfatti,S., Shin,M., Vergez,L., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Ward,B., Arp,D., Klotz,M., Stein,L., O'Mullan,G., Starkenburg,S., Sayavedra,L., Poret-Peterson,A.T., Gentry,M.E., Bruce,D. and Richardson,P. (2006) Direct submission GenBank.