ISNha4

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
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 flankDirect repeatRight flankDR Length
CGCCGACCACGCCCTTGTAA0

DNA sequence

TGGTCTGCCCCTGAAAAGTGGTCCTCCCTGAATTAGGCTATTAGCCGTTAGAGAGGACATTGGAATGCCCCAGAAGAAGCACAAGCCGGAAGAGATCGTC
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
LengthBeginEndStrandFusion ORF
231 bp76 aa65295+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPQKKHKPEEIVAKLRQVDVLLSQGRSVGEAVRSIGVTQFTYYRWRKEFGGLKGDQVKASRNLRKRTTGCARLCRT

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
978 bp325 aa2551232+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

ERERPAAQGCVGPDAGEADPERGCLGKLLSPSRRRRCVDHVMVKFSISERFACKVLGQHRSTQRKKPQSRPDEEALTTDIIRLASRYGRYGYRRITAMLQ
SEGWTVNAKRVERIWRREGLKVPQKQPKRGRLWLNDGSCVRLRPEHPNHVWSYDFVEGRTHNGGKFRMLNIIDEFTRECLAIRIDRKLNSTDVIDALSDL
FILRGVPGHVRSDNGPEFIAKAVREWIAAVGAKTAFIEPGSPWENGYCESFNSRLRDELLNSEIFYSLAEAKVIIEAWRRYYNTERPHSSLRYKPPAPEV
IAWPSKPAGSLPPAAQAMAEKPIMH

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1168 bp389 aa651232+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPQKKHKPEEIVAKLRQVDVLLSQGRSVGEAVRSIGVTQFTYYRWRKEFGGLKGDQVKASRNLRERERPAAQGCVGPDAGEADPERGCLGKLLSPSRRRR
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.