ISMsm12

  • Family IS1380
  • Group
MGE type ISRelated element(s) :
Isoform IS220Synonym(s)
Accession numberTranspositionOriginHost
NC_008596 ND Mycobacterium smegmatis
Mycobacterium smegmatis MC2 155
DNA section
IS Length : 3256 bp

Ends


IR Length : 17/19

IRL : CCTCGATCCACCGACTGTTGTGGATCGAGTGCGGTTCCCGCTGAAGAAAT
IRR : CCTCGATCCACCGACGGGTTCTGTGTCTGCGGCTGTGGCGGCTGTGGCTA

Insertion site


Left flankDirect repeatRight flankDR Length
CCGTTTCCTGTTTAGAGCGGCTGGC5

DNA sequence

CCTCGATCCACCGACTGTTGTGGATCGAGTGCGGTTCCCGCTGAAGAAATGCTGGCCCTGATCTGGGCTGATTCGTACTTGGGCTGGTTGTGCCGGTCGC
TGCGGTTCGGCACTGCGAGTGCCCGTGGGTTGTACGGCCCCGGTGCAATCCGCGCTTAGCGACTCGTGGGCAGCGAATCCACGTGAAGTCGCAAGATCTT
GGCGATGGTGGTCGGCTTTCGGGGGCCGTGCGCTGTCACAGCGTCGAGGGCGAGGCCGGACAGAAGTGACGCTAGGCGTTGGGCTTCCAGGCTGGGCTGT
GGCACCGACATGCCCTTCAGGGCTGTGACCAGCACGTCATCCAGGTCGGTGGCCATTTGCGCTGTCGCTGCCCGGAATGCTTCAGTAGTTCGGGAGGCAG
CGATGACTTCCATGAGGATCACTGCCTCGCTATGCCGTTCGGCGTCAAGGGGAACGAGTTCTTCAAGTAGTGCGATCAGATGTTGTCGTTGTCGCGAGAG
GTCGCGCGATTGCGGTGGTGTGTGTTTCATCAGCCGCTGGCCCATGCGGTTTCCGGCCTCGGTAACTACTGCGACGACGAGGGATTCGTGATCTGCGAAG
TAGTGCCGGACTGACCCGATGTTCAACTGCGATTCCGCCGCAACACGGCGGAACGTCGCGGCGGACAGCCCCTCCTTCAGCACCAGACGTAGCGCGGCCT
CGACGATGTGACTTCGGCGTTCCACGGGGTCGATACGTGCTGGCATCGTCAAAGTCTAACGACAGCAGACGGCGGCCTATCACGGGTGTGATAAAAAGAA
TGCACGGTTGGCGGGCAGTCGCCGAGCAGACGGAGAGTACCTCGATGAATCATGTTGATGCGCTGGCCTGTAACCGAGAGAACTGGGACGAACGCGCAGA
TATCCATGCCCGGTCGCAGATGTATGACGTGGAGGGTTTCCTGGCGGACCGGTCCTTGATTTCGTCGGTGGTCCGAAATGACCTGACCGTGCTGCAACCG
CACCTGCCCTCCTCGAAGATCAGCGGTCAATCCCTGCTGCATCTGCAATGTCACATCGGGACCGATACCGTGTCATGGGCGCGGCTGGGCGCCGTCAACG
TCACCGGCTTGGATCTGTCGCCGAACTCACTACGTCACGCTCGACGCATCGCCGAGCAAGACGGCCAGGTGATCACATGGGTACAGGGCGATGCCCGGGT
CGCTTCCTCACTGATCGACGAGCAGTTCGATGTTGTTGTCACCAGCGCAGGAACCATCGTGTGGCTGCCAGAGCTGTCGGCGTGGGCGCGCTCCATCCAT
GACCTGCTGACACCCGGCGGTGTTTTCATGATTCGCGACGACCATCCGATATTGGCGGCGATGGAGTTCCAGCCGTGGACGATCAGCGATGACTACCTCT
CTGGTGGCGGTACCCGGACCTATGACGACGCCAGCACCTACACCGAGAACACCGACGTGGTGATCCGTCAGACAACGAATTACGAGTGGCGCCACGATCT
CAGTGAAGTCCTCACCGCGCTCTTGGAAGCAGACCTGCGTATCGAGGCCGTCCACGAGCTTGCTTACATGGATTGGCCAGCATTCCCGGCGTTGATTCCC
GATCCACGCGGCTGGACATTGCCCGCAGATGCGCCACGCATTCCGTTGAACTTCGCGATCGTCGCCCGCAGAGCCAGCTAAGTTCAACACGGGCACAGCG
ACTTCGAGCGCCGCGGATGGAACTATCGCACAGGTTTGCCGCGTCGTCGGCGGTCTTCGACGATGATCATCTCGTGTCAATCGCCGGTTTGGTGCCCGTG
ATGACGCTGGCCACCCAGACCGGTTTGTCGGCGCTATTGGCCGACAAGGTTCGGATCAGCGAACCGAGGATCAAGTCCGGTTCGGCCAACCCGTCACCGA
AGTTGACTACGCTGATCGCCGGGATGTGCGCCGGTGCCGACAGCATCGACGACCTCGACATCGTGCGCTCGGGCGGGATGAAGACCCTCTTCGACGACGT
GTACGCACCCTCAACCATCGGCACACTGTTGCGTGAGTTCACTTTCGGGCACGCCCGACAACTCGAAGCAGTACTTCGGGCTCACCTGGCCGAACTATGC
CAGCGAGCCGACCTGCTGCCAGGCATCGACGGGCGGACGTTCGTCGACATCGACTCATTGCTTCGCCCGGTCTACGGCCACGCCAAACAGGGCGCCTCCT
ACGGGCATACCAAGATCGCGGGAAAACAAATCCTGCGTAAAGGCCTGTCGCCGTTGATCACCACCATCAGCTCTAGTACGAGCGCTCCGGTGATCGCCGG
CGCACGGCTACGAGCAGGCAAGACCAACTCCGGCAAGGGCGCGGCCCGGATGATTGCCCAAGCGGTCGCGACCGCGCGCGCCGCCGGAGTCACCGGGCCG
ATCTTGGTGCGCGGCGACTCTGCCTACGGCAACAGCACCGTGGCCGCGGCCTGTCGTCGGGCCGGCGCCCAGTTCTCGCTGGTGCTGACCAAGACGCCCG
CCGTCACTGCGGCCATTGATGCCATCAGTGACGGTGCCTGGATCCCGGTGAACTACCCCGGCGCAGTGCGCGACCCCGACACCGGCGCCTGGATCTCCGA
CGCCGAGGTCGCCGAAACCACCTACACCGCTTTCAGTTCCACCAAGACCCCCATCACTGCACGCTTGATCGTGCGCCGGGTCAAAGACGCCAGATTCCTC
GACGCACTGTTCCCGGTGTGGCGCTATCACCCCTTCTTCACCGACTCCGACGAGCCTGTCGACGCCGCCGACATCACCCATCGCCGCCACGCCATCATCG
AAACCGTCTTCGCCGACCTCATCGACGGACCCCTAGCCCACATGCCCTCAGGACGTTTCGGCGCGAACTCGGCCTGGATCCTCTGCGCGGCGATCGCCCA
CAACCTACTGCGCGCCGCAGGCGTCCTGGCCGGCACCGCCAACGCGGTCGCACGGGGATCCACATTGCGGCGACGCATCGTTACAGTTCCGGCCCGGCTC
GCCCGACCCCAGCGCCGACCCGTCCTGCATCTACCCACGCACTGGCCGTGGACAGATCAATGGCTCATGCTGTGGCGTAACACCATCGGATACAGCCCAC
CCGCGACCCCCTGCCACTGACTATCCCGCCGAAAGGCCCCGACCGGAGCACATAGGAAAAGCTGGACAGACCAGCCAGTACTGCCTGCCCGCGACCAGAT
ACCGCCTAGCCACAGCCGCCACAGCCGCAGACACAGAACCCGTCGGTGGATCGAGG
Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
591 bp156 aa746156-No
ORF function : Passenger Gene
Annotation : Transcriptional regulator, TetR familyDescription : Transcriptional Regulator factor

ORF sequence :

MPARIDPVERRSHIVEAALRLVLKEGLSAATFRRVAAESQLNIGSVRHYFADHESLVVAVVTEAGNRMGQRLMKHTPPQSRDLSRQRQHLIALLEELVPL
DAERHSEAVILMEVIAASRTTEAFRAATAQMATDLDDVLVTALKGMSVPQPSLEAQRLASLLSGLALDAVTAHGPRKPTTIAKILRLHVDSLPTSR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
837 bp278 aa8451681+No
ORF function : Passenger Gene
Annotation : Methyltransferase type12Description :

ORF sequence :

MNHVDALACNRENWDERADIHARSQMYDVEGFLADRSLISSVVRNDLTVLQPHLPSSKISGQSLLHLQCHIGTDTVSWARLGAVNVTGLDLSPNSLRHAR
RIAEQDGQVITWVQGDARVASSLIDEQFDVVVTSAGTIVWLPELSAWARSIHDLLTPGGVFMIRDDHPILAAMEFQPWTISDDYLSGGGTRTYDDASTYT
ENTDVVIRQTTNYEWRHDLSEVLTALLEADLRIEAVHELAYMDWPAFPALIPDPRGWTLPADAPRIPLNFAIVARRAS

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1404 bp467 aa17173120+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MELSHRFAASSAVFDDDHLVSIAGLVPVMTLATQTGLSALLADKVRISEPRIKSGSANPSPKLTTLIAGMCAGADSIDDLDIVRSGGMKTLFDDVYAPST
IGTLLREFTFGHARQLEAVLRAHLAELCQRADLLPGIDGRTFVDIDSLLRPVYGHAKQGASYGHTKIAGKQILRKGLSPLITTISSSTSAPVIAGARLRA
GKTNSGKGAARMIAQAVATARAAGVTGPILVRGDSAYGNSTVAAACRRAGAQFSLVLTKTPAVTAAIDAISDGAWIPVNYPGAVRDPDTGAWISDAEVAE
TTYTAFSSTKTPITARLIVRRVKDARFLDALFPVWRYHPFFTDSDEPVDAADITHRRHAIIETVFADLIDGPLAHMPSGRFGANSAWILCAAIAHNLLRA
AGVLAGTANAVARGSTLRRRIVTVPARLARPQRRPVLHLPTHWPWTDQWLMLWRNTIGYSPPATPCH

 

Blast result :
Comments
ISMsm12 is 91% aa similar to ISMsm10 for the transposase(ORF3). The two first ORF are passenger genes annotated as transcriptional regulator, TetR family and methyltransferase.
References
1] ISfinder annotation (2009)
2] Fleischmann,R.D., Dodson,R.J., Haft,D.H., Merkel,J.S., Nelson,W.C. and Fraser,C.M. (2006) Direct submission GenBank.