ISfinder Mirror Site

ISCth11

Family IS66
Group

MGE type ISRelated element(s) :
Isoform Synonym(s)

Accession number	Transposition	Origin	Host
NC_009012	ND	Clostridium thermocellum	Clostridium thermocellum ATCC 27405

DNA section

IS Length : 2530 bp

Ends

IR Length : 28/30

IRL : GTAAGCGTCCAATAAGACAGTGTATAGAAATTCCCCCTGGACTATGAGAC
IRR : GTAAGCGTCTAATAACACGGTGTATAGAAAAAAAGCAAAAACTCATATAA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TCTTCACAAG	GTTTTTAC	AAACCGAGTC	8

DNA sequence

GTAAGCGTCCAATAAGACAGTGTATAGAAATTCCCCCTGGACTATGAGACAATACTCTAAATCTAGATTTTTTAGAGTTTTTCGACTAACTTGAAAAACT
CCAAAGGAGGATTTAGAGTTGAATACCAGAGCAGTTACCCAAAAGTACAGATTAAATAAGTGGACCGACATCATACGTGAATGCCGGAGCAGTGGCCAGA
CAGTTACTGCATGGTGTACAGAACACGATATCAATCCAAAGAGTTACTACTACTGGTTGAAAAAAGTCCGATTAGCTGCATGTGAAGCCCTTACGCCCAT
AAATTCAGAAAATAGCCTAATAGTACCAATCGACATTTCAACGCAAACTACACACAGTAATTCCGAAATAAAGAGCATGTCATCTGATATAGTTATCCGC
ATCGGCTCAATAACTCTTGAACTAAGCAATAACGCATCTGCTGCGTTGATTGAGAATACACTGAGGGCGATACAGAATGTTAGGTGACATCTCCAAGGCT
GAAAAGATCTATATAGCCTGCGGGTATACAGACATGCGGAAAGCTATTGACGGACTGGCAGCTATTGTTCAACAGAACTTTCAGTTGAACCCATTCCAGA
ACAGTCTGTTTCTCTTTTGTGGCCGGCGGCGGGATCGGATGAAAGCGCTCTATTGGGAAGGCGACGGTTTTGTTCTCCTATACAAGCGCCTGGAAAACGG
AAAATTTCAATGGCCCATGAATGCTGATGCGGTTCGGGCACTCACCCCCCAGGAATTCCGTTGGCTGCTTGAAGGCCTCTCAATTGACCAGCCTAAAGCA
GTAAAAAAGATAGAGATAGGAGCCTGCATTTAACAGGAAAAAAATGTCGCCAGGCCGCATATTTACTGGATTTCCTGGCTATTTCGTGATATAATTGATA
TATCAAAAAACAGCGAGGAAACAGTATTTTATGAGCACAGCAGAGCAGATAGCAACCCTGGAAAACCGCATAAACGAGTTGGAGCTGGAAAACAAACGGC
TTCATGAAACAGTTGCTTATCTGACTCGTAAGCTGTACGGCAGAAGTTCTGAGAAGACATCAGCCCTTTCTGTGGGGCAGGTGTCTCTTTTTGATGAAGC
AGAGGTTTATGCTGTTCCGCAGGCACCGGAGCCTGATCTTAAAGAAGTACAGGGCTACATTAGAAGGAAGTACAAGGGCCAGAGGACTGATCTTTTAAAA
GACATCCCTCATGACAAACGTCTCTGTACACTTGCAGAAGAAGACCGCTATTGTGAGGCTTGCGGAACAGACCTCGTTTCTGTCGGAAAAGAATTCATCC
GCACTGAGATCGAATTCATTCCTGCTAAGATCCGGGTAATCGACTATTACCGTGAAACCTTTGAATGCCGTACCTGTCGCAAAAATGGAGAGCCATATAT
GGAAAAGTCGCCAATGCCATATCCTGTGATTCAGCATTCTATGGCATCTCCTTCTACTGTAGCATGGATTATGCATCAGAAGTTTGTAAACCATCTCCCT
CTTTACCGCCAGGAAAATGAGTGGAAGATGCTGGGTGTCAATTTAAAGCGGGAGACTATGTCCAACTGGATTCTGGCTGCAGCTCGTGACTGGCTGATGC
CATTGGTGGATTTGATGCATAAAAAACTCCTGCAGGAAAAATACCTGCATGCCGACGAAACCACGGTTCAGGTGCTAAATGAGGAAGGCCGGAGCAACAC
CACGAACTCATACATGTGGGTATACAGTAGCGGGAAGTACTGTAAAAAGCAGATCAGGCTCTTCCAGTACCAGCCCGGGCGTAATGGTAAATATCCTCAG
GAATTCCTTAAAGGGTTCAGTGGATTTCTACATACAGATGCTTACTCCGGGTATAAGAAAGTTCCGGAGATTACAAGGTGTATGTGTTGGACACATCTTC
GGCGATATTTCCGGGATGCACTTCCGAAAGATACCCAGAGTCCGGAAGCAACCATTCCAAGCCAGGGAATAAGATTCTGCAACAAGCTGTTTGAAATTGA
AGAGACTCTTGAAAAACTTACTCAGGAGCAGCGAAGATTGGAGCGTCTGAAACAGGAAACACCCGTTTTAGAGGCCTTTTGGTCGTGGGTTGATTCGGTT
AAAGACAAGGTCCTGCCAAAGTCTAAAATAGGTGAAGCCATTCAATATGCCCTGAATAACAAGGAAGACTTCATGAACTATCTTTTAGACGGTAACTGCT
CCATATCTAATAACCTCTCGGAGAACAGCATTCGTCCCTTTACCCTGGGAAGAAAAAACTGGCTGTTCAGCGGAAGCCCGAGAGGAGCGGATGCAAGCGC
TGCTGTTTATAGCATTGTCGAAAGTGCTAAGGCTAACGATATTAACCCATATAAATATCTTTATTACATCTTTAGCGAACTACCGGGTGTGCAGTTCGGC
CAGAATCCTGAATTCCTGGAAGATTATCTCCCATGGAGTCCCGATGTACAAGCCGCCTGTAAATAGTGCAAAAACTTATTTTATATGAGTTTTTGCTTTT
TTTCTATACACCGTGTTATTAGACGCTTAC

Protein section

ORF number : 3

ORF 1

Length		Begin	End	Strand	Fusion ORF
369 bp	122 aa	119	487	+	No

ORF function : Accessory Gene
AG : IS66 TnpA

ORF sequence :

MNTRAVTQKYRLNKWTDIIRECRSSGQTVTAWCTEHDINPKSYYYWLKKVRLAACEALTPINSENSLIVPIDISTQTTHSNSEIKSMSSDIVIRIGSITL
ELSNNASAALIENTLRAIQNVR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
357 bp	118 aa	477	833	+	No

ORF function : Accessory Gene
AG : IS66 TnpB

ORF sequence :

MLGDISKAEKIYIACGYTDMRKAIDGLAAIVQQNFQLNPFQNSLFLFCGRRRDRMKALYWEGDGFVLLYKRLENGKFQWPMNADAVRALTPQEFRWLLEG
LSIDQPKAVKKIEIGACI

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1536 bp	511 aa	931	2466	+	No

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSTAEQIATLENRINELELENKRLHETVAYLTRKLYGRSSEKTSALSVGQVSLFDEAEVYAVPQAPEPDLKEVQGYIRRKYKGQRTDLLKDIPHDKRLCT
LAEEDRYCEACGTDLVSVGKEFIRTEIEFIPAKIRVIDYYRETFECRTCRKNGEPYMEKSPMPYPVIQHSMASPSTVAWIMHQKFVNHLPLYRQENEWKM
LGVNLKRETMSNWILAAARDWLMPLVDLMHKKLLQEKYLHADETTVQVLNEEGRSNTTNSYMWVYSSGKYCKKQIRLFQYQPGRNGKYPQEFLKGFSGFL
HTDAYSGYKKVPEITRCMCWTHLRRYFRDALPKDTQSPEATIPSQGIRFCNKLFEIEETLEKLTQEQRRLERLKQETPVLEAFWSWVDSVKDKVLPKSKI
GEAIQYALNNKEDFMNYLLDGNCSISNNLSENSIRPFTLGRKNWLFSGSPRGADASAAVYSIVESAKANDINPYKYLYYIFSELPGVQFGQNPEFLEDYL
PWSPDVQAACK

Blast result :

Comments

ISCth11 is 59% (ORFA) aa similar to ISSba7, 70% (ORFB) to ISVme1 and 57% (ORFC, the transposase) to ISDpr4. There is only one copy on the genome.

References

1] ISfinder annotation (2009)
2] 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., Chertkov,O., Brettin,T., Bruce,D., Han,C., Tapia,R., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Wu,J.H.D., Newcomb,M. and Richardson,P. (2007) Direct submission GenBank.