ISfinder

ISMesi1

Family IS3
Group IS150

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

Accession number	Transposition	Origin	Host
NC_014212	ND	Meiothermus silvanus	Meiothermus silvanus DSM9946

DNA section

IS Length : 1234 bp

Ends

IR Length : 24/31

IRL : TGAAGTGCTGCCCCAAATTTGGACCACCCCAAGAGAGAGACCGAGGGGTG
IRR : TGTACTGCGCCCCTAAATTTGCACCACCTCACCGGTCAGTTTAGTCAGGG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GTGGGAGTTG	CAT	CAATTACGGC	3
ACGCATCGAC	GGC	CGCCCGCCTC	3
GCTACCAGGT		CCGTGGATGA	0
GGAGGAGGCG	GCC	CGCCTCGTCA	3
TCGAGAAGCT	GCT	CGATCTGAAG	3
AGGAGGTACG	CCG	TGGATGACGA	3
GGCAAAGGCC	GGG	TGTAGAACTC	3
CGAGGACAGT		AGCCTCCTTA	0

DNA sequence

TGAAGTGCTGCCCCAAATTTGGACCACCCCAAGAGAGAGACCGAGGGGTGTAGCCTGAAGGGGTAGCGAGATGCGCAGGTGGTCAGCGAAGGAAAAGGTA
AAAATTGTGTTGGAGGTCTTGTCGGGTCAAAGGACCGTGGCCGAAGCCTGCCGAGCTCACGAGGTCGCAGAGTCCGTGCTCTACAGGTGGCAACGGGCGT
TCTTGGATAACGCCCATGCCGCCTTCTCCCATAGCTGCGCAGAACAAGAGGCCCGCGTCCGCGAACTGGAACGCTTGGTCGGCCAGATGGCCCTGGAGCT
GGAGGTCCTAAAAAAAGCCTCGGGACTCTACCGGCAAAGGAAAGGCGGGAGCTGGTGATGGCCCTCAAGGAGGCCTATCCCCTCCGCCTGCTGTGCCGGG
CCCTTGGGGTGCCCCGGAGCACCCTCTACTACCGGTCTAAGGGTCCCAATCCCGAGGAGGCGGTCCTCCGAGGCCGCTTGCGGGAGCTGGCGGGGGCCTG
GCCCCGGTATGGATACCGGCGCCTCGCCGCTCTCTTGCGGGGGGAGGGCTTCGGGGTGGGGGAGAAGCGGGTGCGCTCCCTGATGCGGAGGGAAGGCCTG
CTCCTTACCCGGAAGCCCCTCAAGCCCAGGACCACTCTCCCGGAAGAGCTTCTCCCGGAGGGGGTGCCCAACCTTCTGCTGGGGCTTGAGGTGACCGGCT
TCCACCAGGTGTGGGTGGCGGACCTGAGCTACGTGGTCCTGGGGGAGGGGGTGGCCTACCTGGCGGTGGTGATGGACCTCCACACCCGCAAGATCCTGGG
GGTGGCCCTGGGGCCGAGGCTGTCCCAGGGGCTTGCTCTTGCGGCGCTGGAGATGGCCCTTAGGGAGGGATGCCCCGAGGTGCACCATTCGGACCGGGGG
GTGCAGTACACCTCCAGGGCCTATGTGGAGCGGCTTTTGGGGCTAGGGGTGAGGCTGAGCTACGCGGGGACGGGGAGGCCCTGGGAGAACGGGCACGCGG
AGCGGCTGATCCGGACCGTCAAGGAGGAGTGGGTGGACCTGCGGGAGTACCGGACTCTGGAGGAGGCGCGGGCGTCGGTGGAGGCGTTCGTCTTTGAGGT
GTACAACCGCAAGCGTCCGCACTCGGCCTTGGGGTACCTGACGCCTGAAGCTTTTGTGGACAGCCTGTTGAAAGGGGGTGGGAGCCCTGACTAAACTGAC
CGGTGAGGTGGTGCAAATTTAGGGGCGCAGTACA

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
288 bp	95 aa	71	358	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRRWSAKEKVKIVLEVLSGQRTVAEACRAHEVAESVLYRWQRAFLDNAHAAFSHSCAEQEARVRELERLVGQMALELEVLKKASGLYRQRKGGSW

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
960 bp	319 aa	235	1194	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

LRRTRGPRPRTGTLGRPDGPGAGGPKKSLGTLPAKERRELVMALKEAYPLRLLCRALGVPRSTLYYRSKGPNPEEAVLRGRLRELAGAWPRYGYRRLAAL
LRGEGFGVGEKRVRSLMRREGLLLTRKPLKPRTTLPEELLPEGVPNLLLGLEVTGFHQVWVADLSYVVLGEGVAYLAVVMDLHTRKILGVALGPRLSQGL
ALAALEMALREGCPEVHHSDRGVQYTSRAYVERLLGLGVRLSYAGTGRPWENGHAERLIRTVKEEWVDLREYRTLEEARASVEAFVFEVYNRKRPHSALG
YLTPEAFVDSLLKGGGSPD

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1124 bp	374 aa	71	1194	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRRWSAKEKVKIVLEVLSGQRTVAEACRAHEVAESVLYRWQRAFLDNAHAAFSHSCAEQEARVRELERLVGQMALELEVLKKSLGTLPAKERRELVMALK
EAYPLRLLCRALGVPRSTLYYRSKGPNPEEAVLRGRLRELAGAWPRYGYRRLAALLRGEGFGVGEKRVRSLMRREGLLLTRKPLKPRTTLPEELLPEGVP
NLLLGLEVTGFHQVWVADLSYVVLGEGVAYLAVVMDLHTRKILGVALGPRLSQGLALAALEMALREGCPEVHHSDRGVQYTSRAYVERLLGLGVRLSYAG
TGRPWENGHAERLIRTVKEEWVDLREYRTLEEARASVEAFVFEVYNRKRPHSALGYLTPEAFVDSLLKGGGSPD

Blast result :

Comments

ISMesi1 is 86% aa similar to ISTth1. The third ORF is a putative ORFAb transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2011)
2] Lucas,S., Copeland,A., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Mikhailova,N., Lowry,S., Clum,A., Brettin,T., Detter,J.C., Han,C., Larimer,F., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Tindall,B., Pomrenke,H.G., Schneider,S., Klenk,H.-P. and Eisen,J.A. (2010) Direct submission GenBank.