ISfinder Mirror Site

ISMsi1

Family IS21
Group

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

Accession number	Transposition	Origin	Host
NC_011666	ND	Methylocella silvestris	Methylocella silvestris BL2

DNA section

IS Length : 2307 bp

Ends

IR Length : 20/27

IRL : TGTGAGATCGCGTGGAATGTTGTCCCCTTGAGGGGCTGATTTCGCGTTGA
IRR : TGTCAATTCGCTTTGAAAGCTGTCCCCGCTTTCGCTTTGAATGTTAGCCC

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TATGAGGCGCGGATACACGA		CAGACGCGGTAAAGGGCAGT	0
TACGTTTCGCCCGGCACCTC		ATCAAGGCGGTGCAAGGCAC	0

DNA sequence

TGTGAGATCGCGTGGAATGTTGTCCCCTTGAGGGGCTGATTTCGCGTTGAAGATTGTCCCCCTAGTTCGGCTTTCAGCGATCCTTCCGGCTTTGCGGAGG
GCTCTGGGGATGATGGGCGTGGAGACGATCGCGCGGATCCGGTTCGAGCATTTCCAGAACGGCAAAGGGATCAAGCGGATCGCGCTGGAGCTGGGGATTG
CGCGCGACACGGTCCGCAAAATTCTGCGCTCCGGCGTGACGGAGTTCGCCTACAAGCGCACGGTTCAGCCGCAGCGCAAGCTGGGCGACTGGGTGGAGAC
GCTGACAGCGATCCTGGAGGCGGAGGCCAAGCTGCCGCGACGCGAGCGGCGCTCGACCATCCGTTTATTCGAGGAACTCCGCGGCCGGGGCTATGACGGC
GCGCATGACAGTGTGCATCGGTTCGTCAAGAGCTGGCGCGCCGAACGGGCCCGGGCGCCGGCGCAGGCTTTCAGTCCGCTGCGGTTCGATCCGGGCGAAG
CCCATCAGTTCGATTGGAGCCATGAGGCGATAGAGCTTCAGGGATTGCCGCTGACGGTGAAGCTGGCGCAGATGCGGCTCGCTTACAGCCGCATGCCTTT
CGTGCGCGCCTATTTCCGCGAGACGCAGGAGATGGTGTTCGACGCGCACGATCGCGCCTTCGCTTTTTATGGCGGCGTCTGCCGGCGCGGGATTTATGAC
AACATGCGCACGGCGGTGGAGGCCGTCTTCGTCGGCAGCGCCCGCACGTATAACCGGCGCTTTCTCCAACTTTGCTCGCATCATCTCGTCGAACCTGTAG
CCTGCACGCCTGCCGCCGGTTGGGAGAAGGGCCAGGTCGAGAACCAGGTCGGCACGATGCGCGACGTGTTGTTCCGGCCAAAGCCAAAGGTGAAGTCGCT
GGATGAGCTGAATGCTTGGCTGGCCGAGCAATGCGTCTCCTACGCCAAACGGGTCAAGCACCCCGAGTTCAGGGATCGGACGATCTTTGAAGTGTTCGAG
GAAGAACGGCCGCGCCTCATGCCCTTCCTCGGCCCGTTCGCGGGTTCATCGAGAAGCCGATGCGCGCGACGACAACCTGCCTGATCGCGCATGATCGGAA
CAAATACAGCGTCGACGCCAAGGCGGCGGGGCGCGCTGTGCTGGTGCGCGTCTACGCCGATCGCATTGTGGCTCTCCTCGGCGAGGAGATTGTCGCGGAT
CACCCACGCAGCTTCAAGCGCGATCAAGTTGTCTACGAGGCTTGCGCCGAAGCCTTGGAGGCCGGCGTCGCCAATGGCGACGTCGTTGTGGCGATCCTCG
CCCGCAACCGCCAACCTCCGGCGCCGCCAAGCATCACAACGCCCGAGGCGCTCAAACTCAAAGCCGAGCCCGTCGCCGACTGCGCCCGCTACGACAATCT
GCGCAAAAGAAGGGAGGATGCGCTATGGAGCGTCATCAGATCATCGACGCCATGACCGGATTGAAGCTTTACGGAATGCGCGCCAGTTTCGACGAGATCG
CCGGCAAAGGGCTGGCGCGGCGCGAAGAACTCTACCCGCTGCTCGGCAGCCTGATCCGCGCCGAACTGGCGCATCGCCAGTCCAGATCGATCAACTACCG
CATCAGCGGCGCCAAGTTCCCCGTGCTGAAAGATCTCGACGCCTTCGTCTTCAAAGACACGCCTGCCGACGAAGGCCTGATCCGCGAACTCGCCACCGGA
GACTTCATCGACGCCAAGTGTAATCTCATCCTGATCGGCGGCACAGGCACAGGCAAAACCCATCTGGCGATCGCCATCGCCGCCGCCGTCATTCGCGCCC
GAGCGCGCGGCCGTTTCTTCAACCTTGTCGACCTCGTCAACAAGCTCGAACAGAAAAAGGCCGCCGGAAAAAGCGGCAGGATCGTCGAAGCCATGCTGCG
TCAGGATTTGATCGTCATCGACGAACTCGGCTATTTGCCGTTCAGCCACGCCGGCGCGCAGCTGTTGTTCTATCTGATCAGCAAGCTCTATGAAAACACC
TTGATCATTATCACGACCAATCTTGCCTTCGCCGATTGGCCGCAAGTCTTTGGCGACGCCAAAATGACCACCGCCATGCTCGATCGGCTCACGCATCACT
GCGATATCGTCGAGACCGGCAACGAGAGCTGGCGCTTCAAGAACCGCGTCTGACCATCAACCAACAAAGCGCCCCATGGCCGGCGAAACAGCCGCGGCTC
TGCAACCCCGACCAGCGACGCCGCCGCTGTTCCCGCTCTTCCGGGCTCTAACCGAGGGGGCTAACATTCAAAGCGAAAGCGGGGACAGCTTTCAAAGCGA
ATTGACA

Protein section

ORF number : 2

ORF 1

Length		Begin	End	Strand	Fusion ORF
1406 bp	448 aa	50	1455	+	No

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MMGVETIARIRFEHFQNGKGIKRIALELGIARDTVRKILRSGVTEFAYKRTVQPQRKLGDWVETLTAILEAEAKLPRRERRSTIRLFEELRGRGYDGAHD
SVHRFVKSWRAERARAPAQAFSPLRFDPGEAHQFDWSHEAIELQGLPLTVKLAQMRLAYSRMPFVRAYFRETQEMVFDAHDRAFAFYGGVCRRGIYDNMR
TAVEAVFVGSARTYNRRFLQLCSHHLVEPVACTPAAGWEKGQVENQVGTMRDVLFRPKPKVKSLDELNAWLAEQCVSYAKRVKHPEFRDRTIFEVFEEER
PRLMPFLGPFAGFIEKPMRATTTCLIAHDRNKYSVDAKAAGRAVLVRVYADRIVALLGEEIVADHPRSFKRDQVVYEACAEALEAGVANGDVVVAILARN
RQPPAPPSITTPEALKLKAEPVADCARYDNLRKRREDALWSVIRSSTP

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
729 bp	242 aa	1425	2153	+	No

ORF function : Accessory Gene
AG : IS21 helper

ORF sequence :

MERHQIIDAMTGLKLYGMRASFDEIAGKGLARREELYPLLGSLIRAELAHRQSRSINYRISGAKFPVLKDLDAFVFKDTPADEGLIRELATGDFIDAKCN
LILIGGTGTGKTHLAIAIAAAVIRARARGRFFNLVDLVNKLEQKKAAGKSGRIVEAMLRQDLIVIDELGYLPFSHAGAQLLFYLISKLYENTLIIITTNL
AFADWPQVFGDAKMTTAMLDRLTHHCDIVETGNESWRFKNRV

Blast result :

Comments

ISMsi1 is 63% (istA, the transposase) and + 78% (istB, the helper of transposition) aa similar to ISMex39.
istA was reconstructed in silico by joining (50-1045;1044-1455).

References

1] Miriam Land (2009) Direct submission
2] Lucas,S., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Forester,B., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Ovchinnikova,G., Dunfield,P.F., Dedysh,S.N., Liesack,W., Stott,M.B., Smirnova,A.V., Alam,M., Chen,Y., Murrell,J.C. and Richardson,P.(2008) Direct submission GenBank.