ISfinder Mirror Site

ISRhru6

Family IS5
Group IS1031

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

Accession number	Transposition	Origin	Host
NC_007643	ND	Rhodospirillum rubrum	Rhodospirillum rubrum ATCC 11170

DNA section

IS Length : 941 bp

Ends

IR Length : 16/19

IRL : GAGCCCGTCCGGAAGGTTGTTGAGTCCGATGAATCATTTGTGATTCCATG
IRR : GAGTCCGTCCGCGAAGTTTCCTATGATTTCCGGAGCCTTGCGATTCTGCG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ATCTCGCCCT	TAA	CTTCTCCTAC	3

DNA sequence

GAGCCCGTCCGGAAGGTTGTTGAGTCCGATGAATCATTTGTGATTCCATGGCTTCCCAAACGAATTCGGGGGGGGCAGGATGTGGACGAAGGAAAACCGG
AGGGTCTATGAGCGGCATGGGTTGCGCTACCCTAGCGACCTGACGGATGAGGAATGGGCGCTGGTGGAACCGCTGATCCCACCGGCGAAGCGGGGCGGCC
GGTGGCGGACGGTGAACATCCGCGAGGTGCTGAATGGCGTTTTCTACGTGCTGATGACCGGTTGCCAGTGGCGGGCCCTGCCCAAGGACCTGCCGCCCAA
GAGCACGGTGCATGAGTATCTCGGGCTGTGGGAATGGGATAGCACCCTGGCCCGTATCCACCACGCACTCTTTGTCGAGGTGCGGGAATTGGTGGGCAAG
GAAGCCAGCCCGACGGCGGCGATCATTGACAGCCAGAGCGTCAAGGGCGCGGAAAAAGGGGGGCGCGGATCGACCCGTCTGGCTATGACGCAGGTAAGAA
AGTCAAAGGTAAGAAGCGGCACATCGTCGTCGACAGGCTCGCCATGATCCTGGCGGCCCACATCCAGCCCGCCGATGTCCAGGACCGCGATGGTGCGTTG
CCGGTGCTAAAGGAGGTCCGCCGCCTGTTCCCGTTCATCGAGCGCGTCTTCGCCGACGGCGGCTACCAAGGAGCTTCCACGGCGGCGGCGGTGCGCGAAC
TGGGGATGTGGCACCTGGAAATCGTCAAGCGCTCCGACACCACCAAGGGATTCGAGGTGCTGCCAAAACGCTGGATCGTCGAACGTACCTTCGGCTGGCT
CGGCCGCTGCCGACGCCTTGCCAAGGACTTCGAGAACCTGTCCCGGATGGCTCTGGCCTTCCTGCGTCTCGCCATGATTCGCCTCATGCTGCGCAGAATC
GCAAGGCTCCGGAAATCATAGGAAACTTCGCGGACGGACTC

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
468 bp	155 aa	80	547	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MWTKENRRVYERHGLRYPSDLTDEEWALVEPLIPPAKRGGRWRTVNIREVLNGVFYVLMTGCQWRALPKDLPPKSTVHEYLGLWEWDSTLARIHHALFVE
VRELVGKEASPTAAIIDSQSVKGAEKGGRGSTRLAMTQVRKSKVRSGTSSSTGSP

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
492 bp	163 aa	430	921	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

QPERQGRGKRGARIDPSGYDAGKKVKGKKRHIVVDRLAMILAAHIQPADVQDRDGALPVLKEVRRLFPFIERVFADGGYQGASTAAAVRELGMWHLEIVK
RSDTTKGFEVLPKRWIVERTFGWLGRCRRLAKDFENLSRMALAFLRLAMIRLMLRRIARLRKS

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
842 bp	280 aa	80	921	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MWTKENRRVYERHGLRYPSDLTDEEWALVEPLIPPAKRGGRWRTVNIREVLNGVFYVLMTGCQWRALPKDLPPKSTVHEYLGLWEWDSTLARIHHALFVE
VRELVGKEASPTAAIIDSQSVKGAEKRGARIDPSGYDAGKKVKGKKRHIVVDRLAMILAAHIQPADVQDRDGALPVLKEVRRLFPFIERVFADGGYQGAS
TAAAVRELGMWHLEIVKRSDTTKGFEVLPKRWIVERTFGWLGRCRRLAKDFENLSRMALAFLRLAMIRLMLRRIARLRKS

Blast result :

Comments

ISRhru6 is 79% aa similar to ISMdi21. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] ISfinder annotation (2009)
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S., Munk,A.C., Brettin,T., Bruce,D., Han,C., Tapia,R., Gilna,P., Schmutz,J., Larimer,F., Land,M., Kyrpides,N., Mavrommatis,K., Richardson,P., Zhang,Y., Roberts,G., Reslewic,S., Zhou,S. and Schwartz,D.C. (2009) Direct submission GenBank.