ISfinder Mirror Site

ISMra6

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
NC_010518	ND	Methylobacterium radiotolerans	Methylobacterium radiotolerans JCM 2831 plasmid pMRAD05

DNA section

IS Length : 851 bp

Ends

IR Length : 16/17

IRL : GAGCGTCTAACAAAACCGATGGCGGCGCGTTGAGAGGAGATGGCGAGACC
IRR : GAGCCTCTAACAAAACCAGCGTTCGATGAAGCGCCAGACGATTAGGGCTG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
AAACCGGAGC	TAA	GTCGATCGAC	3

DNA sequence

GAGCGTCTAACAAAACCGATGGCGGCGCGTTGAGAGGAGATGGCGAGACCACTCCTTCCCGATGGCCTGTGGGCTGAGATCGCACCGCTGCTGCCGCCTG
AGCCAGCCAAGCCGAAGGGCGGTCGCCCGCGAAGATCTGACCGCGCGGCGTTGACGGGCATCCTGTTCGTGCTCCGCTCAGGCACGCCGTGGGAGTTGCT
TCCGCGCGAGATGGGCTGTGGCTCCGGCATGACCTGCTGGCGACGCTTGCGCGATTGGCAGAAGGCCGGGGTTTGGGACCGCCTGCAACAGACGCTGCTC
GATCGGCTCGGACGCCGGAACGGCATCGACTTCAGCCGCGCCTCCCTCGACAGCGCCTCCATCGCTGCAAAAAAGGGGGCCCGGCGTCAGGCCCGAACCC
GACCGACCGGGGCAAGCCGGGCACGAAGCGTCACGTCCTCACCGATGCGAAGGGCATCCCGCTCGCGCTGAAGCTGACGGGGGCCAACGTGCACGACAGC
CGGATGCTCGAGGCGGTGGTGGATGCTGTGCCGCCGATCCGCCAGTGCTGGGGACGACCGCGCAAACGCCCGTCCCGGTTGCACGCCGACAAGGCCTACG
ATCACCGCCGCTGCCGTCAGGCGCTCACCCGCCGTCGCATCCAGCACCGCATCGCCCGTCGCGGCATCGAGAGCAGCCAACGTCTGGGCCGGCACAGGTG
GGTCGTGGAGCGCACGCTGGCTTGGTTCGCCCAGTTCCGCCGCCTCGCCATCTGCTACGAGCGACGGACCGACATCCACCTCGCCTTCTCCACCCTGGCC
GCAGCCCTAATCGTCTGGCGCTTCATCGAACGCTGGTTTTGTTAGAGGCTC

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
432 bp	143 aa	40	471	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MARPLLPDGLWAEIAPLLPPEPAKPKGGRPRRSDRAALTGILFVLRSGTPWELLPREMGCGSGMTCWRRLRDWQKAGVWDRLQQTLLDRLGRRNGIDFSR
ASLDSASIAAKKGARRQARTRPTGASRARSVTSSPMRRASRSR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
603 bp	200 aa	243	845	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

TLARLAEGRGLGPPATDAARSARTPERHRLQPRLPRQRLHRCKKGGPASGPNPTDRGKPGTKRHVLTDAKGIPLALKLTGANVHDSRMLEAVVDAVPPIR
QCWGRPRKRPSRLHADKAYDHRRCRQALTRRRIQHRIARRGIESSQRLGRHRWVVERTLAWFAQFRRLAICYERRTDIHLAFSTLAAALIVWRFIERWFC

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
806 bp	268 aa	40	845	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MARPLLPDGLWAEIAPLLPPEPAKPKGGRPRRSDRAALTGILFVLRSGTPWELLPREMGCGSGMTCWRRLRDWQKAGVWDRLQQTLLDRLGRRNGIDFSR
ASLDSASIAAKKGGPASGPNPTDRGKPGTKRHVLTDAKGIPLALKLTGANVHDSRMLEAVVDAVPPIRQCWGRPRKRPSRLHADKAYDHRRCRQALTRRR
IQHRIARRGIESSQRLGRHRWVVERTLAWFAQFRRLAICYERRTDIHLAFSTLAAALIVWRFIERWFC

Blast result :

Comments

ISMra6 is 83% aa similar to ISAzba7.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.

References

1] ISfinder annotation (2010).

2] Copeland,A., Lucas,S., Lapidus,A., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Goodwin,L., Pitluck,S., Kiss,H., Brettin,T., Detter,J.C., Han,C., Kuske,C.R., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Marx,C.J. and Richardson,P. (2008) Direct submission GenBank