ISfinder Mirror Site

ISMra5

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 pMRAD01 Methylobacterium radiotolerans JCM 2831 plasmid pMRAD05 Methylobacterium radiotolerans JCM 2831 plasmid pMRAD04

DNA section

IS Length : 832 bp

Ends

IR Length : 15/17

IRL : GCGTCCGGACCCATAACGGTGGCGCGGACGGCTTGGGTGTGATTCACGGC
IRR : CCGTCCGGACTCATAACCAGTAGCTGACGGTGGCGGCGAGGCAGACGGCG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GCGGCTCTTC	TA	AGAGGTAGCC	2
GCTCGGTCGT	TA	GTTGCGGACG	2
AAGCCTAAGC	TA	AAGCACCCCT	2

DNA sequence

GCGTCCGGACCCATAACGGTGGCGCGGACGGCTTGGGTGTGATTCACGGCTCTTGCGGGAGGGGCCGATGGACCATTTCTGGCTGACGGACGAGCAGTTT
GCGAGGATCGCACCGCTTCTGCCAAACGACACACGGGGCAAGGAGCGCGTGGACGACCGGCGCGTGATCAGCGGCATCGTCCACGTGCTGAAATCTGGAG
GGCGCTGGACGGACGCGCCACGCGATCTCTACGGGCCGAAGAAGACCCTCTACAATCGCTTCGTGCGCTGGGCGGCCAAGGGGGTCTGGATCGGGCTGTT
CGAGACCCTCGCTCAAGCCGGTGGGCCGCCCTCTCAAGTGCTGATCGACTCCACCGCCGTGAAGGCCCACCGCTGCGCCGCAGGAGGCAAGGGGGGGAGC
AGAGCCAAGCCATCGGTCGCTCGCGGGGCGGGCGCACGACCAAGATCCACGCCCTCACCGACCGCTTCTGCCGTCCGCTCGCGTTCCTGCTGACCGGCGG
GCAGGCTGCCGACTGCAAGGCTGGCGCGCTGCTGCTCGAACGCTTGCCCTCCTGCCGCATCGTGCTGGCGGACAAGGGCTACGACAGCGACGCCATTCGC
CGGCAGATTGAGGCGGCCGGGGCCGCACCCAACATCCCGCCCAAGATCAACCGCCGCTGGAAGCCGTGCTTCTCCCCGGTGCTCTATCGCGGGCGCAACG
CCATCGAGCGCATGTTCGGCCGCCTCAAGGACTTCCGCCGCATCGCCACCCGCTACGACCGTCTGGCGACCAACTATCTCGCCGCCGTCTGCCTCGCCGC
CACCGTCAGCTACTGGTTATGAGTCCGGACGG

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
426 bp	141 aa	68	493	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MDHFWLTDEQFARIAPLLPNDTRGKERVDDRRVISGIVHVLKSGGRWTDAPRDLYGPKKTLYNRFVRWAAKGVWIGLFETLAQAGGPPSQVLIDSTAVKA
HRCAAGGKGGSRAKPSVARGAGARPRSTPSPTASAVRSRSC

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
582 bp	193 aa	241	822	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

EDPLQSLRALGGQGGLDRAVRDPRSSRWAALSSADRLHRREGPPLRRRRQGGEQSQAIGRSRGGRTTKIHALTDRFCRPLAFLLTGGQAADCKAGALLLE
RLPSCRIVLADKGYDSDAIRRQIEAAGAAPNIPPKINRRWKPCFSPVLYRGRNAIERMFGRLKDFRRIATRYDRLATNYLAAVCLAATVSYWL

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
755 bp	251 aa	68	822	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MDHFWLTDEQFARIAPLLPNDTRGKERVDDRRVISGIVHVLKSGGRWTDAPRDLYGPKKTLYNRFVRWAAKGVWIGLFETLAQAGGPPSQVLIDSTAVKA
HRCAAGGKGGEQSQAIGRSRGGRTTKIHALTDRFCRPLAFLLTGGQAADCKAGALLLERLPSCRIVLADKGYDSDAIRRQIEAAGAAPNIPPKINRRWKP
CFSPVLYRGRNAIERMFGRLKDFRRIATRYDRLATNYLAAVCLAATVSYWL

Blast result :

Comments

ISMra5 is 94% aa similar to ISMex15.
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.

References

1] Ming-Chun Lee and David Robinson (2009) Direct submission.

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.