ISfinder Mirror Site

ISAcma30

Family IS630
Group

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

Accession number	Transposition	Origin	Host
NC_009925	ND	Acaryochloris marina	Acaryochloris marina MBIC11017 plasmid pREB4 Acaryochloris marina MBIC11017

DNA section

IS Length : 1201 bp

Ends

IR Length : 23/33

IRL : GTGCTCGACCACACTGAATTGGATAGGTAAGCTAGCAACAATCTAGCTGT
IRR : GTGCTTCGCCACAGTGATTATGACAGGATAGTTTGGGGATAGAGTCGGCT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
AACCTGTAAC	TA	GTGCATTAGG	2
GCTTAAACAG	TA	GTGCCTTCAG	2
AGAGCAAAGC	TA	GTTTTCCCAT	2
CCCATGGACC	TA	GAGATTAACC	2

DNA sequence

GTGCTCGACCACACTGAATTGGATAGGTAAGCTAGCAACAATCTAGCTGTTTTTAGCCAACTAATCATGCCTGACAAATATATTGTGACGCTAACGCCTG
AAGAACGCAGTGAGCTGATACAACTCACCCGACGTAGAACCCTGTCAGCGCGAAAAATGAAACGAGCCCAGATTTTGATGTTGGCAGATGAGGGACACAA
AGACGATACCATTACTCAAATGCTCAATGCAGGCATCTCTACCGTGCATCGTACTCGCCAGAAATTTGTTGAAGGTGGTGTGGAATTTGCCCTCAATGAG
CGTCCCAGACCAGGAGGGCAAAAGAAGCTCGATAGCAAAGCAGAGGCCTTGCTAATTGCGACAGCTTGTAGCGACCCACCAACCGGTTGTTGCCGGTGGA
CCATGCAGCTATTGGCAGAACGGCTGGTTGAACTTAAAGTCGTCGAAAGCCTATCGGATGAAACTGTGCGACGTACGCTCGAAAAAAACAGCTTAAGCCT
TGGCTAAAAGAGCAGTGGTGTTTTTCTACTGTAGGCGCAGACTTTGTTTGGCGGATGGAGAACGTTCTAGATTGGTATGCCCAACCCTACGATCCTGATG
AGCCTGTTGTTTGTTTTGATGAACGGCCTTGCCAACTGATTGGCGAAACCCGGGTGCCCCGTCCACCGAAGCCCGGTCGTCCTCAACGCTACGACCATGA
ATATGAGCGGAAGGGCACTTGTAATATATTTGGCTTTTTTCAACCGCTCAAAAGTTGGCGACATTTGAAGGTGACTGAGCATCGCAAAAGCGAAGATTTT
GCACTTTGCATGCAATATCTAGTGGATGGTCTGTTTCCCCAGGCTGACAAGCTACATGTTGTTTTGGACAATCTCAATACCCATTCTCCCGCAGCACTTT
ACAAAACCTTCAATCCAGATGAAGCCTTGCGGATTCTCAAGCGTATTCAGTTTCACTACACCCCAAAACATGGCAGTTGGCTCAATATGATTGAGTTTGA
GTTCTCTGCCCTTTCGAGGCAATGCTTAAATCGGCGGATTCCTGATATTGAACAACTCCGGTACGAGGTCACTGCATGGGAAAAAAGGCGGAACCATGAT
AAGGCAACGGTTAATTGGTTGTTTACGGTGGATGATGCACGAACTAAACTCAGCCGACTCTATCCCCAAACTATCCTGTCATAATCACTGTGGCGAAGCA
C

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
441 bp	146 aa	67	507	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPDKYIVTLTPEERSELIQLTRRRTLSARKMKRAQILMLADEGHKDDTITQMLNAGISTVHRTRQKFVEGGVEFALNERPRPGGQKKLDSKAEALLIATA
CSDPPTGCCRWTMQLLAERLVELKVVESLSDETVRRTLEKNSLSLG

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
723 bp	240 aa	462	1184	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

NCATYARKKQLKPWLKEQWCFSTVGADFVWRMENVLDWYAQPYDPDEPVVCFDERPCQLIGETRVPRPPKPGRPQRYDHEYERKGTCNIFGFFQPLKSWR
HLKVTEHRKSEDFALCMQYLVDGLFPQADKLHVVLDNLNTHSPAALYKTFNPDEALRILKRIQFHYTPKHGSWLNMIEFEFSALSRQCLNRRIPDIEQLR
YEVTAWEKRRNHDKATVNWLFTVDDARTKLSRLYPQTILS

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1118 bp	372 aa	67	1184	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPDKYIVTLTPEERSELIQLTRRRTLSARKMKRAQILMLADEGHKDDTITQMLNAGISTVHRTRQKFVEGGVEFALNERPRPGGQKKLDSKAEALLIATA
CSDPPTGCCRWTMQLLAERLVELKVVESLSDETVRRTLEKKQLKPWLKEQWCFSTVGADFVWRMENVLDWYAQPYDPDEPVVCFDERPCQLIGETRVPRP
PKPGRPQRYDHEYERKGTCNIFGFFQPLKSWRHLKVTEHRKSEDFALCMQYLVDGLFPQADKLHVVLDNLNTHSPAALYKTFNPDEALRILKRIQFHYTP
KHGSWLNMIEFEFSALSRQCLNRRIPDIEQLRYEVTAWEKRRNHDKATVNWLFTVDDARTKLSRLYPQTILS

Blast result :

Comments

ISAcma30 is 70% aa similar to ISAzo9.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Swingley,W.D., Chen,M., Cheung,P.C., Conrad,A.L., Dejesa,L.C.,Hao,J., Honchak,B.M., Karbach,L.E., Kurdoglu,A., Lahiri,S.,Mastrian,S.D., Miyashita,H., Page,L., Ramakrishna,P., Satoh,S., Sattley,W.M., Shimada,Y., Taylor,H.L., Tomo,T., Tsuchiya,T., Wang,Z.T., Raymond,J., Mimuro,M., Blankenship,R.E. and Touchman,J.W. (2008) Proc. Natl. Acad. Sci. U.S.A.
2] ISfinder annotation (2009)