ISfinder Mirror Site

ISAcma31

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 pREB6 Acaryochloris marina MBIC11017 plasmid pREB3 Acaryochloris marina MBIC11017

DNA section

IS Length : 939 bp

Ends

IR Length : 19/23

IRL : GCCCTACGAAACTATGTTAGTACTATTGATATAGAAGATATCCCTACATT
IRR : GCACTACGGATATATGTTAGTACGCTCTTTGAAAGCAGCATCCACACAAT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
AGCTCTGTTA	TATA	CCTAACAATT	4
ACTTCACTAA	TATA	ATTGTTGACT	4
TGTTCTGATG	TATA	TAAGCATGTA	4
ACAGTGAAGA	TATA	CGTCTTCATT	4
GGAAAGTTAA	TATA	GAAGGTGAAG	4
CTTGACCAGG	TATA	GTTATCATCC	4
TCTTTATGAT	TATA	AACGGCGGCT	4

DNA sequence

GCCCTACGAAACTATGTTAGTACTATTGATATAGAAGATATCCCTACATTAGTATGCCAGCACCCTATAGTTATGACCTTCGTCGTAAAGCCGTTGATGC
CTTCAAGAATGGTGAACGGAAAGTCGATATCTGTCGAATGTTGAACATCAGCCGTAATACCTTGCATCTATGGATAGTCCGCGAAGAAGCTACAGGTGAC
TGTCAGGCGATTACCAACTACCAACAAGGGGCTCGCCACAAGATCACAGATTGGGAGCGCTTTCGTGAATTTGCTCAAGAGCATGGGGGTAAAACCCAGG
CCCAAATGGCTAAGCTATGGGGGGATAATGTCACCCAGCAAAATATCAGTGATGCCTTGAGAAAACTGGGATTGAGTCGAAAAAAAGACCTATGGCTATC
GAGAACGAGATGAAACACAACGTCAAGCATTTATAGAACGATTACAGACCAAACACCCTCATCAGATCGTCTATGTAGACGAAGCGGGTATCGATAATCG
AGCGGACTATCCTTATGGATACTGCCCTGTGGGTCAACGATTTTATGACCTCAAATCAGGCAAGCGGACAGAGCGAGTCAGTTTTATTGCTGCGCTCAAA
GAAGGCCAGTTATTTTCTCCCATGACCTTTGAAGGGTCTTGCAATCGGTTGTTATTCGAAGCGTGGTTACAGCAGAGTCTTATATCCCAGTTACAACTTG
GCGATGTGATTGTGATTGATAATGCCAGTTTTCATCATGGCCAGAGGATCGAAGAAATCGTAGCTGAAGCAGGCTGTGAGATTTGGTATCTACCGAGCTA
TTCTCCAGATCTCAATAAAATCGAGCGATGGTGGTTTGTGCTCAAAAACTGGATGAAGCAGCGGTGGGATGAATTTGATACCTTTCGTGATTGTGTGGAT
GCTGCTTTCAAAGAGCGTACTAACATATATCCGTAGTGC

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
360 bp	119 aa	54	413	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MPAPYSYDLRRKAVDAFKNGERKVDICRMLNISRNTLHLWIVREEATGDCQAITNYQQGARHKITDWERFREFAQEHGGKTQAQMAKLWGDNVTQQNISD
ALRKLGLSRKKDLWLSRTR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
561 bp	186 aa	376	936	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VEKKTYGYRERDETQRQAFIERLQTKHPHQIVYVDEAGIDNRADYPYGYCPVGQRFYDLKSGKRTERVSFIAALKEGQLFSPMTFEGSCNRLLFEAWLQQ
SLISQLQLGDVIVIDNASFHHGQRIEEIVAEAGCEIWYLPSYSPDLNKIERWWFVLKNWMKQRWDEFDTFRDCVDAAFKERTNIYP

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
883 bp	293 aa	54	936	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MPAPYSYDLRRKAVDAFKNGERKVDICRMLNISRNTLHLWIVREEATGDCQAITNYQQGARHKITDWERFREFAQEHGGKTQAQMAKLWGDNVTQQNISD
ALRKLGLSRKKTYGYRERDETQRQAFIERLQTKHPHQIVYVDEAGIDNRADYPYGYCPVGQRFYDLKSGKRTERVSFIAALKEGQLFSPMTFEGSCNRLL
FEAWLQQSLISQLQLGDVIVIDNASFHHGQRIEEIVAEAGCEIWYLPSYSPDLNKIERWWFVLKNWMKQRWDEFDTFRDCVDAAFKERTNIYP

Blast result :

Comments

ISAcma31 is 63% aa similar to ISOt3.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible 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)