ISfinder Mirror Site

ISAcma29

Family IS630
Group

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

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

DNA section

IS Length : 1210 bp

Ends

IR Length : 19/29

IRL : GTGTTCAGTCAAGAAAAGACTGACAGGTATATTTTCTAGAATGAAATGGA
IRR : GTATTCCGTCAAAGATTTATTGATGGGTAAAGTCTGTGTAATTTGACCCT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
CGAATTGTGCAAGAGGTC	TA	GTAGGTAATACGCAACTT	2
ATGGGCTTGCATTTAACC	TA	GACCTACAAATGAATGCT	2
TATTTTGAGTCACATCCC	TA	GACTGCATTGCCCCAAAG	2
CCCCATCATTCTGAAAAC	TA	GCTTGTCTCTTGCAAGGA	2
CTCAAGCTGATGCTGGGC	TA	GTCAAAGTCCTCCCGTTG	2

DNA sequence

GTGTTCAGTCAAGAAAAGACTGACAGGTATATTTTCTAGAATGAAATGGACGCATTCTAGGAGAACGTCATGGGTAAACGGTACATCGTCACTCTGAGTG
AGCCAGAGCAACAGTATCTCAAGAATTTCACGTTCACGGGAAAACGAGGTGCTCGGCAAATCAATCATGCCCGCATTCTTCTGAAAGCGGATACTAACCA
AACTCATGGTGGTTGCTGTGATCGAGAAATTCATGAAGCGATAGGTGTCAGCATACGCACAATTGAGCGGGTGCGTATGCGATTTGTGGAAGAAGGCCTT
GAAGCTGCTATCAATCAACGTTCTGGGGCAGGTCGAAAGCGAAAAATACAAGGAGAACAAGAAGCTCATCTGATTGCCTTACGCTGCAGTGAACCCCCCG
TTGGTCATGCTCGCTGGACATTACGCTTACTCGCAGACCAGATGGTGGAATTAGGCTACATCGACCACCTCAGTCATGAGAGTGTCCGACAAACTCTAAA
AAAAACGAGTTGCAGCCTTGGCGAAAGACCTGTTGGGTCATCCCCCCACAGCAGAATGCAGAATTTGTCTGGCGAATGGAGGAGCTCTTAACGGTTTATG
AGCGTCCTTATGACTTGAGGAATCCTTTGATTTGTCTGGATGAAGCCACCAAGCAATTGGTTGAGGAAATCACTCTACCCATCGCGGCTCAACGTGGTCA
ACCCGAACGTGTTGACTATGAGTATGAACGTAAGGGCACAGCCAATCTCTTTATGTTGTGTGAGCCAATAGTAGGCACGCGATATGTGAAAGTAACTCAA
CGACGAACTGCCATTGACTATGCTCATCTACTCAAAGAATTAGTGGATGTGTTTTACCCTGAGGCCCACACCCTCACGCTGGTTCAAGACAATCTCAATA
TTCACTCCCCCTCCTCACTCTACAAAGCTTTTGAACCTGAAGAAGCCAGGAGACTTTTATCTCGGTTCGAATTTTTCTACACCCCCAAACATGGAAGCTG
GCTCAATATGGCTGAGATTGAATTAAGTATCCTGTCTCGTCAATGTTTAGATCAACGCATTGCTGATTTTCCAACCTTACAAAAGCATGTGAGGGCTTGG
AATGAGCACCGAAACCAAAAGGGAACATGGATTGACTGGCGGTTCACGACGCAAGATGCCAGGGTCAAATTACACAGACTTTACCCATCAATAAATCTTT
GACGGAATAC

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
522 bp	173 aa	70	591	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MGKRYIVTLSEPEQQYLKNFTFTGKRGARQINHARILLKADTNQTHGGCCDREIHEAIGVSIRTIERVRMRFVEEGLEAAINQRSGAGRKRKIQEEQEAH
LIALRCSEPPVGHARWTLRLLADQMVELGYIDHLSHESVRQTLKKTSCSLGERPVGSSPHSRMQNLSGGWRSS

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
723 bp	240 aa	480	1202	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

ECPTNSKKNELQPWRKTCWVIPPQQNAEFVWRMEELLTVYERPYDLRNPLICLDEATKQLVEEITLPIAAQRGQPERVDYEYERKGTANLFMLCEPIVGT
RYVKVTQRRTAIDYAHLLKELVDVFYPEAHTLTLVQDNLNIHSPSSLYKAFEPEEARRLLSRFEFFYTPKHGSWLNMAEIELSILSRQCLDQRIADFPTL
QKHVRAWNEHRNQKGTWIDWRFTTQDARVKLHRLYPSINL

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1133 bp	377 aa	69	1201	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MGKRYIVTLSEPEQQYLKNFTFTGKRGARQINHARILLKADTNQTHGGCCDREIHEAIGVSIRTIERVRMRFVEEGLEAAINQRSGAGRKRKIQEEQEAH
LIALRCSEPPVGHARWTLRLLADQMVELGYIDHLSHESVRQTLKKNELQPWRKTCWVIPPQQNAEFVWRMEELLTVYERPYDLRNPLICLDEATKQLVEE
ITLPIAAQRGQPERVDYEYERKGTANLFMLCEPIVGTRYVKVTQRRTAIDYAHLLKELVDVFYPEAHTLTLVQDNLNIHSPSSLYKAFEPEEARRLLSRF
EFFYTPKHGSWLNMAEIELSILSRQCLDQRIADFPTLQKHVRAWNEHRNQKGTWIDWRFTTQDARVKLHRLYPSINL

Blast result :

Comments

ISAcma29 is 71% aa similar to ISSac1.
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)