ISfinder Mirror Site

ISAcma40

Family IS1
Group

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

Accession number	Transposition	Origin	Host
NC_009925	ND	Acaryochloris marina	Acaryochloris marina MBIC11017 plasmid pREB3 Acaryochloris marina MBIC11017 plasmid pREB4 Acaryochloris marina MBIC11017

DNA section

IS Length : 1068 bp

Ends

IR Length : 22/23

IRL : GGCACTGTTCATTTAAGAAGTGACTGCTAGGATGATTCTGCAGTATCAGT
IRR : GGCACTGTTCAGTTAAGAAGTGAGGCATTTAAAAGCTCTGACTGCCAACA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
AATTATCTCA		ATTATATCAA	0
AGGCGAAGGT	GATGGCTG	CGGAGGAGCT	8
CTGAAGATGA	GCATGCAAA	ATCCTGTTGA	9

DNA sequence

GGCACTGTTCATTTAAGAAGTGACTGCTAGGATGATTCTGCAGTATCAGTTTCAGAGCAATGCAATGTATCCATTGTCAAAGCGAGAATGTTGTTAAGAA
TGGAACTAAGACGCTGAAAACAGCTCAAGTGGTTCAGTACTTTCTGTGCAAAGACTGTGGTCGTCGCTTCAACGAGCGTAGTGGGACGCCGATGGCGAGA
TTGAGAACGCCAGTAGAGACGATATCAATGGCCATCAATGCCCGCACTGAAGGTCTAGGGATTAGAGCCGCAGGGAGAGTACTTGGGAAATCTCCCACCA
GTATTCTCCTTTGGGAGAAGCGTTTATCCGCACAATTATCAAATTTCTCTCCTCCTTCTCCAAAAGAAGCTGAGGTCACAATTGAAGGAGATGAAGTGTA
CACCCGCGTGGGTAACAATCTTCCCCCCCTGGCTCAGTGAAGGTTGGACTATTCATTTCATCGACCGTGAGAGTCGCTATTGGTTCGAGGCTCGCGCGGG
TCTTAAGGATGAATCATTATTTGAGAAAAGTGTCAAAGCTGCTTGGGATTGGGCTAAACCCAGTTCATCGATTCGTTGGTTCACAGGTGGAGAACGTCGA
TACTCCAAGGTATTATGGAAGCTAGCGAGTGCCTACTTGCCTAGGAGTACCACGACTCAGGCCTATCCTTTCCGCAAAGTATGGCGAGCGGGTTTAGAGG
TGGCAATGAAGATCAAAGGATCTCAAGGAAAACCTCGGGTAATGTGGGTTAATCGAGAGCATCCTTATACGGCCATTAGCCCCAAGAGCGATGTCCATGC
CAATCATCTTGAAGCCCTCCACAGTTCTTTAAGACGACGGGCTAGCGGTTATCGTAGACGCCAGAATCACTATGCCAAAACCGTTGAGGGATTACAAAGA
GCGCTGAATGTGCAGCGATTGATTCACAATTGGTGTCGTGCTCACTACAGCCATGGATACCAGCGAACCCCAGCAATGGTGATGGGATTTATCCAAAGGC
CCGTTAAGATTGGCGAAGTGTTGGCAGTCAGAGCTTTTAAATGCCTCACTTCTTAACTGAACAGTGCC

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
381 bp	126 aa	60	440	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MQCIHCQSENVVKNGTKTLKTAQVVQYFLCKDCGRRFNERSGTPMARLRTPVETISMAINARTEGLGIRAAGRVLGKSPTSILLWEKRLSAQLSNFSPPS
PKEAEVTIEGDEVYTRVGNNLPPLAQ

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
798 bp	265 aa	259	1056	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GLEPQGEYLGNLPPVFSFGRSVYPHNYQISLLLLQKKLRSQLKEMKCTPAWVTIFPPWLSEGWTIHFIDRESRYWFEARAGLKDESLFEKSVKAAWDWAK
PSSSIRWFTGGERRYSKVLWKLASAYLPRSTTTQAYPFRKVWRAGLEVAMKIKGSQGKPRVMWVNREHPYTAISPKSDVHANHLEALHSSLRRRASGYRR
RQNHYAKTVEGLQRALNVQRLIHNWCRAHYSHGYQRTPAMVMGFIQRPVKIGEVLAVRAFKCLTS

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
997 bp	331 aa	60	1056	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MQCIHCQSENVVKNGTKTLKTAQVVQYFLCKDCGRRFNERSGTPMARLRTPVETISMAINARTEGLGIRAAGRVLGKSPTSILLWEKRLSAQLSNFSPPS
PKEAEVTIEGDEVYTRVGNNLPPWLSEGWTIHFIDRESRYWFEARAGLKDESLFEKSVKAAWDWAKPSSSIRWFTGGERRYSKVLWKLASAYLPRSTTTQ
AYPFRKVWRAGLEVAMKIKGSQGKPRVMWVNREHPYTAISPKSDVHANHLEALHSSLRRRASGYRRRQNHYAKTVEGLQRALNVQRLIHNWCRAHYSHGY
QRTPAMVMGFIQRPVKIGEVLAVRAFKCLTS

Blast result :

Comments

ISAcma40 is 72% aa similar to ISAcma36.
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)