ISfinder Mirror Site

ISAcma36

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 Acaryochloris marina MBIC11017 plasmid pREB9

DNA section

IS Length : 1069 bp

Ends

IR Length : 17/20

IRL : GGCACTGGTCTGTTAGCAGGATCTAGCTATAATGCCTTCGACGGAACCTG
IRR : GGCACTGGTCTACTAACAGGGCACATACCTAAACCCTTTATTGGTGAGGA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ATTTGACGATG		GGCGTTTCAGT	0
CATCTGCTGGG	AATTGAAT	CTAGCAGTTT	8
AGAGAAAAATA		TCTCGCCCACT	0
TCCAGCAATCA		CGCACTCATCC	0

DNA sequence

GGCACTGGTCTGTTAGCAGGATCTAGCTATAATGCCTTCGACGGAACCTGATGTAGATCAATGGAATGCCCATACTGTCAAAGTGAGAAGATCCTTAAGC
GTGGCTTTGATAGTCTGCAAGATGGGACATTAGTCCAGCGATATCAGTGTAAGGATTGCAATCGTCGTTTCAACGAACGCACAGGCACCCCAATGGCTCG
TTTACGCACCGCTAGTTCAGTGGTGAGCTATGCCATCAAAGCTCGCACCGAAGGAATGGGGGTCCGTTCAGCAGGTCGTACCTTTGGTAAATCTCATACC
ACCATTATGCGTTGGGAAAAACGCCTAGCAGACCAAGCACAGAACTGGTCACCCCCCGCACCAGCAGCCTCTGATGTGACGGTAGAAGGGGATGAAGTAT
ACACTCGTGTAGGCAAAAATCTTCCCCCCCAGCCAGTCCAAGGGCTGGACCATCCACTTCCTTGAACGCGAAAGCCGCTATTGGTTGACAGCACTAGCTG
GCCTCAAGGATGCACAACTTTTTGCAAATGGCGTTTACTCAGCTTGGGAGTGGGTGAAAGCCTGTGATGGGATTCGATGGTTTACCGATGGTGAAAGGCG
TTATGGACAAGAACTTTGGAAGCTTGCCAGTGTCTATCTCAAAGGTGATGAGTGTCATCCTGACTATGGGCATCGCAAGGTTTGGCGAGAAGGGTTAGAA
GTCGTGATGAAAGTTAAAGGGTCTCAGGGGAATCGGCGAGTAGAGTGGGTGAAAACAGAGCATCCCTTTACCGCTATCAGTCCAAGGTCTGAGATCCATG
CCAATCATAATGAGGCTCACAATGCTGCCTTGAGGAGACGATGTAGTGCTTATCGAAGGCGGCAGAATCTCTACGCTAAGAAGCGGTTGGGGTTACAGCG
AGTGCTAGACGTACAACGCCTGATTCATAACTGGGTTAGACCCCATTGGGGACTCAGTAAGCAGACCACACCAGCCATGGAGATGGGATTTTGTTCTCGC
CCACTGAGTACTTTAGAACTCCTCACCAATAAAGGGTTTAGGTATGTGCCCTGTTAGTAGACCAGTGCC

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
405 bp	134 aa	61	465	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MECPYCQSEKILKRGFDSLQDGTLVQRYQCKDCNRRFNERTGTPMARLRTASSVVSYAIKARTEGMGVRSAGRTFGKSHTTIMRWEKRLADQAQNWSPPA
PAASDVTVEGDEVYTRVGKNLPPQPVQGLDHPLP

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
645 bp	214 aa	413	1057	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

AKIFPPSQSKGWTIHFLERESRYWLTALAGLKDAQLFANGVYSAWEWVKACDGIRWFTDGERRYGQELWKLASVYLKGDECHPDYGHRKVWREGLEVVMK
VKGSQGNRRVEWVKTEHPFTAISPRSEIHANHNEAHNAALRRRCSAYRRRQNLYAKKRLGLQRVLDVQRLIHNWVRPHWGLSKQTTPAMEMGFCSRPLST
LELLTNKGFRYVPC

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
997 bp	331 aa	61	1057	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MECPYCQSEKILKRGFDSLQDGTLVQRYQCKDCNRRFNERTGTPMARLRTASSVVSYAIKARTEGMGVRSAGRTFGKSHTTIMRWEKRLADQAQNWSPPA
PAASDVTVEGDEVYTRVGKNLPPSQSKGWTIHFLERESRYWLTALAGLKDAQLFANGVYSAWEWVKACDGIRWFTDGERRYGQELWKLASVYLKGDECHP
DYGHRKVWREGLEVVMKVKGSQGNRRVEWVKTEHPFTAISPRSEIHANHNEAHNAALRRRCSAYRRRQNLYAKKRLGLQRVLDVQRLIHNWVRPHWGLSK
QTTPAMEMGFCSRPLSTLELLTNKGFRYVPC

Blast result :

Comments

ISAcma36 is 55% aa similar to ISArch17.
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)