ISfinder Mirror Site

ISAcma3

Family IS1
Group ISMhu11

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 pREB1

DNA section

IS Length : 904 bp

Ends

IR Length : 21/25

IRL : GGTCGTGCATCAAAGAAGTGTGGGTTTGTTAAACCGATAGGGAGTCGAGT
IRR : GGATTGTGCATCAACAAAGTGTGGGATAGGAAGCTAAGTCTTGCCATCTC

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ACAAATGCC	AATCATT	ACCGTTTA	7
GACCTTGACC	GATTCGTT	GGTTGTGGCA	8
AGCATAGGAC	TCGCTACCTT	CTTGGGCATG	10
GTCACAGCG	AATGTCT	GATACCCAT	7
CTAGAATTAG		GACGCGACTT	0
AAGCCAAACA	CT	TAATTGAGCT	2
CATGCCCAAG	AAGGTAGCGA	GTCCTATGCT	10
GCTTTGAATG	CCAGTGC	GACCTCATAA	7
ACGTTTGGTG		AATATTCTTG	0

DNA sequence

GGTCGTGCATCAAAGAAGTGTGGGTTTGTTAAACCGATAGGGAGTCGAGTTGTTTTATTTCCTCATGCAATGTCCTCTATGTGGTCATCCTAAAACCCAC
AAACATGGCAAGACCAGCAAAGGCAGTCAACGTTACCGTTGCCCCCACTGTCAACAGACCTTTAGTGAGACCTTTGACACCCTGTGTTATCGCCGTCAGA
TCTCTCCTGAAACGATCCAGACCATCCTTCAAGCTCATGTTGAAGGGAGTAGTCTACGAGGACTCTCTCGCATCACGGGTGTAGCGTATAACACTTGTGT
GAGTGTGGTTCGTTCAGCGAGTCATAAATCCCAAATGATTCACAATGGGGAAGTTCAGGCCGTTGCGACCGACGTCATTAATGCAGATGAGTTGTGGTCC
TTTGTCAAAAAAAGCAAAAGCACTGTGAGCCGAAGGAGTTGAGGGTAGGCGACTGCTGGATAGCATTGAGTCTTGCGAAAGAGAGTGGTCTCGTGCTCAG
TGGCCGTATTGGCAAACATACCGACGAGCTAGCTCAAGAATTGATTGAAAATACTGAGGGCAAAACCGCCTGTCATCATTGGCAAACGGATGGTTGGGAA
GGGTACGCACGACAATTACCCGATGAGGTCGTCCATGAAGTGAGTAAAGCCCTGACCCAACGCTTAGAGCGGACCAATGGCATCGTGCGTCAGCAGACCG
GGCGTTGGCATCGACGACAGAATAAATTTGGCAAAGTCTGGCAACAGAGTGCGATGACTTTAAGATTGGTGCTGAGCTATTTCAACTGGATTTGGTGCCA
CTCTCGATTCAAGAACACGGCTGCCCAACGAGCTGGATTGACGGAGCGTCCTTGGAGATGGCAAGACTTAGCTTCCTATCCCACACTTTGTTGATGCACA
ATCC

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
393 bp	130 aa	50	442	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MFYFLMQCPLCGHPKTHKHGKTSKGSQRYRCPHCQQTFSETFDTLCYRRQISPETIQTILQAHVEGSSLRGLSRITGVAYNTCVSVVRSASHKSQMIHNG
EVQAVATDVINADELWSFVKKSKSTVSRRS

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
504 bp	167 aa	391	894	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VVVLCQKKQKHCEPKELRVGDCWIALSLAKESGLVLSGRIGKHTDELAQELIENTEGKTACHHWQTDGWEGYARQLPDEVVHEVSKALTQRLERTNGIVR
QQTGRWHRRQNKFGKVWQQSAMTLRLVLSYFNWIWCHSRFKNTAAQRAGLTERPWRWQDLASYPTLC

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
845 bp	280 aa	50	894	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MFYFLMQCPLCGHPKTHKHGKTSKGSQRYRCPHCQQTFSETFDTLCYRRQISPETIQTILQAHVEGSSLRGLSRITGVAYNTCVSVVRSASHKSQMIHNG
EVQAVATDVINADELWSFVKKQKHCEPKELRVGDCWIALSLAKESGLVLSGRIGKHTDELAQELIENTEGKTACHHWQTDGWEGYARQLPDEVVHEVSKA
LTQRLERTNGIVRQQTGRWHRRQNKFGKVWQQSAMTLRLVLSYFNWIWCHSRFKNTAAQRAGLTERPWRWQDLASYPTLC

Blast result :

Comments

ISAcma3 is 44% aa similar to ISDge2.

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. In press.