ISAcma3

  • Family IS1
  • Group ISMhu11
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
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 flankDirect repeatRight flankDR Length
ACAAATGCCAATCATTACCGTTTA7
GACCTTGACCGATTCGTTGGTTGTGGCA8
AGCATAGGACTCGCTACCTTCTTGGGCATG10
GTCACAGCGAATGTCTGATACCCAT7
CTAGAATTAGGACGCGACTT0
AAGCCAAACACTTAATTGAGCT2
CATGCCCAAGAAGGTAGCGAGTCCTATGCT10
GCTTTGAATGCCAGTGCGACCTCATAA7
ACGTTTGGTGAATATTCTTG0

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
LengthBeginEndStrandFusion ORF
393 bp130 aa50442+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MFYFLMQCPLCGHPKTHKHGKTSKGSQRYRCPHCQQTFSETFDTLCYRRQISPETIQTILQAHVEGSSLRGLSRITGVAYNTCVSVVRSASHKSQMIHNG
EVQAVATDVINADELWSFVKKSKSTVSRRS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
504 bp167 aa391894+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VVVLCQKKQKHCEPKELRVGDCWIALSLAKESGLVLSGRIGKHTDELAQELIENTEGKTACHHWQTDGWEGYARQLPDEVVHEVSKALTQRLERTNGIVR
QQTGRWHRRQNKFGKVWQQSAMTLRLVLSYFNWIWCHSRFKNTAAQRAGLTERPWRWQDLASYPTLC

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
845 bp280 aa50894+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.