ISfinder Mirror Site

ISMic1

Family ISKra4
Group ISMich2

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

Accession number	Transposition	Origin	Host
NC_019738	ND	Microcoleus	Microcoleus sp. PCC 7113 plasmid pMIC7113.04 sp. PCC 7113 Microcoleus

DNA section

IS Length : 1773 bp

Ends

IR Length : 22/24

IRL : GGGAGCATCCCAATTTTGCAAGAAGGCAAGAGAACGGGAAGTTTATTCGC
IRR : GGGAGCATCCCAATTGTGCAAAAATAAAGGGACAGCCATTATTCGCGAGT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TACTGTCCCT	ATCAGCTA	TCACTAAACT	8
TGCCTGTTCC		AACTCGAAGA	0
TTAATGGGCG	ATCGGCTT	TGATGCGATT	8
CACAAGCTTC	CTCTAATA	GATGAGTTCC	8
ACTCTAGAGA	GTTTTTTC	TGAAAAAGGC	8
GAATTAGTAA	TAATACCCC	ACTGTACCGT	9
AACTTATGCT	GATGAGCT	TCGGCATTTT	8
CTCTCTTAAG		GACACATGAG	0
CCTCCAATCT	ATCTTCTA	TGAGTTTCTA	8
AAAGAGGGCG	ATACAGAA	CCCTTTCGCG	8

DNA sequence

GGGAGCATCCCAATTTTGCAAGAAGGCAAGAGAACGGGAAGTTTATTCGCGATTTTTACTCGCGAATAAAGGCCGACTAGGCGGATGTTGCCCTAACTGC
GACAATTTAATTAGTTAGGGAGCCTCTTTATGACAATGACACCAGAAGACAAAAAACTTTTAGCCGACCATATCAAGGCGATAGCTAAAATTCTCTATAA
AAATACTCCACAAGAGAAAATTGAGACGTTAGAGGGTATTGAAACAGCGGTGCGCGACCAAGTGCTAGAACATGTCAGCCCCCAAATAACCTTTTTTTTA
TCGGAGAAAAGACGGGAACAGAATCGGGACGCATCCGAACGATAAGAAGTTGTGTGGGTCGGATAAAAATCACTCAAAAACAAGCGTCACGTTTAGGAAT
TGAGCCGTATCGACGGTTAAGTCCTCTTCTGGAAAAATGCTGTTTATTACTTGCAGCAAATGAATCATTTCAAGATGCAGAGAATGACCTGAAAGTCTTG
ACCGGGGTAGAAGTAGGTCACAGCACTCATCATCGCCAAGCCCAGAAAGTAGAGCTATCGCCACCTAATATTAAACAAAAACTGACAGAAGTTTGTCTCG
ATGGTGGGAAAGTGCGTTTACGCTCACAGGAAAAAGGTAAACCCGCCTACTGGAAGGAGTATAAAACCGGACGACTACAAGGAATATATTACGGAGCCTT
CTTTCAAGATAATTTTTCTCTAATTAATTGGGTGAACAGCCAAAACCTGGCTCGAACCATTTATTGCTTGGGTGATGGACACGATGGGGTGTGGAACCTA
TTTGCACAAATAGCCGACGACCAGACCCGACAAGAAATTCTTGACTGGTATCATTTGAAAGAGAACCTCTATAAAATTCAGGCATCGAAAAAGTTTTTAG
AACAAATCGAAGCAGATTTGTGGCAAGGAGTGGTCGAAGAAGCGATTAGTAAACTCCGGAAAACTAACTATGTCGGGGCTACTAACTTTATAAGTTATCT
ACGTAAACATAGGCATCGCTTAGTCAATTATATGTACTTTCAAGCCGAACAATTAAGTTCGATTGCTTCGGGAGCTGTAGAGTCTGCGGTCAAACAGATA
GACAAGCGGCTACAAATAGTCGGCGCTCAATGGAAGTCCCAAAATTTACCGCAAATGCTGCAACTGCGGTGCGCTTATCTGAATCGACAGCTTGCTCCAA
GCGCTTAAAAAACCCAAAAACAGTATGAAAAGAAGCACGCTGCTTTTTTTCGCGAGTTACAATCGCGAATAATTAGGATTTATCTTTATGCCTCGAAAGA
CTTCCAAGGATATTGAGCGAGATAAACTCGCTCGATTTGAGCGTATTAAAAAGGCGATAGCAGCGTTAGAAAAACAACAAAGACAAATATTAAAACAGGG
TGAGCTGGCTCCATCCGGGGCTTGGGTAGCGCGTTATCAAGTTCGGCAAAATAATAAGAAATATTGGTACTACAAATTACAAGTGCCGACTCCATACTTC
CCATGCGCGACCTCCGAAGAGTTGAGTAAATACAAGCATCTGGGGAAAGCTGGTACTACTGACCATATAGATGCTGTCATGTCTGTTTTTAGGCGTTCTG
TTATCGATGAGATACAGAAGCTCATCCGTTCCCTAGATGATTGCTTGCTGGATATTACTTCTGGAGCCGAGCAGGAGGAAGAAAAACCGCAGGATTGAAT
CTCCCGAAGTATTCGCGATTATTACTCGCGAATAATGGCTGTCCCTTTATTTTTGCACAATTGGGATGCTCCC

Recoding section

Recoding by frameshift
Frame
Type
Experimentally demonstrated

Stimulators :

Shine-Dalgarno sequence :
Secondary structure :

Recoding motif :

Protein section

ORF number : 4

ORF 1

Length		Begin	End	Strand	Fusion ORF
216 bp	71 aa	130	345	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTMTPEDKKLLADHIKAIAKILYKNTPQEKIETLEGIETAVRDQVLEHVSPQITFFLSEKRREQNRDASER

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
966 bp	321 aa	243	1208	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

NSGARPSARTCQPPNNLFFIGEKTGTESGRIRTIRSCVGRIKITQKQASRLGIEPYRRLSPLLEKCCLLLAANESFQDAENDLKVLTGVEVGHSTHHRQA
QKVELSPPNIKQKLTEVCLDGGKVRLRSQEKGKPAYWKEYKTGRLQGIYYGAFFQDNFSLINWVNSQNLARTIYCLGDGHDGVWNLFAQIADDQTRQEIL
DWYHLKENLYKIQASKKFLEQIEADLWQGVVEEAISKLRKTNYVGATNFISYLRKHRHRLVNYMYFQAEQLSSIASGAVESAVKQIDKRLQIVGAQWKSQ
NLPQMLQLRCAYLNRQLAPSA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1079 bp	358 aa	130	1208	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTMTPEDKKLLADHIKAIAKILYKNTPQEKIETLEGIETAVRDQVLEHVSPQITFFIGEKTGTESGRIRTIRSCVGRIKITQKQASRLGIEPYRRLSPLL
EKCCLLLAANESFQDAENDLKVLTGVEVGHSTHHRQAQKVELSPPNIKQKLTEVCLDGGKVRLRSQEKGKPAYWKEYKTGRLQGIYYGAFFQDNFSLINW
VNSQNLARTIYCLGDGHDGVWNLFAQIADDQTRQEILDWYHLKENLYKIQASKKFLEQIEADLWQGVVEEAISKLRKTNYVGATNFISYLRKHRHRLVNY
MYFQAEQLSSIASGAVESAVKQIDKRLQIVGAQWKSQNLPQMLQLRCAYLNRQLAPSA

Blast result :

ORF 4

Length		Begin	End	Strand	Fusion ORF
411 bp	136 aa	1288	1698	+	No

ORF function : Passenger Gene
Annotation : Hypothetical proteinDescription :

ORF sequence :

MPRKTSKDIERDKLARFERIKKAIAALEKQQRQILKQGELAPSGAWVARYQVRQNNKKYWYYKLQVPTPYFPCATSEELSKYKHLGKAGTTDHIDAVMSV
FRRSVIDEIQKLIRSLDDCLLDITSGAEQEEEKPQD

Blast result :

Comments

ISMic1 is 67% aa (ORFAB : the transposase) similar to ISOni1.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
ORF4 is a passenger gene annotated as hypothetical protein.

References

1] ISfinder annotation (2013)
2] Gugger,M., Coursin,T., Rippka,R., Tandeau De Marsac,N., Huntemann,M., Wei,C.-L., Han,J., Detter,J.C., Han,C., Tapia,R., Chen,A., Kyrpides,N., Mavromatis,K., Markowitz,V., Szeto,E., Ivanova,N., Pagani,I., Pati,A., Goodwin,L., Nordberg,H.P., Cantor,M.N., Hua,S.X., Woyke,T. and Kerfeld,C.A. (2012) Direct submission GenBank.