ISHarch6

  • Family IS1595
  • Group ISH4
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP002988 ND Halophilic archaeon
Halophilic archaeon DL31
DNA section
IS Length : 944 bp

Ends


IR Length : 22/27

IRL : CGCTCATCTCGATAAACCGTAACACTGAGTTTGCTGGCGACTCAATAGCA
IRR : CGCTCATCCCGATACATTGTAACACAGGAGTTTCTCGAACCAGTCATCTG

Insertion site


Left flankDirect repeatRight flankDR Length
ATTACTCGTATATAGCGTTATGGGAATT8
AAACGGTGGATAGGGCCAAT0
ATACAAAATATATACCGTAA0
CAAACGGTTGATTGAATTTA0

DNA sequence

CGCTCATCTCGATAAACCGTAACACTGAGTTTGCTGGCGACTCAATAGCAGCTAACGATGGACGAGAAGTCAGCTCAGGTCTTCCTTCCACCGCGCGAAC
GATGTTTTGAACGTCTCCGTCTCGCCCGGTTCGGCGAGACGGTGACGTGTGTCCACTGCGAGAGTGACGCCGTTGTCAACCGAGGAACGACCGGCAAAGA
CGCCCAGCAGTACTGGTGCAAGCACTGCGAAACCTACTTCAACGACCTCACAAAGACGATTTTCGGCCAGCATCGCTTTGGTCTCGAAGAGATGTTCTAT
ATCGTCAAGGAGATGCGATCTGAGCCGACCGCTCAGATCGCTCGTGACCTTGATAGAGACTACGAGGCTGTTCTCAACTACGTTCACAAAGTGCAGGACG
TGAGCGGTGATATCGACGAATTCGACCTCTATGGCGTGTGCGAGGCTGACGAGGTCTACGTCACGGCTGGTGAGAAAGGACTCGAAGACGAGAATGAGAG
TCCGCGCGAGCGCGGACTCAAAAAAAGGGGCGAGGAACCTTCGCATCAGACAAACCGCCAGTCTTGACACTCGTCCGTCGGGATGACGGGCGAGTTCAGT
TTCTCGTCTGCGAGAATCTGCAAGAGGCCGACGAGGACATCTCCGAGCACGGCGACGGAAGCGTCATCCTCTGTACCGATGGCTACACGATCTACGAGGA
CATCGAGGAGACGGAGGGGGTGGACGGCCATCTGGCCGTCACCCACTCCGACACCTACGTCATCGGTGACGCCCACACAAACACTTGCGAGAACCGCCAC
AGTTTCCTTCGCCAGTGGCTGGCAAAGTTCCGTGGCGTCTCGAAGCATCACCTCCAAAAATACCTGCGGTTTCTCGCACTGAAACTCAACTCACCAGATG
ACTGGTTCGAGAAACTCCTGTGTTACAATGTATCGGGATGAGCG
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
510 bp169 aa58567+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MDEKSAQVFLPPRERCFERLRLARFGETVTCVHCESDAVVNRGTTGKDAQQYWCKHCETYFNDLTKTIFGQHRFGLEEMFYIVKEMRSEPTAQIARDLDR
DYEAVLNYVHKVQDVSGDIDEFDLYGVCEADEVYVTAGEKGLEDENESPRERGLKKRGEEPSHQTNRQS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
444 bp147 aa498941+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

ESARARTQKKGRGTFASDKPPVLTLVRRDDGRVQFLVCENLQEADEDISEHGDGSVILCTDGYTIYEDIEETEGVDGHLAVTHSDTYVIGDAHTNTCENR
HSFLRQWLAKFRGVSKHHLQKYLRFLALKLNSPDDWFEKLLCYNVSG

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
884 bp294 aa58941+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MDEKSAQVFLPPRERCFERLRLARFGETVTCVHCESDAVVNRGTTGKDAQQYWCKHCETYFNDLTKTIFGQHRFGLEEMFYIVKEMRSEPTAQIARDLDR
DYEAVLNYVHKVQDVSGDIDEFDLYGVCEADEVYVTAGEKGLEDENESPRERGLKKKGRGTFASDKPPVLTLVRRDDGRVQFLVCENLQEADEDISEHGD
GSVILCTDGYTIYEDIEETEGVDGHLAVTHSDTYVIGDAHTNTCENRHSFLRQWLAKFRGVSKHHLQKYLRFLALKLNSPDDWFEKLLCYNVSG

 

Blast result :
Comments
ISHarch6 is 53% aa similar to ISNagr10.

The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Pfeiffer F. (2015 Direct submission
2] Lucas,S., Han,J., Lapidus,A., Cheng,J.-F., Goodwin,L., Pitluck,S., Peters,L., Mikhailova,N., Teshima,H., Detter,J.C., Han,C., Tapia,R., Land,M., Hauser,L., Kyrpides,N., Ivanova,N., Pagani,I., Dyall-Smith,M., Cavicchioli,R. and Woyke,T. (2011) Direct submission to GenBank