ISLxc1

  • Family IS21
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
QD191803 ND Leifsonia xyli
Leifsonia xyli subsp. cynodontis
DNA section
IS Length : 2630 bp

Ends


IR Length : 37/50

IRL : TGTCTGTGTCACTGTTAGCGGGCTCCGGGTTGTCGGAGTTGTCTGGCCCC
IRR : TGACTATGTCAAGGCTGGCGGGGATCGGGTTGTCGAAGTTAGTTGGCCCC

Insertion site


Left flankDirect repeatRight flankDR Length
GCTGGCGATCGCCCGGCTCC6

DNA sequence

TGTCTGTGTCACTGTTAGCGGGCTCCGGGTTGTCGGAGTTGTCTGGCCCCGGCGGCGACTTGCCGGGCTGGTTGTGTCGAAGCTAAGAGGTGGTTTCAGT
AGTCGGCGTGGCGGTGGTTGTTGTGGCTGGTTAGCGGGGATGCTGGTCGAGTGTCGACGCTTGCTGAGGATCGGTTCATTACGGATATGTTGTGGGAGCG
GCTGGAGCCGTTGATTCCGCCTCGGCCGCCTGTGGTCAATGGGCGGGCTGGGCAGCCTCGGGTTCCTGACCGGAAGGTGTTCGCTGGGATCGTGTTCGTG
CTGCTGACGGGGATCCCGTGGAGAAGCTCCCGCCCGAGTTGGGGTATGGGTCCGGGGTCACTTGTTGGCGGCGTCTGCGTGAATGGTCCGAAGCGGGCGC
GTGGGATGCACTGCGGAAGATCATGCTCGACGAACTCGGCCAGGCTGGCATGATCGACTGGTCAAGAACCTGCCTGGACTCCGTAAGTGTCCGGGCGAAA
AGGGGGGGCGATCTCACTGGACCTAACCCCACGGATCGTGGGAAACGGGGCACCAAGTACCATGTCCTGACCGACCGCAACGGACTCCCGCTGCATGTGG
AGATCTCCGGCGCCAACCGACACGACTCCATGCTCGTGGAACCTGTGTTAGACAACATCACCGCGATCAAGGGCGTCGGCCGCGGTCGGCCCAGACGCCG
CCCGGTTATCTTCCACGCCGATAAGGCTTACGACAACCGCCGCGTCCGCTGTTACCTGCGTTGTCGTGGGATCAAGGCACGCATCGCACGAATCGGAGTC
GACTCCAAACAGTGACTGGGTAAACACTGTTGGGTAGTCGAACGCACCATGGCCTGGATCCTCGCCTTCCGGAAACTCGCCACTCGCTACGACCGCACCG
CCTCAACGATCACGGCGCTCGTCGCTCTAGCAATCGCGATCACCAGCGCCCGCAAACTCACCAAAAACGACTACTGAAACCATCTCTAAGTGGCCCCACC
TGAGTGTGGTTCCCGTCTGTTACTTCAGGATGGGAGGGCCCGGGTTGGGGTCGAGGTTGGATCAGTTCGCTGTGATCAGGAGAGATGCCCGGGTGGAGGG
TCTCTCTATTCGTGAGCTTGCTGTTCGTCATGGTGTTCACCGGCGGACGGTTCGTCAGGCTTTGGAGTCAGCGACGCCACCGTCGCGGAAGCCGAGAGTT
CAGTCGTCGCCGAAGCTGGATCTGGTTCGCGAGCTGATCGACGCGATTCTGCGTCAGGATCTCGGGGCGCCGAAGAAGCAGAAGCAGACGGCGACACGGA
CCTGGAAACGTCTCCTCGATGAGCACCAGGTCGATGTCTCCTACGGCACGGTCCGTGACTATGTGCGCTCCCGGCGCCCGCAGATCGACGCGGAGGCTGG
TCGTCTGCCGGAGGTGTTCGTCCCGCAGGAGCATGCTCCGGGGGCGGAGGCGGAGGTCGATTTCGGTGAGGTCTGGGTGATCCTGGCCGGGGTGAAGACC
AAGTGCCACATGTTCACTTTTCGGCTCTCGTACTCGGGGAAGGCGATTCACCGGGTCTACTCGACGCAGTCGCAAGAGGCGTTCCTGGAAGGCCACATCG
ACGCGTTCGAGGAGATTGGCGGGATGCCGACCCTTCACATCAAATACGACAACTTGGCCGCCGCGGTGAAGTCCGTGGTCAACGGCAAGGACCGCAAACG
GGTCGAGAATGACCGTTGGGTCCTGTTCCGTTCCCACTACGGATTCGACGCGTTCTACTGCCAGCCCGGCATTGACGGTGCGCACGAGAAGGGCGGCGTT
GAGGGCGAGGTCGGCCGGTTCCGCCGCACGTGGCTCTCACCCATGCCCGAAGTCGACTCCCTCGCGCAACTGAACGCGATGATCCGCCGCTGGGATGCCC
GTGACGAGCAGCGCCGGATCGCGCAGCGCCGAACCAAGGTCGAGGACGACTTCGCTACAGAACGCCCGCTCCTTCGGCCGCTGCCGGCGGAGCGATTTGA
TCCGGGACTGGTGCTGCATCCTCGGGTCGACCGGTCCGGGCTGATCACGGTCCGGATGGCGAAATACTCTGTCCCTGCCCGGCTCATCGGCCGTGAAGTC
CGCGTCTCTCCGCGCTTCCGAGGTCGTCGTCTTCGACGGGCGCGTTGAAGTCGCCCGGCACGAACGCGTGGTCGCCCGCGGAGGCGAGTCGATCCAGCTG
GATCACTACCTCGAGGTCCTCCGGCACAAGCCCGGCGCGTTCCCCGGCTCGACAGCACTTGCACGCGCCCGGGAGGCGGGAACCTTCACCGCCGCCCATG
AAGCGTTCTGGCAGGAGGCAAGGAAAGTCAATGGCGACACGGCCGGCACCAGAGAGCTCGTCGACGTGCTCCTGCTCCATCGCAGCATGCGCGCAGCCGA
CGTGATCGCCGGGATCCGCGCGGCACTCTCGGTCGGGGCCATCTCCGCTGACGTCGTCGCGGTTGAAGCACGACTGTACGCAGGTGGGGCCATCCAACAC
CGACAGCCCGTTGAACAACGCCCCGATCGCGAGCGACGAGTTGTCAGTCTCACCCAGCGCCGGCTCCGGGATCCGCAGGCTGTCATCGCCGGCCTGCCAC
AGGACAAACGCCCGCTCCCGACCGTCACCCAATACGACGAACTCCTCCAGCGCCGCCCCGTCTTCACCGACCCCACCACCGATGAGAGAGAAGGAACCAC
CGACACATGAGCCCAACCACCACGAACATCACCACCACCCTCCGCCGGCAACGCGGGATGACCCAGGAAGCCGCCGCGGCCGCCGTCGACCAAGCCTGCA
GACGCCTGCGACTACCGACCATTCGCGCCGTGATGGACGAAGCGATCCGGGTCGCCGAGCACGAGCAGCTGTCCTACCAAGGCTTCCTCGCCGAAGTGCT
GTTGGCCGAGTGCGACGACCGCGACCGCCGCTCCACCGTCCGCCGCGTCGCCTCCGCCGGCTTCCCACGTCAGAAATGGCTCGGCGACTTCGACTTCGAC
ACCAACCCGAACATCAACGCGGCGACCATCCACACGCTCGCCACCGGCGACTGGGTCAGACGCGGCGACCCGCTCTGCCTCATCGGGGACTCCGGCACCG
GCAAGAGCCACCTCCTCATCGGCCTCGGCACCGCCGCAGCCGAGAAGGGCTACCGAGTCAAATACACCCTCGCGACCAAGCTCGTGAACGAACTCGTCGA
AGCAGCAGATGAGAAGCAGTTGGCCCGCACGATCGCTCGCTACGGCCGCGTCGATCTGCTCTGCATCGACGAGCTCGGCTACATGGAACTCGACCGACGC
GGCGCCGAGCTCCTCTTCCAAGTCCTCACCGAACGCGAAGAGAAGAACTCCGTCGCGATCGCATCCAACCAGTCATTCACGGGATGGACGGACACCTTCA
CCGACCCCAGGCTCTGCGCTGCCATCATCGAGACCGGCACCACCTCCTACCGCCTCCAACACACCCGCAACACCGCACTCGCTGGGGCCAACTAACTTCG
ACAACCCGATCCCCGCCAGCCTTGACATAGTCA
Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
1119 bp372 aa1271245+No
ORF function : Transposase
Description :

ORF sequence :

MGGPGLGSRLDQFAVIRRDARVEGLSIRELAVRHGVHRRTVRQALESATPPSRKPRVQSSPKLDLVRELIDAILRQDLGAPKKQKQTATRTWKRLLDEHQ
VDVSYGTVRDYVRSRRPQIDAEAGRLPEVFVPQEHAPGAEAEVDFGEVWVILAGVKTKCHMFTFRLSYSGKAIHRVYSTQSQEAFLEGHIDAFEEIGGMP
TLHIKYDNLAAAVKSVVNGKDRKRVENDRWVLFRSHYGFDAFYCQPGIDGAHEKGGVEGEVGRFRRTWLSPMPEVDSLAQLNAMIRRWDARDEQRRIAQR
RTKVEDDFATERPLLRPLPAERFDPGLVLHPRVDRSGLITVRMAKYSVPARLIGREVRVSPRFRGRRLRRAR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
615 bp205 aa11901804+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

VKSASLRASEVVVFDGRVEVARHERVVARGGESIQLDHYLEVLRHKPGAFPGSTALARAREAGTFTAAHEAFWQEARKVNGDTAGTRELVDVLLLHRSMR
AADVIAGIRAALSVGAISADVVAVEARLYAGGAIQHRQPVEQRPDRERRVVSLTQRRLRDPQAVIAGLPQDKRPLPTVTQYDELLQRRPVFTDPTTDERE
GTTDT

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
786 bp262 aa18042589+No
ORF function : Accessory Gene
AG : IS21 helper

ORF sequence :

MSPTTTNITTTLRRQRGMTQEAAAAAVDQACRRLRLPTIRAVMDEAIRVAEHEQLSYQGFLAEVLLAECDDRDRRSTVRRVASAGFPRQKWLGDFDFDTN
PNINAATIHTLATGDWVRRGDPLCLIGDSGTGKSHLLIGLGTAAAEKGYRVKYTLATKLVNELVEAADEKQLARTIARYGRVDLLCIDELGYMELDRRGA
ELLFQVLTEREEKNSVAIASNQSFTGWTDTFTDPRLCAAIIETGTTSYRLQHTRNTALAGAN

 

Blast result :
Comments
ISLxc1 is a transposon which inserted by IS1237 at 86nt after the begin of the sequence. ISLxc1 has three ORFs. ORF1 and ORF2 can translate an intact IstA protein when a frameshitting occured at 1207nt site. ORF3 translate IstB protein. The IstA is 68% similar to ISlxx3 and IstB is 78% similar to ISLxx3.
The ISLxc1 sequence was reconstructed by in silico deletion of the IS1237 and of one of the DR generated by the insertion of this sequence.
References
1] Hui Lin, Yong-ping Zhang, Tai-yuan Li, Yi Zhang (20005) Direct submission.