ISShfr1

  • Family IS4
  • Group IS10
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
ND Shewanella frigidimarina
Shewanella frigidimarina NCIMB 400
DNA section
IS Length : 1322 bp

Ends


IR Length : 16/18

IRL : CTGACGAATCCCCACAAAAGAATGAATAAAAATAATGAGATAGGTTAAAA
IRR : CTGAGGGATCCCCACGAATTTAATAGCATGCTTGTGGGTCCTTGATTAAA

Insertion site


Left flankDirect repeatRight flankDR Length
TCTTATGTCGNNTCAGAGNTTGACGAATC9

DNA sequence

CTGACGAATCCCCACAAAAGAATGAATAAAAATAATGAGATAGGTTAAAAACTGAGGAACATTCATGGCATTTGGTGATCAAATTTATCGCCAAACAAAA
ATTACCACGAGTAAATGCCATGAATGCAAAACAAGTTTTATCAAAATGCCTCTCACTTGTCACCCCGTTAATGCACAAAACTCGCCGACAAAGTCTGTTC
TCTGCAATTGAAAGCTCAATGAATGGTGGAGCATTATCAATCACAGGGCTTGGCCGTGATATTGAAAGTAAAGCCAAGGAAAAACATAAGATTAAGCGGG
TTGATAGGCTTTGTAGTAATCCTTATCTTCATCGTGATATTGAGTTCATTTATACCCGTATGACCTGCTTGCTCGTCGGGAAAATGAAGCAACCCATTAT
TCATATCGATTGGTCAGATCTTGATGACCGTAAGCAGCATTTTCTCATTCGAGCATCTTTGGCGGCTCAAGGGCGCTCATTGACACTTTATGAAGAAATA
CATCCGCTAAACAAAAAAGAGAAGCCTAAAACTCATCTATCCTTTTTGACCAAACTTAAGGCGATGCTACCTAATGACTGCAAGCCTATCATCGTGACTG
ATGCTGGATTTCGAATACCATGGTTTAAACAAATACTGTCACTTGATTGGGATTATGTGGGGCGATTCAGAAACAGAACACATTGTAGAAAAACGATTGT
TCATCATTGGTATCCAGTCAAAAGGCTATACATACAAGCAAGTGCAAGAGCTAAGAATCTTGGGGTATATTTTTTAGGTGAGCAGGCGTCTTTCTGTTCA
CGCTTAGTGATCTTCAAACGTACAGATAAAGGAAGAAAAGATAGAACTGCAACGGGTGATAGAACCAGACGGAGCAAACAATCTCGGTCAAGTGCAGAGC
GTGAAAAAGAGCCTTGGTTACTTGCTACATCACTTTGTCATTCAAGTGCTACAGCCAAACGAGTCGTAAAAATTTATGCGACTAGAATGCAGATAGAAGA
AAGCTTTAGAGATGTTAAAACGGGTCTAAAAATGAATGATAGTGGCAGTAGAATTAAGGATAAATTAAGCGTTCTACTGCTCATTGCCTGTCTATCTCAA
TTTATGTTGAACCTGCTAGGTTTGGCAGTTAAAGCAGCGGATAAGCATAGACAATACCAAGCGAATTCAATCAAACATCGTAATGTTTTATCAAGCCAAT
TTATAGGATTAAGAGCCTACAGAGATAAGTATTTGAGGTTGTTGAAGTCTCACTGGCTAGCAGGAATAAAGACGTTACAAAGTTTAATCAAGGACCCACA
AGCATGCTATTAAATTCGTGGGGATCCCTCAG
Protein section
ORF number : 1

 

ORF 1
LengthBeginEndStrandFusion ORF
1191 bp397 aa1201310+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNAKQVLSKCLSLVTPLMHKTRRQSLFSAIESSMNGGALSITGLGRDIESKAKEKHKIKRVDRLCSNPYLHRDIEFIYTRMTCLLVGKMKQPIIHIDWSD
LDDRKQHFLIRASLAAQGRSLTLYEEIHPLNKKEKPKTHLSFLTKLKAMLPNDCKPIIVTDAGFRIPWFKQILSLDWDYVGRFRNRTHCRKTIVHHWYPV
KRLYIQASARAKNLGVYFLGEQASFCSRLVIFKRTDKGRKDRTATGDRTRRSKQSRSSAEREKEPWLLATSLCHSSATAKRVVKIYATRMQIEESFRDVK
TGLKMNDSGSRIKDKLSVLLLIACLSQFMLNLLGLAVKAADKHRQYQANSIKHRNVLSSQFIGLRAYRDKYLRLLKSHWLAGIKTLQSLIKDPQACY

 

Blast result :
Comments
ISShfr1 is 57% aa similar to IS10R. ISShfr1 was found by screening completely sequenced genomes for sequences homologous to the IS10R transposase using BLASTP. Multiple sequence alignments revealed a conserved DDE motif : D(N2)-63-D(N3)-131-E(C1). Genome sequencing of Shewanella frigidimarina NCIMB 400 is currently in progress. Accession number : NZ_AAIV00000000.
References
1] De Palmenaer D, Siguier P, Mahillon J (2008) BMC Evol Biol , 8(1):18
2] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,C., Glavina,T., Hammon,N., Israni,S., Pitluck,S. and Richardson,P.(2006)Unpublished