ICEberg
ICEberg ID22
NameICEVchInd5
FamilySXT/R391
OrganismVibrio cholerae O1 Ind5
Size (bp)97952
GC content [Genome] (%)46.7
Insertion siteprfC
FunctionAntibiotic resistance genes: floR, strBA, sul2, dfrA1; glyoxoylase abx resistance
Species that ICE can be transferred to-
Nucleotide SequenceGQ463142 (complete ICE sequence in this GenBank file)
Replicon-
Coordinates1..97952
Link to view genome context of this ICE in the genome browser
experimental This is a ICE derived from experimental literature.
Complete gene list of ICEVchInd5 form GQ463142
#GeneCoordinates [+/-], size (bp)Protein GI Product *
1ICEVCHIND5_0001565..753 [+], 189259156387  [UniProt] conserved domain protein
2ICEVCHIND5_0002899..2917 [+], 2019259156428  [UniProt] putative DNA mismatch repair protein
3ICEVCHIND5_00033047..4288 [-], 1242259156429  [UniProt] integrase
4ICEVCHIND5_00044290..4559 [-], 270259156415  [UniProt] conserved hypothetical protein
5ICEVCHIND5_00054562..5536 [-], 975259156423  [UniProt] conserved hypothetical protein
6ICEVCHIND5_00065632..5799 [+], 168259156464  [UniProt] hypothetical protein
7ICEVCHIND5_00075844..5978 [+], 135259156453  [UniProt] hypothetical protein
8ICEVCHIND5_00086001..6444 [+], 444259156427  [UniProt] conserved hypothetical protein
9ICEVCHIND5_00096455..7627 [-], 1173259156440  [UniProt] protein UmuC
10ICEVCHIND5_00107911..8504 [+], 594259156411  [UniProt] transposase, IS3 family, interruption
11ICEVCHIND5_00118618..11596 [+], 2979259156398  [UniProt] transposase
12ICEVCHIND5_001212014..13507 [+], 1494259156408  [UniProt] iscr2 transposase
13ICEVCHIND5_001313538..14422 [+], 885259156400  [UniProt] conserved hypothetical proteinAR
14ICEVCHIND5_001414639..15853 [+], 1215259156403  [UniProt] florfenicol/chloramphenicol resistance proteinAR
15ICEVCHIND5_001515908..16186 [+], 279259156374  [UniProt] truncated helix-turn-helix multiple antibiotic resistance protein
16ICEVCHIND5_001716298..16837 [+], 540259156407  [UniProt] truncated transposase
17ICEVCHIND5_001616809..17639 [-], 831259156444  [UniProt] streptomycin resistance protein BAR
18ICEVCHIND5_001817645..18448 [-], 804259156414  [UniProt] streptomycin 3''-kinaseAR
19folP18509..19324 [-], 816259156413  [UniProt] dihydropteroate synthaseAR
20ICEVCHIND5_002119795..21147 [+], 1353259156458  [UniProt] TnpA
21ICEVCHIND5_002021139..22350 [-], 1212259156451  [UniProt] transposase, Mutator family
22ICEVCHIND5_002222408..22911 [-], 504259156395  [UniProt] MutL protein
23ICEVCHIND5_002323064..23333 [-], 270259156448  [UniProt] ultraviolet light resistance protein B
24ICEVCHIND5_002423341..23790 [-], 450259156441  [UniProt] protein UmuD
25ICEVCHIND5_002523909..24046 [+], 138259156409  [UniProt] hypothetical protein
26ICEVCHIND5_002624430..25335 [+], 906259156377  [UniProt] exonuclease, RNase T and DNA polymerase III
27ICEVCHIND5_002725423..25722 [+], 300259156466  [UniProt] conserved hypothetical protein
28ICEVCHIND5_002826040..26960 [+], 921259156446  [UniProt] conserved hypothetical protein
29ICEVCHIND5_002926978..27778 [+], 801259156431  [UniProt] hypothetical protein
30ICEVCHIND5_003027762..28310 [+], 549259156421  [UniProt] conserved hypothetical protein
31ICEVCHIND5_003128323..32012 [+], 3690259156394  [UniProt] conserved hypothetical protein
32ICEVCHIND5_003232017..35757 [+], 3741259156380  [UniProt] conserved hypothetical protein
33ICEVCHIND5_003335770..38073 [+], 2304259156389  [UniProt] PglZ domain family
34ICEVCHIND5_003438112..40163 [+], 2052259156379  [UniProt] conserved hypothetical protein
35ICEVCHIND5_003540190..40960 [+], 771259156449  [UniProt] conserved hypothetical protein
36ICEVCHIND5_003740995..41810 [+], 816259156435  [UniProt] conserved hypothetical protein
37ICEVCHIND5_003641787..41909 [-], 123259156450  [UniProt] hypothetical protein
38ICEVCHIND5_003841932..44082 [+], 2151259156382  [UniProt] conjugative relaxase
39ICEVCHIND5_003944131..45951 [+], 1821259156418  [UniProt] conjugative coupling factor
40ICEVCHIND5_004045961..46521 [+], 561259156404  [UniProt] conserved hypothetical protein
41ICEVCHIND5_004146508..47143 [+], 636259156386  [UniProt] putative conjugation coupling factor
42ICEVCHIND5_004247170..47757 [-], 588259156381  [UniProt] conserved hypothetical protein
43traL48046..48327 [+], 282259156373  [UniProt] type IV conjugative transfer system protein TraL
44ICEVCHIND5_004448324..48950 [+], 627259156391  [UniProt] sex pilus assembly
45ICEVCHIND5_004548934..49830 [+], 897259156465  [UniProt] TraK
46ICEVCHIND5_004649833..51122 [+], 1290259156399  [UniProt] sex pilus assembly
47ICEVCHIND5_004751119..51769 [+], 651259156397  [UniProt] sex pilus assembly
48ICEVCHIND5_004851766..52152 [+], 387259156459  [UniProt] TraA
49ICEVCHIND5_004952373..53164 [+], 792259156402  [UniProt] conserved hypothetical proteinTA
50ICEVCHIND5_005053157..54095 [+], 939259156426  [UniProt] yncTA
51ICEVCHIND5_005154227..54919 [+], 693259156378  [UniProt] DsbC
52traC54919..57318 [+], 2400259156375  [UniProt] type-IV secretion system protein TraC
53ICEVCHIND5_005357311..57658 [+], 348259156396  [UniProt] conserved hypothetical protein
54ICEVCHIND5_005457642..58154 [+], 513259156390  [UniProt] conjugation signal peptidase
55ICEVCHIND5_005659273..60301 [+], 1029259156454  [UniProt] sex pilus assembly
56ICEVCHIND5_005760304..63996 [+], 3693259156436  [UniProt] mating pair stabilization
57ICEVCHIND5_005864087..65703 [-], 1617259156460  [UniProt] conserved hypothetical protein
58ICEVCHIND5_005965783..66538 [-], 756259156420  [UniProt] IstB domain protein ATP-binding protein
59ICEVCHIND5_006066528..68036 [-], 1509259156406  [UniProt] integrase, catalytic region
60ICEVCHIND5_006168135..69178 [-], 1044259156455  [UniProt] SMC domain protein
61ICEVCHIND5_006269382..70065 [-], 684259156461  [UniProt] endonuclease-1 (Endonuclease I) (Endo I)
62ICEVCHIND5_006370174..70776 [-], 603259156417  [UniProt] conserved hypothetical protein
63ICEVCHIND5_006471144..71470 [+], 327259156393  [UniProt] conserved hypothetical protein
64ICEVCHIND5_006571486..71905 [+], 420259156456  [UniProt] single-strand binding protein familyVF
65ICEVCHIND5_006671985..72803 [+], 819259156438  [UniProt] phage recombination protein Bet
66ICEVCHIND5_006772885..73028 [+], 144259156422  [UniProt] hypothetical protein
67ICEVCHIND5_006873089..74105 [+], 1017259156376  [UniProt] YqaJ viral recombinase family
68ICEVCHIND5_007074198..75274 [+], 1077259156388  [UniProt] ATPase associated with various cellular activities, AAA_5
69ICEVCHIND5_006974294..74416 [-], 123259156405  [UniProt] hypothetical protein
70ICEVCHIND5_007175274..76041 [+], 768259156416  [UniProt] conserved hypothetical protein
71ICEVCHIND5_007276140..77093 [+], 954259156443  [UniProt] conserved hypothetical protein
72ICEVCHIND5_007377155..77595 [+], 441259156410  [UniProt] conserved hypothetical protein
73ICEVCHIND5_007477665..79320 [+], 1656259156425  [UniProt] von Willebrand factor, type A
74radC79405..79902 [+], 498259156401  [UniProt] DNA repair protein RadCVF
75ICEVCHIND5_007679902..80243 [+], 342259156424  [UniProt] conserved hypothetical protein
76ICEVCHIND5_007780334..81407 [+], 1074259156383  [UniProt] phage P4 alpha, zinc-binding domain protein
77ICEVCHIND5_007881497..82204 [+], 708259156439  [UniProt] conserved hypothetical protein
78ICEVCHIND5_007982397..82510 [-], 114259156462  [UniProt] hypothetical protein
79ICEVCHIND5_008182476..82880 [+], 405259156433  [UniProt] glyoxalase/bleomycin resistance protein/dioxygenase
80ICEVCHIND5_008082877..83578 [-], 702259156430  [UniProt] conserved hypothetical protein
81ICEVCHIND5_008283678..84040 [-], 363259156437  [UniProt] conserved hypothetical protein
82ICEVCHIND5_008384111..84521 [-], 411259156445  [UniProt] membrane associated protein containing xre-family DNA-binding HTH domain
83ICEVCHIND5_008484719..85144 [-], 426259156432  [UniProt] conserved hypothetical protein
84folA85249..85722 [-], 474259156457  [UniProt] dihydrofolate reductaseAR
85ICEVCHIND5_008686940..87080 [-], 141259156452  [UniProt] hypothetical protein
86ICEVCHIND5_008887226..88170 [+], 945259156392  [UniProt] conserved hypothetical protein
87ICEVCHIND5_008988173..89561 [+], 1389259156447  [UniProt] sex pilus assembly
88ICEVCHIND5_009089565..93134 [+], 3570259156463  [UniProt] sex pilus assembly
89ICEVCHIND5_009193167..93598 [-], 432259156384  [UniProt] EexR1
90ICEVCHIND5_009293656..94189 [-], 534259156434  [UniProt] transcriptional activator
91ICEVCHIND5_009394186..94485 [-], 300259156419  [UniProt] SetD
92ICEVCHIND5_009494482..95030 [-], 549259156372  [UniProt] lytic transglycosylase, catalytic
93ICEVCHIND5_009595017..95679 [-], 663259156412  [UniProt] conserved hypothetical protein
94ICEVCHIND5_009695666..96535 [-], 870259156442  [UniProt] conserved hypothetical protein
95ICEVCHIND5_009796591..96842 [-], 252259156385  [UniProt] SetQ
96ICEVCHIND5_009896960..97607 [+], 648259156467  [UniProt] HTH-type transcriptional regulator for conjugative element R391
 
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer
regulation Gene may play role in regulation of transfer

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins96Fasta
(1) Spagnoletti M; Ceccarelli D; Colombo MM (2012). Rapid detection by multiplex PCR of Genomic Islands, prophages and Integrative Conjugative Elements in V. cholerae 7th pandemic variants. J Microbiol Methods. 88(1):98-102. [PudMed:22062086] experimental
(2) Ceccarelli D; Spagnoletti M; Bacciu D; Danin-Poleg Y; Mendiratta DK; Kashi Y; Cappuccinelli P; Burrus V; Colombo MM (2011). ICEVchInd5 is prevalent in epidemic Vibrio cholerae O1 El Tor strains isolated in India. Int J Med Microbiol. 301(4):318-24. [PudMed:21276749] experimental
(3) Wozniak RA; Fouts DE; Spagnoletti M; Colombo MM; Ceccarelli D; Garriss G; Dery C; Burrus V; Waldor MK (2009). Comparative ICE genomics: insights into the evolution of the SXT/R391 family of ICEs. PLoS Genet. 5(12):e1000786. [PudMed:20041216] in_silico
(4) Bordeleau E; Brouillette E; Robichaud N; Burrus V (2010). Beyond antibiotic resistance: integrating conjugative elements of the SXT/R391 family that encode novel diguanylate cyclases participate to c-di-GMP signalling in Vibrio cholerae. Environ Microbiol. 12(2):510-23. [PudMed:19888998] experimental
 
experimental experimental literature
in_silico in silico analysis literature