ICEberg
ICEberg ID36
NameICEVflInd1
FamilySXT/R391
OrganismVibrio fluvialis Ind1
Size (bp)114195
GC content [Genome] (%)47.6
Insertion siteprfC
FunctionAntibiotic resistance genes: dfr18, floR, strBA, sul2; Toxin-antitoxin system
Species that ICE can be transferred to-
Nucleotide SequenceGQ463144 (complete ICE sequence in this GenBank file)
Replicon-
Coordinates1..114195
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 ICEVflInd1 form GQ463144
#GeneCoordinates [+/-], size (bp)Protein GI Product *
1ICEVFLIND1_000120..154 [+], 135259156566  [UniProt] ribosome-binding factor A
2ICEVFLIND1_0002154..1092 [+], 939259156613  [UniProt] tRNA pseudouridine synthase B
3rpsO1234..1503 [+], 270259156615  [UniProt] ribosomal protein S15
4pnp1866..3992 [+], 2127259156595  [UniProt] polyribonucleotide nucleotidyltransferase
5ICEVFLIND1_00054026..4169 [-], 144259156607  [UniProt] hypothetical protein
6ICEVFLIND1_00085086..5526 [+], 441259156612  [UniProt] transcriptional regulator, MarR family
7ICEVFLIND1_00095569..6906 [+], 1338259156626  [UniProt] multidrug resistance pump
8yhbV6965..7843 [-], 879259156589  [UniProt] peptidase, U32 family
9ICEVFLIND1_00117855..8868 [-], 1014259156579  [UniProt] STM-proteaseA
10ICEVFLIND1_001411036..11563 [+], 528259156584  [UniProt] sterol binding protein
11ICEVFLIND1_001511547..12050 [+], 504259156550  [UniProt] acetyltransferase, gnat family
12ICEVFLIND1_001612191..12568 [+], 378259156632  [UniProt] DNA polymerase III, psi subunit
13rimI12565..13014 [+], 450259156594  [UniProt] ribosomal-protein-alanine acetyltransferase
14ICEVFLIND1_001713003..15060 [-], 2058259156587  [UniProt] ggdef domain protein
15ICEVFLIND1_001915852..15989 [+], 138259156592  [UniProt] conserved domain protein
16ICEVFLIND1_002218282..19523 [-], 1242259156576  [UniProt] integrase
17ICEVFLIND1_002319525..19794 [-], 270259156638  [UniProt] conserved hypothetical protein
18ICEVFLIND1_002419797..20771 [-], 975259156627  [UniProt] conserved hypothetical protein
19ICEVFLIND1_002520867..21034 [+], 168259156588  [UniProt] hypothetical protein
20ICEVFLIND1_002621079..21213 [+], 135259156553  [UniProt] hypothetical protein
21ICEVFLIND1_002721236..21679 [+], 444259156657  [UniProt] conserved hypothetical protein
22ICEVFLIND1_002821690..22862 [-], 1173259156636  [UniProt] protein UmuC
23ICEVFLIND1_002923146..23739 [+], 594259156617  [UniProt] transposase, IS3 family, interruption
24ICEVFLIND1_003023853..26831 [+], 2979259156605  [UniProt] transposase
25ICEVFLIND1_003127249..28742 [+], 1494259156575  [UniProt] iscr2 transposase
26ICEVFLIND1_003228970..29113 [-], 144259156557  [UniProt] hypothetical protein
27folA29103..29657 [-], 555259156569  [UniProt] dihydrofolate reductase
28ICEVFLIND1_003429671..30156 [-], 486259156556  [UniProt] conserved hypothetical protein
29ICEVFLIND1_003530216..31382 [-], 1167259156639  [UniProt] conserved hypothetical protein
30dcd31397..32023 [-], 627259156640  [UniProt] deoxycytidine triphosphate deaminase
31ICEVFLIND1_003732316..32717 [+], 402259156621  [UniProt] transposase
32ICEVFLIND1_003933826..35040 [+], 1215259156600  [UniProt] florfenicol/chloramphenicol resistance proteinAR
33ICEVFLIND1_004035068..35373 [+], 306259156585  [UniProt] truncated helix-turn-helix multiple antibiotic resistance protein
34ICEVFLIND1_004235485..36024 [+], 540259156559  [UniProt] truncated transposase
35ICEVFLIND1_004135996..36826 [-], 831259156564  [UniProt] streptomycin phosphotransferase BAR
36ICEVFLIND1_004336832..37635 [-], 804259156549  [UniProt] streptomycin 3''-kinaseAR
37folP37696..38511 [-], 816259156572  [UniProt] dihydropteroate synthaseAR
38ICEVFLIND1_004538982..40355 [+], 1374259156656  [UniProt] transposase Tn3 family protein
39ICEVFLIND1_004640940..41209 [-], 270259156580  [UniProt] protein UmuC
40ICEVFLIND1_004741217..41666 [-], 450259156578  [UniProt] protein UmuD
41ICEVFLIND1_004841780..41923 [+], 144259156649  [UniProt] hypothetical protein
42ICEVFLIND1_004942170..42328 [-], 159259156583  [UniProt] hypothetical protein
43ICEVFLIND1_005042307..43212 [+], 906259156611  [UniProt] exonuclease, RNase T and DNA polymerase III
44ICEVFLIND1_005143300..43599 [+], 300259156555  [UniProt] conserved hypothetical protein
45ICEVFLIND1_005243917..44840 [+], 924259156551  [UniProt] conserved hypothetical protein
46ICEVFLIND1_005344954..47383 [+], 2430259156577  [UniProt] N-6 DNA methylaseVF
47ICEVFLIND1_005447383..48552 [+], 1170259156571  [UniProt] restriction modification system DNA specificity domain
48ICEVFLIND1_005548563..49720 [+], 1158259156643  [UniProt] conserved hypothetical protein
49ICEVFLIND1_005851591..51719 [+], 129259156650  [UniProt] conjugative relaxase
50ICEVFLIND1_005951768..53153 [+], 1386259156604  [UniProt] conjugative coupling factor
51ICEVFLIND1_006053304..53420 [+], 117259156586  [UniProt] hypothetical protein
52ICEVFLIND1_006153436..54953 [+], 1518259156644  [UniProt] putative transposase for insertion sequence
53ICEVFLIND1_006254977..55672 [+], 696259156651  [UniProt] conserved hypothetical protein
54ICEVFLIND1_006355733..56443 [+], 711259156599  [UniProt] transposition helper protein
55ICEVFLIND1_006456480..57043 [-], 564259156574  [UniProt] conserved hypothetical protein
56traL57332..57613 [+], 282259156646  [UniProt] type IV conjugative transfer system protein TraL
57ICEVFLIND1_006657610..58236 [+], 627259156624  [UniProt] sex pilus assembly
58ICEVFLIND1_006758220..59116 [+], 897259156606  [UniProt] TraK
59ICEVFLIND1_007060491..61051 [+], 561259156568  [UniProt] sex pilus assembly
60ICEVFLIND1_007161048..61434 [+], 387259156598  [UniProt] putative pilin subunit
61ICEVFLIND1_007261612..62445 [+], 834259156630  [UniProt] conserved hypothetical protein
62ICEVFLIND1_007563506..64198 [+], 693259156582  [UniProt] DsbC
63traC64198..66597 [+], 2400259156609  [UniProt] type-IV secretion system protein TraC
64ICEVFLIND1_007766656..66937 [+], 282259156561  [UniProt] conserved hypothetical protein
65ICEVFLIND1_007866921..67433 [+], 513259156625  [UniProt] conjugation signal peptidase
66ICEVFLIND1_007967444..68568 [+], 1125259156652  [UniProt] sex pilus assembly
67ICEVFLIND1_008068546..69580 [+], 1035259156616  [UniProt] conjugal transfer protein TraU, putative
68ICEVFLIND1_008169583..73275 [+], 3693259156619  [UniProt] mating pair stabilization
69ICEVFLIND1_008273506..73838 [+], 333259156623  [UniProt] hypothetical protein
70ICEVFLIND1_008373869..74531 [+], 663259156635  [UniProt] conserved hypothetical protein
71ICEVFLIND1_008474622..75224 [-], 603259156618  [UniProt] conserved hypothetical protein
72ICEVFLIND1_008575634..75918 [+], 285259156647  [UniProt] conserved hypothetical protein
73ICEVFLIND1_008675934..76353 [+], 420259156642  [UniProt] single-strand binding protein familyVF
74ICEVFLIND1_008776433..77251 [+], 819259156597  [UniProt] phage recombination protein Bet
75ICEVFLIND1_008877333..77476 [+], 144259156573  [UniProt] hypothetical protein
76ICEVFLIND1_008977537..78553 [+], 1017259156637  [UniProt] YqaJ viral recombinase family
77ICEVFLIND1_009078763..79722 [+], 960259156655  [UniProt] ATPase associated with various cellular activities, AAA_5
78ICEVFLIND1_009179722..80489 [+], 768259156562  [UniProt] conserved hypothetical protein
79ICEVFLIND1_009280588..81541 [+], 954259156620  [UniProt] conserved hypothetical protein
80ICEVFLIND1_009381603..82043 [+], 441259156603  [UniProt] conserved hypothetical protein
81ICEVFLIND1_009482113..83768 [+], 1656259156548  [UniProt] von Willebrand factor, type A
82ICEVFLIND1_009583851..84348 [+], 498259156591  [UniProt] DNA repair protein RadCVF
83ICEVFLIND1_009684348..84689 [+], 342259156628  [UniProt] conserved hypothetical protein
84ICEVFLIND1_009784781..85854 [+], 1074259156563  [UniProt] phage P4 alpha, zinc-binding domain protein
85ICEVFLIND1_009885947..86651 [+], 705259156658  [UniProt] conserved hypothetical protein
86ICEVFLIND1_009986674..86799 [+], 126259156565  [UniProt] hypothetical protein
87ICEVFLIND1_010086768..87520 [+], 753259156633  [UniProt] conserved hypothetical protein
88ICEVFLIND1_010187575..88006 [-], 432259156634  [UniProt] conserved hypothetical protein
89ICEVFLIND1_010288044..88163 [+], 120259156614  [UniProt] hypothetical protein
90ICEVFLIND1_010388472..89743 [+], 1272259156610  [UniProt] pas/pac/ggdef-domain containing protein
91ICEVFLIND1_010489917..90342 [+], 426259156629  [UniProt] integrase, catalytic region
92ICEVFLIND1_010590503..91432 [-], 930259156648  [UniProt] response regulator receiver protein
93ICEVFLIND1_010691438..95196 [-], 3759259156567  [UniProt] multi-sensor hybrid histidine kinaseVF
94ICEVFLIND1_010795245..95361 [-], 117259156654  [UniProt] hypothetical protein
95ICEVFLIND1_010895680..95838 [+], 159259156622  [UniProt] hypothetical protein
96ICEVFLIND1_010995984..96928 [+], 945259156554  [UniProt] conserved hypothetical protein
97ICEVFLIND1_011096931..98319 [+], 1389259156645  [UniProt] TraH family protein
98ICEVFLIND1_011198323..101892 [+], 3570259156601  [UniProt] sex pilus assembly
99ICEVFLIND1_0112101925..102380 [-], 456259156590  [UniProt] EexS1
100ICEVFLIND1_0113102414..102947 [-], 534259156560  [UniProt] transcriptional activator
101ICEVFLIND1_0114102944..103243 [-], 300259156641  [UniProt] transcriptional activator
102ICEVFLIND1_0115103240..103788 [-], 549259156581  [UniProt] lytic transglycosylase, catalytic
103ICEVFLIND1_0116103775..104437 [-], 663259156596  [UniProt] conserved hypothetical protein
104ICEVFLIND1_0117104424..105293 [-], 870259156608  [UniProt] conserved hypothetical protein
105ICEVFLIND1_0118105349..105600 [-], 252259156602  [UniProt] conserved hypothetical protein
106ICEVFLIND1_0119105718..106365 [+], 648259156653  [UniProt] HTH-type transcriptional regulator for conjugative element R391
107prfC106622..108211 [+], 1590259156593  [UniProt] peptide chain release factor 3
108ICEVFLIND1_0121108333..109604 [-], 1272259156570  [UniProt] ATP-dependent RNA helicase SrmB
109ICEVFLIND1_0122109692..110414 [-], 723259156558  [UniProt] methyltransferase
110brnQ110723..112036 [+], 1314259156552  [UniProt] branched-chain amino acid transport system II carrier protein
111ICEVFLIND1_0125113335..114195 [+], 861259156631  [UniProt] lysyl-tRNA synthetase (Lysine--tRNA ligase) (LysRS)VF
 
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer
VF: Blastp hit against the virulence factor database VFDB.

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins111Fasta
(1) Daccord A; Mursell M; Poulin-Laprade D; Burrus V (2012). Dynamics of the SetCD-Regulated Integration and Excision of Genomic Islands Mobilized by Integrating Conjugative Elements of the SXT/R391 Family. J Bacteriol. 194(21):5794-802. [PudMed:22923590] experimental
(2) Daccord A; Ceccarelli D; Burrus V (2010). Integrating conjugative elements of the SXT/R391 family trigger the excision and drive the mobilization of a new class of Vibrio genomic islands. Mol Microbiol. 78(3):576-88. [PudMed:20807202] 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
(5) Marrero J; Waldor MK (2007). The SXT/R391 family of integrative conjugative elements is composed of two exclusion groups. J Bacteriol. 189(8):3302-5. [PudMed:17307849] experimental
 
experimental experimental literature
in_silico in silico analysis literature