ICEberg
ICEberg ID38
NameICEPdaSpa1
FamilySXT/R391
OrganismPhotobacterium damselae subsp. piscicida PC554.2
Size (bp)102985
GC content [Genome] (%)46.3
Insertion siteprfC
FunctionAntibiotic resistance genes: tetAR
Species that ICE can be transferred toEscherichia coli
Nucleotide SequenceAJ870986 (complete ICE sequence in this GenBank file)
Replicon-
Coordinates1..102985
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 ICEPdaSpa1 form AJ870986
#GeneCoordinates [+/-], size (bp)Protein GI Product *
1xis620..820 [+], 201172051540  [UniProt] Xis
2int837..2078 [-], 1242172051541  [UniProt] Int
3s0022080..2349 [-], 270172051542  [UniProt] S002
4s0032352..3326 [-], 975172051543  [UniProt] S003
5rumB4245..5417 [-], 1173pseudogene -
6tnp5701..6294 [+], 594172051544  [UniProt] Tnp
7tnpA6408..9386 [+], 2979172051545  [UniProt] TnpA
8tnpB9804..11297 [+], 1494172051546  [UniProt] TnpB
9s01311328..11612 [+], 285pseudogene -
10tetA11676..12878 [-], 1203172051547  [UniProt] TetAVF
11tetR12959..13561 [+], 603172051548  [UniProt] TetRVF
12tnpB13740..13892 [+], 153pseudogene -
13tnpI13951..14241 [+], 291172051549  [UniProt] TnpIVF
14tnpII14373..15104 [+], 732172051550  [UniProt] TnpIIVF
15s02115115..16092 [-], 978172051551  [UniProt] hypothetical protein
16rumB16299..16607 [-], 309pseudogene -
17rumA16576..17025 [-], 450172051552  [UniProt] RumA
18s02417665..18573 [+], 909172051553  [UniProt] hypothetical protein
19s02518647..18961 [+], 315172051554  [UniProt] hypothetical protein
20s02619030..19956 [+], 927172051555  [UniProt] hypothetical protein
21s02719966..20565 [+], 600172051556  [UniProt] hypothetical protein
22s02820562..21146 [+], 585172051557  [UniProt] hypothetical protein
23s02921165..24842 [+], 3678172051558  [UniProt] hypothetical protein
24s03124853..26022 [+], 1170172051559  [UniProt] hypothetical protein
25s03326030..26779 [+], 750172051560  [UniProt] hypothetical protein
26s03526776..28209 [+], 1434172051561  [UniProt] hypothetical protein
27is1028188..29396 [-], 1209172051562  [UniProt] IS10VF
28s03529995..31701 [+], 1707pseudogene -
29s03831701..34358 [+], 2658172051563  [UniProt] hypothetical protein
30s03934375..36450 [+], 2076172051564  [UniProt] hypothetical protein
31s04036494..39145 [+], 2652172051565  [UniProt] hypothetical protein
32traI39300..41450 [+], 2151172051566  [UniProt] TraI
33traD41498..43318 [+], 1821172051567  [UniProt] TraD
34s04343875..44510 [+], 636172051568  [UniProt] hypothetical protein
35orf3744537..45124 [-], 588172051569  [UniProt] hypothetical protein
36orf3845138..45377 [-], 240172051570  [UniProt] hypothetical protein
37traL45413..45694 [+], 282172051571  [UniProt] TraL
38traE45691..46317 [+], 627172051572  [UniProt] TraE
39s04846298..47197 [+], 900172051573  [UniProt] hypothetical protein
40traB47200..48489 [+], 1290172051574  [UniProt] TraB
41traV48486..49136 [+], 651172051575  [UniProt] TraV
42traA49133..49519 [+], 387172051576  [UniProt] TraA
43s05249697..50530 [+], 834172051577  [UniProt] hypothetical proteinTA
44s05350523..51461 [+], 939172051578  [UniProt] hypothetical proteinTA
45spa0152041..54770 [+], 2730172051579  [UniProt] hypothetical protein
46spa0254767..55876 [+], 1110172051580  [UniProt] hypothetical protein
47spa0355889..57421 [+], 1533172051581  [UniProt] hypothetical protein
48spa0457736..58869 [+], 1134172051582  [UniProt] hypothetical protein
49s05459015..59707 [+], 693172051583  [UniProt] hypothetical protein
50traC59707..62106 [+], 2400172051584  [UniProt] TraC
51trsF62430..62942 [+], 513172051585  [UniProt] TrsF
52traW62893..64077 [+], 1185172051586  [UniProt] TraW
53traU64061..65089 [+], 1029172051587  [UniProt] TraU
54traN65092..68784 [+], 3693172051588  [UniProt] TraN
55spa0568947..69474 [-], 528172051589  [UniProt] hypothetical protein
56spa0669484..70257 [-], 774172051590  [UniProt] hypothetical protein
57s06370416..71018 [-], 603172051591  [UniProt] hypothetical protein
58s08971386..71712 [+], 327172051592  [UniProt] hypothetical protein
59ssb71728..72147 [+], 420172051593  [UniProt] hypothetical proteinVF
60s06572227..73045 [+], 819172051594  [UniProt] hypothetical protein
61s06673333..74349 [+], 1017172051595  [UniProt] hypothetical protein
62s06774442..75518 [+], 1077172051596  [UniProt] hypothetical protein
63s08875518..76285 [+], 768172051597  [UniProt] hypothetical protein
64s06876384..77337 [+], 954172051598  [UniProt] hypothetical protein
65s06977399..77839 [+], 441172051599  [UniProt] hypothetical protein
66s07077909..79564 [+], 1656172051600  [UniProt] hypothetical protein
67s07179648..80145 [+], 498172051601  [UniProt] hypothetical proteinVF
68s07280577..81644 [+], 1068172051602  [UniProt] hypothetical protein
69IS1081904..83112 [-], 1209172051603  [UniProt] IS10VF
70spa0783835..86330 [+], 2496172051604  [UniProt] hypothetical protein
71spa0886334..87803 [+], 1470172051605  [UniProt] hypothetical protein
72spa0987816..89477 [+], 1662172051606  [UniProt] hypothetical protein
73spa1089470..90177 [+], 708172051607  [UniProt] hypothetical protein
74spa1190286..91680 [+], 1395172051608  [UniProt] hypothetical protein
75vrlR91687..92181 [+], 495pseudogene -
76traF92280..93224 [+], 945172051609  [UniProt] TraF
77traH93227..94615 [+], 1389172051610  [UniProt] TraH
78traG94619..98188 [+], 3570172051611  [UniProt] TraG
79eex98221..98652 [-], 432172051612  [UniProt] Eex
80setC98710..99243 [-], 534172051613  [UniProt] SetC
81setD99240..99539 [-], 300172051614  [UniProt] SetD
82s083100071..100679 [-], 609172051615  [UniProt] hypothetical protein
83s084100720..101589 [-], 870172051616  [UniProt] hypothetical protein
84setQ101645..101896 [-], 252172051617  [UniProt] SetQ
85setR102014..102661 [+], 648172051618  [UniProt] SetR
 
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
Proteins79Fasta
(1) 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
(2) Ceccarelli D; Daccord A; Rene M; Burrus V (2008). Identification of the origin of transfer (oriT) and a new gene required for mobilization of the SXT/R391 family of integrating conjugative elements. J Bacteriol. 190(15):5328-38. [PudMed:18539733] experimental
(3) Osorio CR; Marrero J; Wozniak RA; Lemos ML; Burrus V; Waldor MK (2008). Genomic and functional analysis of ICEPdaSpa1, a fish-pathogen-derived SXT-related integrating conjugative element that can mobilize a virulence plasmid. J Bacteriol. 190(9):3353-61. [PudMed:18326579] experimental
(4) 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
(5) Juiz-Rio S; Osorio CR; de Lorenzo V; Lemos ML (2005). Subtractive hybridization reveals a high genetic diversity in the fish pathogen Photobacterium damselae subsp. piscicida: evidence of a SXT-like element. Microbiology. 151(Pt 8):2659-69. [PudMed:16079344] experimental
 
experimental experimental literature
in_silico in silico analysis literature