ICEberg
I. Information of ICE
ICEberg ID406
Name YAPI This ICE is derived from experimental literature
ICEO ID ICEO_0000155
OrganismYersinia pseudotuberculosis 32777
Size (bp)98112
GC content [Genome] (%)47.78
Insertion sitetRNA-Phe
FunctionPathogenicity
Species that ICE can be transferred to-
Nucleotide SequenceAJ627388 (complete ICE sequence in this GenBank file)
Replicon-
Coordinates1402..99513 
Putative oriT region -
Putative relaxase coordinates: 97007..98203; Gene: api94;  Family:  MOBH


II. ICE interaction with IME/CIME/

The interaction information of YAPI is not available.



The graph information of YAPI components from AJ627388
Complete gene list of YAPI from AJ627388
#Gene Coordinates [+/-], size (bp) Product 
(GenBank annotation)		 *Reannotation 
1YPO03392..973 [+], 972putative viral enhancing factor
2YP03401036..1134 [-], 99transposase
3api11534..2415 [+], 882putative ATPase
4api22408..3769 [+], 1362putative DNA binding protein with DNA-dependent ATPase activity
5api33762..5444 [+], 1683conserved hypothetical protein
6api45441..6022 [+], 582hypothetical protein
7api56488..7687 [+], 1200hypothetical protein
8api67847..8605 [+], 759hypothetical protein
9api78906..9448 [+], 543hypothetical protein
10api89651..10082 [+], 432hypothetical protein
11api910253..10486 [+], 234putative prevent-host-death family protein
12api1010483..10869 [+], 387hypothetical protein
13pilL11007..12077 [+], 1071putative membrane anchored proteinTfc2, T4SS component  VF 
14pilM12079..12516 [+], 438putative exported proteinVF 
15pilN12530..14122 [+], 1593putative lipoproteinVF 
16pilO14125..15462 [+], 1338putative fimbrial proteinVF 
17pilP15449..15943 [+], 495putative fimbrial proteinVF 
18pilQ15953..17506 [+], 1554putative ATP binding proteinDotB, T4SS component  VF 
19pilR17499..18608 [+], 1110putative integral inner membrane proteinVF 
20pilS18623..19210 [+], 588putative major pilin subunitVF 
21pilU19207..19875 [+], 669putative cysteine-type peptidaseVF 
22pilV19879..21156 [+], 1278secondary type IV prepilinVF 
23pilW21211..22170 [+], 960putative transposaseVF 
24api2222485..22841 [-], 357putative DNA binding protein
25api2323249..23581 [+], 333hypothetical protein
26api2423673..24491 [+], 819conserved hypothetical proteinTfc3, T4SS component 
27api2524470..25108 [+], 639conserved hypothetical proteinTfc4, T4SS component 
28api2625105..25626 [+], 522hypothetical proteinTfc5, T4SS component 
29api2725685..27805 [+], 2121hypothetical proteinTfc6, T4SS component 
30api2827805..28557 [+], 753putative membrane proteinTfc8, T4SS component 
31api2928708..29400 [-], 693hypothetical protein
32api3029461..29931 [-], 471hypothetical protein
33api3130315..30623 [+], 309hypothetical proteinTfc9, T4SS component 
34api3230623..30868 [+], 246putative transmembrane protein
35api3330884..31234 [+], 351putative transmembrane proteinTfc10, T4SS component 
36api3431244..31618 [+], 375putative transmembrane proteinTfc11, T4SS component 
37api3531615..32268 [+], 654putative exported proteinTfc12, T4SS component 
38api3632298..33131 [+], 834hypothetical proteinTfc13, T4SS component 
39api3733128..34645 [+], 1518putative exported proteinTfc14, T4SS component 
40api3834655..35059 [+], 405putative lipoproteinTfc15, T4SS component 
41api3935059..37905 [+], 2847hypothetical proteinTfc16, T4SS component 
42api4038208..39923 [+], 1716hypothetical protein
43api4140195..41403 [-], 1209is285 transposase
44api4241489..42418 [+], 930DNA binding protein
45api4342821..43702 [+], 882hypothetical protein
46api4444103..45248 [+], 1146hypothetical protein
47api4545483..46220 [+], 738hypothetical protein
48api4646406..47275 [+], 870putative transposase
49api4747437..48117 [-], 681hypothetical protein
50api4848110..48829 [-], 720hypothetical protein
51api4949215..50921 [+], 1707putative HsdM-like N-methyl transferase
52api5050911..52260 [+], 1350putative HsdS-like DNA methylase
53api5152253..53440 [+], 1188conserved hypothetical protein
54api5253441..56572 [+], 3132hsdr-like Type I restriction enzyme
55api5356749..57153 [+], 405hypothetical proteinTfc24, T4SS component 
56api5457150..58103 [+], 954conserved hypothetical proteinTfc23, T4SS component 
57api5558124..59530 [+], 1407putative exported proteinTfc22, T4SS component 
58api5659530..61053 [+], 1524putative membrane proteinTfc19, T4SS component 
59api5761085..61381 [-], 297hypothetical proteinTfc20, T4SS component 
60api5861449..62708 [-], 1260hypothetical protein
61api5963480..63677 [-], 198hypothetical protein
62api6063846..64013 [+], 168putative prophage protein
63api6164053..64295 [-], 243api61 protein
64api6264567..64758 [+], 192hypothetical protein
65api6364807..65058 [+], 252fragment of conserved hypothetical protein
66api6465389..66849 [+], 1461putative tRNA synthetase
67api6566836..67300 [+], 465hypothetical protein
68api6667291..67764 [+], 474n-acetyltransferase
69api6767813..69441 [+], 1629putative AMP-binding enzyme
70api6869438..70097 [+], 660putative acyl carrier-like protein
71api6970097..71143 [+], 1047putative oxidoreductase
72api7071140..71934 [+], 795hypothetical protein
73api7172064..72960 [+], 897putative esterase
74api7272968..73366 [+], 399putative rhodanese-like protein
75api7373462..73827 [+], 366hypothetical protein
76api7473855..75186 [+], 1332putative oxidoreductase
77api7575212..76543 [+], 1332putative diaminobutyrate transaminase
78api7676540..77772 [+], 1233putative FAD-dependent monooxygenase
79api7777984..78943 [+], 960integral membrane protein
80api7879095..80012 [+], 918hypothetical protein
81api7980164..81198 [+], 1035putative transposase
82api8081503..81766 [+], 264putative transposase
83api8182909..83943 [-], 1035putative transposase
84api8284116..84424 [+], 309putative integrase
85api8384438..85460 [+], 1023transposase
86api8485460..86239 [+], 780putative transposaseTrbB, T4SS component 
87api8586255..86965 [+], 711putative integrase
88api8687199..87249 [-], 51putative transposase
89api8787310..87930 [-], 621hypothetical protein
90api8888294..88767 [-], 474hypothetical protein
91api8988767..93038 [-], 4272putative membrane-bound sugar-binding protein
92api9093069..93500 [-], 432hypothetical protein
93api9194168..95139 [+], 972hypothetical protein
94api9295249..96154 [+], 906hypothetical protein
95api9396168..96815 [-], 648putative PilK-like exported protein
96api9497007..98203 [+], 1197hypothetical proteinRelaxase, MOBH Family
97api9598233..99213 [+], 981putative phage integraseIntegrase 
98YPO034199685..100260 [-], 576putative transcription regulator
99YP0342100680..102695 [+], 2016putative oxidoreductase
 
flank Flanking regions

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins94Fasta
(1) Seth-Smith HM; Fookes MC; Okoro CK; Baker S; Harris SR; Scott P; Pickard D; Quail MA; Churcher C; Sanders M; Harmse J; Dougan G; Parkhill J; Thomson NR (2012). Structure, diversity, and mobility of the Salmonella pathogenicity island 7 family of integrative and conjugative elements within Enterobacteriaceae. J Bacteriol. 194(6):1494-504. [PubMed:22247511] in_silico
(2) Collyn F; Billault A; Mullet C; Simonet M; Marceau M (2004). YAPI, a new Yersinia pseudotuberculosis pathogenicity island. Infect Immun. 72(8):4784-90. [PubMed:15271940] experimental
(3) Collyn F; Lety MA; Nair S; Escuyer V; Ben Younes A; Simonet M; Marceau M (2002). Yersinia pseudotuberculosis harbors a type IV pilus gene cluster that contributes to pathogenicity. Infect Immun. 70(11):6196-205. [PubMed:12379698] experimental
 
experimental experimental literature
in_silico in silico analysis literature

Genomics & Bioinformatics Group in MML, SJTU