IslandPathversion 1.0

IslandPath Analysis: Pseudomonas syringae pv. tomato str. DC3000



Each circle in the graphic corresponds to a predicted protein-coding ORF in the genome. Circle colours indicate if an ORF has a higher or lower %G+C than cutoffs you set below --(default is +/- 3.48 of the mean %G+C). Strike lines across the circles represent regions with dinucleotide bias above a pre-determined cutoff. Click on a circle to view a different portion of the table presented below the graph (default is the first 100 ORFs).
A yellow circle indicates its %G+C value is bigger than the high value. A green circle indicates its %G+C value is bigger than the low value and smaller than the high value. A pink circle indicates its %G+C value is smaller than the low value. A strike line across the circles indicates the region has dinucleotide bais above 1 STD DEV. A black verticle bar indicates a transfer RNA gene lies between the two ORFs. A purple verticle bar indicates a ribosomal RNA gene lies between the two ORFs. A deep blue verticle bar indicates both a tRNA and rRNA gene lie between the two ORFs. A black square indicates the dot is annotated as a transposase. A black triangle indicates the dot is annotated as an integrase. Low: High: Mean: 58.61 STD DEV: 4.14
Pseudomonas syringae pv. tomato str. DC3000, complete genome - 1..6397126
5475 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
1	 57.94	0	339..1874	+	511	28867244	dnaA	PSPTO_0001	-	chromosomal replication initiation protein
2	 56.61	0	1913..3016	+	367	28867245	dnaN	PSPTO_0002	-	DNA polymerase III subunit beta
3	 56.34	0	3039..4142	+	367	28867246	recF	PSPTO_0003	-	recombination protein F
4	 56.16	0	4147..6564	+	805	28867247	gyrB	PSPTO_0004	-	DNA gyrase subunit B
5	 53.72	-1	7092..8798	+	568	28867248	-	PSPTO_0005	-	type I restriction-modification system, M subunit, putative
6	 51.15	-1	8861..10168	+	435	28867249	-	PSPTO_0006	-	type I restriction-modification system S subunit
7	 55.03	0	10179..11063	+	294	28867250	-	PSPTO_0007	-	hypothetical protein
8	 55.97	0	11067..14366	+	1099	28867251	-	PSPTO_0008	-	HsdR family type I site-specific deoxyribonuclease
9	 58.05	0	14512..15741	-	409	28867252	-	PSPTO_0009	-	ISPsy3, transposase
10	 55.70	0	16743..17453	+	236	28867253	-	PSPTO_0011	-	hypothetical protein
11	 54.76	0	17514..18017	+	167	28867254	-	PSPTO_0012	-	hypothetical protein
12	 57.72	0	17992..18561	+	189	28867255	-	PSPTO_0013	-	hypothetical protein
13	 65.98	+1	18573..18863	-	96	28867256	-	PSPTO_0014	-	hypothetical protein
14	 55.56	0	19321..19932	+	203	28867257	-	PSPTO_0015	-	hypothetical protein
15	 53.42	-1	19968..20435	+	155	28867258	-	PSPTO_0016	-	hypothetical protein
16	 53.74	-1	20738..23143	-	801	28867259	-	PSPTO_0017	-	helicase/SNF2 domain-containing protein
17	 57.78	0	23290..24099	-	269	28867260	-	PSPTO_0018	-	transposase/IS protein
18	 59.24	0	24096..25118	-	340	28867261	-	PSPTO_0019	-	ISPsy4, transposase
19	 54.42	-1	25187..25537	-	116	28867262	-	PSPTO_0020	-	hypothetical protein
20	 51.09	-1	25556..27796	-	746	28867263	-	PSPTO_0021	-	hypothetical protein
21	 56.15	0	28478..29323	+	281	28867264	-	PSPTO_0022	-	DNA-binding protein
22	 53.67	-1	29320..29919	+	199	28867265	-	PSPTO_0023	-	hypothetical protein
23	 59.42	0	30850..30987	+	45	28867266	-	PSPTO_0024	-	hypothetical protein
24	 56.51	0	31338..31967	+	209	28867267	-	PSPTO_0025	-	HAD superfamily hydrolase
25	 52.91	-1	32022..33068	-	348	28867268	-	PSPTO_0026	-	hypothetical protein
26	 51.59	-1	33254..33976	+	240	28867269	-	PSPTO_0027	-	hypothetical protein
27	 46.57	-2	33978..35933	+	651	28867270	-	PSPTO_0028	-	transposase
28	 51.07	-1	35933..36868	+	311	28867271	-	PSPTO_0029	-	transposition helper protein
29	 53.42	-1	36881..38767	+	628	28867272	-	PSPTO_0030	-	hypothetical protein
30	 51.90	-1	39345..40082	+	245	28867273	-	PSPTO_0031	-	Ser/Thr protein phosphatase family protein
31	 48.81	-2	40884..41852	-	322	28867274	-	PSPTO_0032	-	hypothetical protein
32	 47.35	-2	41852..42757	-	301	28867275	-	PSPTO_0033	-	ParB family protein
33	 50.29	-2	42754..44310	-	518	28867276	-	PSPTO_0034	-	recombinase, putative
34	 56.31	0	45183..46736	-	517	28867277	-	PSPTO_0035	-	ISPsy5, transposase
35	 48.33	-2	46754..47113	-	119	28867278	-	PSPTO_0036	-	ISPsy5, Orf1
36	 53.37	-1	47448..52358	+	1636	28867279	-	PSPTO_0037	-	helicase domain-containing protein
37	 53.32	-1	52403..54493	+	696	28867280	-	PSPTO_0038	-	hypothetical protein
38	 56.31	0	54971..56524	-	517	28867281	-	PSPTO_0039	-	ISPsy5, transposase
39	 48.33	-2	56542..56901	-	119	28867282	-	PSPTO_0040	-	ISPsy5, Orf1
40	 54.01	-1	56961..57347	+	128	28867283	-	PSPTO_0041	-	hypothetical protein
41	 51.38	-1	58344..59906	+	520	28867284	-	PSPTO_0043	-	cytidine/deoxycytidylate deaminase family protein
42	 54.57	0	60407..61423	-	338	28867285	hopK1	PSPTO_0044	-	type III effector HopK1
43	 52.83	-1	61526..61684	+	52	28867286	-	PSPTO_0045	-	hypothetical protein
44	 54.78	0	62078..64063	+	661	28867287	-	PSPTO_0046	-	hypothetical protein
45	 53.49	-1	64066..65970	+	634	28867288	-	PSPTO_0047	-	UvrD/REP helicase family protein
46	 49.96	-2	67445..68611	+	388	28867289	-	PSPTO_0048	-	hypothetical protein
47	 49.73	-2	68863..69606	+	247	28867290	-	PSPTO_0049	-	hypothetical protein
48	 47.75	-2	69623..70954	+	443	28867291	-	PSPTO_0050	-	hypothetical protein
49	 53.38	-1	71041..71484	+	147	28867292	-	PSPTO_0051	-	hypothetical protein
50	 52.99	-1	71711..73480	+	589	28867293	-	PSPTO_0052	-	hypothetical protein
51	 55.60	0	73641..75086	-	481	28867294	-	PSPTO_0053	-	hypothetical protein
52	 56.86	0	75073..75684	-	203	28867295	-	PSPTO_0054	-	hypothetical protein
53	 59.24	0	75949..76971	+	340	28867296	-	PSPTO_0055	-	ISPsy4, transposase
54	 57.78	0	76968..77777	+	269	28867297	-	PSPTO_0056	-	transposase/IS protein
55	 51.74	-1	78120..79010	-	296	28867298	-	PSPTO_0057	-	transposition helper protein
56	 55.48	0	79007..80794	-	595	28867299	-	PSPTO_0058	-	transposase
57	 54.11	-1	80922..81542	-	206	28867300	-	PSPTO_0059	-	hypothetical protein
58	 58.45	0	82500..83363	+	287	28867301	hopY1	PSPTO_0061	-	type III effector HopY1
59	 60.40	0	83552..84859	-	435	28867302	-	PSPTO_0062	-	citrate transporter
60	 59.65	0	85159..85557	+	132	28867303	-	PSPTO_0063	-	hypothetical protein
61	 60.80	0	85784..87181	-	465	28867304	-	PSPTO_0064	-	hypothetical protein
62	 61.71	0	87268..89343	-	691	28867305	recG	PSPTO_0065	-	ATP-dependent DNA helicase RecG
63	 59.42	0	89355..90278	-	307	28867306	-	PSPTO_0066	-	oxidative stress regulatory protein OxyR, putative
64	 61.31	0	90371..91117	-	248	28867307	tonB-1	PSPTO_0067	-	tonB protein
65	 59.62	0	91114..91539	-	141	28867308	exbD-1	PSPTO_0068	-	biopolymer transport protein ExbD
66	 62.70	0	91543..92499	-	318	28867309	exbB-1	PSPTO_0069	-	TonB system transport protein ExbB
67	 64.19	+1	92710..93558	+	282	28867310	-	PSPTO_0070	-	hypothetical protein
68	 58.40	0	93607..94344	-	245	28867311	-	PSPTO_0071	-	putative lipoprotein
69	 57.22	0	94399..94779	-	126	28867312	-	PSPTO_0072	-	endoribonuclease L-PSP, putative
70	 59.97	0	94805..96910	-	701	28867313	spoT	PSPTO_0073	-	guanosine-3,5-bis(diphosphate) 3-pyrophosphohydrolase
71	 54.55	0	96971..97234	-	87	28867314	rpoZ	PSPTO_0074	-	DNA-directed RNA polymerase subunit omega
72	 58.76	0	97382..98026	-	214	28867315	gmk	PSPTO_0075	-	guanylate kinase
73	 61.69	0	98040..98903	-	287	28867316	-	PSPTO_0076	-	hypothetical protein
74	 61.13	0	99223..99945	+	240	28867317	rph	PSPTO_0077	-	ribonuclease PH
75	 51.34	-1	99962..100333	+	123	28867318	-	PSPTO_0078	-	hypothetical protein
76	 56.54	0	100403..101182	-	259	28867319	-	PSPTO_0079	-	exodeoxyribonuclease III, putative
77	 60.75	0	101265..101906	+	213	28867320	pyrE	PSPTO_0080	-	orotate phosphoribosyltransferase
78	 63.98	+1	101917..102549	+	210	28867321	-	PSPTO_0081	-	hypothetical protein
79	 58.72	0	102801..103706	-	301	28867322	argB	PSPTO_0082	-	acetylglutamate kinase
80	 58.66	0	103735..105132	-	465	28867323	algC	PSPTO_0083	-	phosphomannomutase AlgC
81	 61.40	0	106375..106830	-	151	28867324	dut	PSPTO_0084	-	deoxyuridine 5'-triphosphate nucleotidohydrolase
82	 61.86	0	106837..108084	-	415	28867325	coaBC	PSPTO_0085	-	bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase
83	 59.56	0	108181..108855	+	224	28867326	radC	PSPTO_0086	-	DNA repair protein RadC
84	 59.17	0	108910..110496	-	528	28867327	-	PSPTO_0087	-	solute-binding family 5 protein
85	 57.78	0	110557..110691	-	44	28867328	-	PSPTO_0088	-	hypothetical protein
86	 51.71	-1	110860..111093	+	77	28867329	rpmB	PSPTO_0089	-	50S ribosomal protein L28
87	 43.59	-2	111105..111260	+	51	28867330	rpmG	PSPTO_0090	-	50S ribosomal protein L33
88	 58.74	0	111368..111733	-	121	28867331	-	PSPTO_0091	-	hypothetical protein
89	 62.12	0	111972..113465	+	497	28867332	-	PSPTO_0092	-	aldehyde dehydrogenase family protein
90	 51.59	-1	113528..113779	-	83	28867333	-	PSPTO_0093	-	hypothetical protein
91	 63.71	+1	113892..115040	+	382	28867334	-	PSPTO_0094	-	hypothetical protein
92	 61.33	0	115037..116665	-	542	28867335	-	PSPTO_0095	-	phospholipase D family protein
93	 61.46	0	116690..118111	-	473	28867336	-	PSPTO_0096	-	GntR family transcriptional regulator
94	 59.15	0	118233..118538	+	101	28867337	-	PSPTO_0097	-	hypothetical protein
95	 61.42	0	118544..119857	-	437	28867338	-	PSPTO_0098	-	hypothetical protein
96	 61.76	0	119909..120316	+	135	28867339	-	PSPTO_0099	-	hypothetical protein
97	 58.90	0	120331..120819	-	162	28867340	lrp	PSPTO_0100	-	leucine-responsive regulatory protein
98	 60.75	0	120976..122277	+	433	28867341	dadA	PSPTO_0101	-	D-amino acid dehydrogenase small subunit
99	 59.04	0	122249..122602	+	117	28867342	-	PSPTO_0102	-	endoribonuclease L-PSP family protein
100	 63.04	+1	122682..123755	+	357	28867343	dadX	PSPTO_0103	-	alanine racemase
58.61	MEAN

4.14	STD DEV



Last Updated: Dec 04, 2008

Funding for this work was provided by the Peter Wall Institute for Advanced Studies. This service is hosted by the Brinkman Laboratory of the Department of Molecular Biology and Biochemistry at Simon Fraser University.