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 - 0..6397126
5471 proteins

Pos	 %G+C  SD      Location		Strand	Length	PID	Gene	Synonym	Code	Product

1	 57.94         339..1874     	 +	511	28867244	dnaA	PSPTO0001	-	chromosomal replication initiator protein DnaA	
2	 56.61        1913..3016     	 +	367	28867245	dnaN	PSPTO0002	-	DNA polymerase III, beta subunit	
3	 56.34        3039..4142     	 +	367	28867246	recF	PSPTO0003	-	DNA replication and repair protein RecF	
4	 56.16        4147..6564     	 +	805	28867247	gyrB	PSPTO0004	-	DNA gyrase, subunit B	
5	 53.72 -1     7092..8798     	 +	568	28867248	-	PSPTO0005	-	type I restriction-modification system, M subunit, putative	
6	 51.15 -1     8861..10168    	 +	435	28867249	-	PSPTO0006	-	type I restriction-modification system, S subunit, EcoA family	
7	 55.03       10179..11063    	 +	294	28867250	-	PSPTO0007	-	hypothetical protein	
8	 55.97       11067..14366    	 +	1099	28867251	-	PSPTO0008	-	type I site-specific deoxyribonuclease, HsdR family	
9	 58.05       14512..15741    	 -	409	28867252	-	PSPTO0009	-	ISPsy3, transposase	
10	 55.70       16743..17453    	 +	236	28867253	-	PSPTO0011	-	conserved hypothetical protein	
11	 54.76       17514..18017    	 +	167	28867254	-	PSPTO0012	-	hypothetical protein	
12	 57.72       17992..18561    	 +	189	28867255	-	PSPTO0013	-	hypothetical protein	
13	 65.98 +1    18573..18863    	 -	96	28867256	-	PSPTO0014	-	hypothetical protein	
14	 55.56       19321..19932    	 +	203	28867257	-	PSPTO0015	-	hypothetical protein	
15	 53.42 -1    19968..20435    	 +	155	28867258	-	PSPTO0016	-	hypothetical protein	
16	 53.74 -1    20738..23143    	 -	801	28867259	-	PSPTO0017	-	helicase/SNF2 family domain protein	
17	 57.78       23290..24099    	 -	269	28867260	-	PSPTO0018	-	ISPsy4, transposition helper protein	
18	 59.24       24096..25118    	 -	340	28867261	-	PSPTO0019	-	ISPsy4, transposase	
19	 54.42 -1    25187..25537    	 -	116	28867262	-	PSPTO0020	-	hypothetical protein	
20	 51.09 -1    25556..27796    	 -	746	28867263	-	PSPTO0021	-	hypothetical protein	
21	 56.15       28478..29323    	 +	281	28867264	-	PSPTO0022	-	DNA-binding protein	
22	 53.67 -1    29320..29919    	 +	199	28867265	-	PSPTO0023	-	hypothetical protein	
23	 59.42       30850..30987    	 +	45	28867266	-	PSPTO0024	-	hypothetical protein	
24	 56.51       31338..31967    	 +	209	28867267	-	PSPTO0025	-	hydrolase, haloacid dehalogenase-like family	
25	 52.91 -1    32022..33068    	 -	348	28867268	-	PSPTO0026	-	hypothetical protein	
26	 51.59 -1    33254..33976    	 +	240	28867269	-	PSPTO0027	-	hypothetical protein	
27	 46.57 -2    33978..35933    	 +	651	28867270	-	PSPTO0028	-	transposase	
28	 51.07 -1    35933..36868    	 +	311	28867271	-	PSPTO0029	-	transposition helper protein	
29	 53.42 -1    36881..38767    	 +	628	28867272	-	PSPTO0030	-	hypothetical protein	
30	 51.90 -1    39345..40082    	 +	245	28867273	-	PSPTO0031	-	Ser/Thr protein phosphatase family protein	
31	 48.81 -2    40884..41852    	 -	322	28867274	-	PSPTO0032	-	conserved hypothetical protein	
32	 47.35 -2    41852..42757    	 -	301	28867275	-	PSPTO0033	-	ParB family protein	
33	 50.29 -2    42754..44310    	 -	518	28867276	-	PSPTO0034	-	recombinase, putative	
34	 56.31       45183..46736    	 -	517	28867277	-	PSPTO0035	-	ISPsy5, transposase	
35	 48.33 -2    46754..47113    	 -	119	28867278	-	PSPTO0036	-	ISPsy5, Orf1	
36	 53.37 -1    47448..52358    	 +	1636	28867279	-	PSPTO0037	-	helicase domain protein	
37	 53.32 -1    52403..54493    	 +	696	28867280	-	PSPTO0038	-	conserved domain protein	
38	 56.31       54971..56524    	 -	517	28867281	-	PSPTO0039	-	ISPsy5, transposase	
39	 48.33 -2    56542..56901    	 -	119	28867282	-	PSPTO0040	-	ISPsy5, Orf1	
40	 54.01 -1    56961..57347    	 +	128	28867283	-	PSPTO0041	-	hypothetical protein	
41	 51.38 -1    58344..59906    	 +	520	28867284	-	PSPTO0043	-	cytidine/deoxycytidylate deaminase family protein	
42	 54.57       60407..61423    	 -	338	28867285	hopPtoK	PSPTO0044	-	type III effector HopPtoK	
43	 52.83 -1    61526..61684    	 +	52	28867286	-	PSPTO0045	-	hypothetical protein	
44	 54.78       62078..64063    	 +	661	28867287	-	PSPTO0046	-	conserved hypothetical protein	
45	 53.49 -1    64066..65970    	 +	634	28867288	-	PSPTO0047	-	UvrD/REP helicase family protein	
46	 49.96 -2    67445..68611    	 +	388	28867289	-	PSPTO0048	-	hypothetical protein	
47	 49.73 -2    68863..69606    	 +	247	28867290	-	PSPTO0049	-	conserved hypothetical protein	
48	 47.75 -2    69623..70954    	 +	443	28867291	-	PSPTO0050	-	conserved hypothetical protein	
49	 53.38 -1    71041..71484    	 +	147	28867292	-	PSPTO0051	-	conserved hypothetical protein	
50	 52.99 -1    71711..73480    	 +	589	28867293	-	PSPTO0052	-	hypothetical protein	
51	 55.60       73641..75086    	 -	481	28867294	-	PSPTO0053	-	hypothetical protein	
52	 56.86       75073..75684    	 -	203	28867295	-	PSPTO0054	-	hypothetical protein	
53	 59.24       75949..76971    	 +	340	28867296	-	PSPTO0055	-	ISPsy4, transposase	
54	 57.78       76968..77777    	 +	269	28867297	-	PSPTO0056	-	ISPsy4, transposition helper protein	
55	 51.74 -1    78120..79010    	 -	296	28867298	-	PSPTO0057	-	transposition helper protein	
56	 55.48       79007..80794    	 -	595	28867299	-	PSPTO0058	-	transposase	
57	 54.11 -1    80922..81542    	 -	206	28867300	-	PSPTO0059	-	hypothetical protein	
58	 58.45       82500..83363    	 +	287	28867301	-	PSPTO0061	-	candidate type III helper HolPtoY	
59	 60.40       83552..84859    	 -	435	28867302	-	PSPTO0062	-	citrate transporter	
60	 59.65       85159..85557    	 +	132	28867303	-	PSPTO0063	-	conserved hypothetical protein	
61	 60.80       85784..87181    	 -	465	28867304	-	PSPTO0064	-	conserved hypothetical protein	
62	 61.71       87268..89343    	 -	691	28867305	recG	PSPTO0065	-	ATP-dependent DNA helicase RecG	
63	 59.42       89355..90278    	 -	307	28867306	-	PSPTO0066	-	oxidative stress regulatory protein OxyR, putative	
64	 61.31       90371..91117    	 -	248	28867307	tonB-1	PSPTO0067	-	tonB protein	
65	 59.62       91114..91539    	 -	141	28867308	exbD-1	PSPTO0068	-	TonB system transport protein ExbD	
66	 62.70       91543..92499    	 -	318	28867309	exbB-1	PSPTO0069	-	TonB system transport protein ExbB	
67	 64.19 +1    92710..93558    	 +	282	28867310	-	PSPTO0070	-	conserved hypothetical protein	
68	 58.40       93607..94344    	 -	245	28867311	-	PSPTO0071	-	lipoprotein, putative	
69	 57.22       94399..94779    	 -	126	28867312	-	PSPTO0072	-	endoribonuclease L-PSP, putative	
70	 59.97       94805..96910    	 -	701	28867313	spoT	PSPTO0073	-	guanosine-3,5-bis(diphosphate) 3-pyrophosphohydrolase	
71	 54.55       96971..97234    	 -	87	28867314	rpoZ	PSPTO0074	-	DNA-directed RNA polymerase, omega subunit	
72	 58.76       97382..98026    	 -	214	28867315	gmk	PSPTO0075	-	guanylate kinase	
73	 61.69       98040..98903    	 -	287	28867316	-	PSPTO0076	-	conserved hypothetical protein TIGR00255	
74	 61.13       99223..99945    	 +	240	28867317	rph	PSPTO0077	-	ribonuclease PH	
75	 51.34 -1    99962..100333   	 +	123	28867318	-	PSPTO0078	-	conserved hypothetical protein	
76	 56.54      100403..101182   	 -	259	28867319	-	PSPTO0079	-	exodeoxyribonuclease III, putative	
77	 60.75      101265..101906   	 +	213	28867320	pyrE	PSPTO0080	-	orotate phosphoribosyltransferase	
78	 63.98 +1   101917..102549   	 +	210	28867321	-	PSPTO0081	-	conserved hypothetical protein	
79	 58.72      102801..103706   	 -	301	28867322	argB	PSPTO0082	-	acetylglutamate kinase	
80	 58.66      103735..105132   	 -	465	28867323	algC	PSPTO0083	-	phosphomannomutase AlgC	
81	 61.40      106375..106830   	 -	151	28867324	dut	PSPTO0084	-	deoxyuridine 5'triphosphate nucleotidohydrolase	
82	 61.86      106837..108084   	 -	415	28867325	coaBC	PSPTO0085	-	phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase	
83	 59.56      108181..108855   	 +	224	28867326	radC	PSPTO0086	-	DNA repair protein RadC	
84	 59.17      108910..110496   	 -	528	28867327	-	PSPTO0087	-	bacterial extracellular solute-binding protein, family 5	
85	 57.78      110557..110691   	 -	44	28867328	-	PSPTO0088	-	hypothetical protein	
86	 51.71 -1   110860..111093   	 +	77	28867329	rpmB	PSPTO0089	-	ribosomal protein L28	
87	 43.59 -2   111105..111260   	 +	51	28867330	rpmG	PSPTO0090	-	ribosomal protein L33	
88	 58.74      111368..111733   	 -	121	28867331	-	PSPTO0091	-	conserved hypothetical protein	
89	 62.12      111972..113465   	 +	497	28867332	-	PSPTO0092	-	aldehyde dehydrogenase family protein	
90	 51.59 -1   113528..113779   	 -	83	28867333	-	PSPTO0093	-	hypothetical protein	
91	 63.71 +1   113892..115040   	 +	382	28867334	-	PSPTO0094	-	membrane protein, putative	
92	 61.33      115037..116665   	 -	542	28867335	-	PSPTO0095	-	phospholipase D family protein	
93	 61.46      116690..118111   	 -	473	28867336	-	PSPTO0096	-	transcriptional regulator, GntR family/aminotransferase, class I	
94	 59.15      118233..118538   	 +	101	28867337	-	PSPTO0097	-	hypothetical protein	
95	 61.42      118544..119857   	 -	437	28867338	-	PSPTO0098	-	conserved hypothetical protein	
96	 61.76      119909..120316   	 +	135	28867339	-	PSPTO0099	-	conserved hypothetical protein	
97	 58.90      120331..120819   	 -	162	28867340	lrp	PSPTO0100	-	leucine-responsive regulatory protein	
98	 60.75      120976..122277   	 +	433	28867341	dadA	PSPTO0101	-	D-amino acid dehydrogenase, small subunit	
99	 59.04      122249..122602   	 +	117	28867342	-	PSPTO0102	-	endoribonuclease L-PSP family protein	
100	 63.04 +1   122682..123755   	 +	357	28867343	dadX	PSPTO0103	-	alanine racemase, catabolic	

 
 58.61 MEAN 
 
 4.14  STD DEV 




Last Updated: Sept 17 2004 (Note: update adds new organisms but does not affect the existing records)
      
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.