IslandPath Analysis: Pseudomonas putida KT2440



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: 61.83   STD DEV: 4.04
Pseudomonas putida KT2440, complete genome - 1..6181863
5350 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
1	 62.54	0	147..1019	-	290	26986746	parB	PP_0001	-	parB-like partition protein
2	 60.10	0	1029..1820	-	263	26986747	-	PP_0002	-	ParA family protein
3	 58.99	0	1839..2489	-	216	26986748	gidB	PP_0003	-	glucose-inhibited division protein B
4	 61.45	0	2486..4381	-	631	26986749	gidA	PP_0004	-	tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA
5	 62.73	0	5012..6382	-	456	26986750	trmE	PP_0005	-	tRNA modification GTPase TrmE
6	 58.59	0	6471..8153	-	560	26986751	yidC	PP_0006	-	putative inner membrane protein translocase component YidC
7	 55.69	-1	8156..8401	-	81	26986752	-	PP_0007	-	hypothetical protein
8	 57.28	-1	8394..8798	-	134	26986753	rnpA	PP_0008	-	ribonuclease P
9	 58.52	0	8812..8946	-	44	26986754	rpmH	PP_0009	-	50S ribosomal protein L34
10	 58.32	0	9542..11062	+	506	26986755	dnaA	PP_0010	-	chromosomal replication initiation protein
11	 58.70	0	11103..12206	+	367	26986756	dnaN	PP_0011	-	DNA polymerase III subunit beta
12	 58.88	0	12222..13325	+	367	26986757	recF	PP_0012	-	recombination protein F
13	 57.46	-1	13330..15750	+	806	26986758	gyrB	PP_0013	-	DNA gyrase subunit B
14	 53.54	-2	17133..19166	+	677	26986759	-	PP_0014	-	transposase, putative
15	 52.40	-2	19163..20122	+	319	26986760	-	PP_0015	-	AAA ATPase
16	 54.98	-1	20198..22114	+	638	26986761	-	PP_0016	-	hypothetical protein
17	 54.17	-1	22171..22530	+	119	26986762	-	PP_0017	-	transcriptional regulator MvaT, P16 subunit, putative
18	 52.55	-2	23176..24018	+	280	26986763	-	PP_0018	-	hypothetical protein
19	 54.22	-1	24000..24698	+	232	26986764	-	PP_0019	-	hypothetical protein
20	 54.00	-1	24695..25570	+	291	26986765	-	PP_0020	-	hypothetical protein
21	 53.25	-2	25881..26804	+	307	26986766	-	PP_0021	-	hypothetical protein
22	 53.48	-2	26989..27390	-	133	26986767	-	PP_0022	-	hypothetical protein
23	 54.26	-1	27599..27727	-	42	26986768	-	PP_0023	-	hypothetical protein
24	 55.18	-1	27850..29547	-	565	26986769	-	PP_0024	-	hypothetical protein
25	 53.59	-2	29990..30142	-	50	26986770	-	PP_0025	-	hypothetical protein
26	 58.06	0	30431..31336	+	301	26986771	-	PP_0026	-	CDF family cobalt/cadmium/zinc transporter
27	 56.01	-1	31404..31844	+	146	26986772	-	PP_0027	-	hypothetical protein
28	 47.71	-2	31877..32203	-	108	26986773	-	PP_0028	-	hypothetical protein
29	 54.81	-1	32893..33567	+	224	26986774	czrR-1	PP_0029	-	DNA-binding response regulator CzrR
30	 56.87	-1	33564..34982	+	472	26986775	-	PP_0030	-	sensor histidine kinase
31	 58.67	0	35040..35627	-	195	26986776	-	PP_0031	-	hypothetical protein
32	 48.65	-2	35894..36115	+	73	26986777	-	PP_0032	-	hypothetical protein
33	 58.42	0	36198..37652	-	484	26986778	-	PP_0033	-	sugar transferase, putative
34	 57.32	-1	37646..38629	-	327	26986779	-	PP_0034	-	ribonuclease III
35	 49.52	-2	38595..39014	-	139	26986780	-	PP_0035	-	GtrA family protein
36	 51.81	-2	39272..40240	+	322	26986781	-	PP_0036	-	LysR family transcriptional regulator
37	 57.91	0	40469..41758	+	429	26986782	oprP	PP_0037	-	phosphate-selective porin O and P
38	 56.30	-1	41778..41912	+	44	26986783	-	PP_0038	-	hypothetical protein
39	 57.80	0	42057..43082	+	341	26986784	-	PP_0039	-	hypothetical protein
40	 55.11	-1	43210..43434	+	74	26986785	-	PP_0040	-	hypothetical protein
41	 58.56	0	43527..45524	-	665	26986786	cadA-1	PP_0041	-	heavy metal translocating P-type ATPase
42	 50.23	-2	45727..45939	-	70	26986787	-	PP_0042	-	hypothetical protein
43	 58.00	0	46213..49374	-	1053	26986788	-	PP_0043	-	CzcA family cobalt/zinc/cadmium efflux transporter permease
44	 60.03	0	49399..50649	-	416	26986789	-	PP_0044	-	CzcB family cobalt/zinc/cadmium efflux transporter membrane fusion protein
45	 60.14	0	50718..51989	-	423	26986790	-	PP_0045	-	CzcC family cobalt/zinc/cadmium efflux transporter outer membrane protein
46	 56.25	-1	52394..53737	+	447	26986791	-	PP_0046	-	porin, putative
47	 51.70	-2	54227..54901	+	224	26986792	-	PP_0047	-	DNA-binding heavy metal response regulator, putative
48	 48.46	-2	55019..55342	+	107	26986793	-	PP_0048	-	hypothetical protein
49	 54.06	-1	56161..57627	-	488	26986794	-	PP_0049	-	hypothetical protein
50	 58.82	0	58777..59184	-	135	26986795	-	PP_0050	-	hypothetical protein
51	 62.34	0	59316..60608	-	430	26986796	-	PP_0051	-	sigma-54 dependent transcriptional regulator
52	 59.77	0	60831..61715	+	294	26986797	-	PP_0052	-	beta-lactamase domain protein
53	 63.04	0	61756..63024	+	422	26986798	-	PP_0053	-	FAD-dependent pyridine nucleotide-disulphide oxidoreductase
54	 65.97	+1	62982..63839	+	285	26986799	-	PP_0054	-	hypothetical protein
55	 63.85	0	63828..64715	-	295	26986800	-	PP_0055	-	LysR family transcriptional regulator
56	 62.49	0	64943..66595	+	550	26986801	-	PP_0056	-	GMC family oxidoreductase
57	 59.57	0	66693..68312	+	539	26986802	-	PP_0057	-	major facilitator family transporter
58	 60.31	0	68487..69272	-	261	26986803	-	PP_0058	-	phospholipid/glycerol acyltransferase
59	 62.31	0	69319..69846	-	175	26986804	-	PP_0059	-	D,D-heptose 1,7-bisphosphate phosphatase
60	 64.48	0	69850..71904	-	684	26986805	glyS	PP_0060	-	glycyl-tRNA synthetase subunit beta
61	 60.55	0	71901..72848	-	315	26986806	glyQ	PP_0061	-	glycyl-tRNA synthetase subunit alpha
62	 60.51	0	72932..73483	+	183	26986807	tag	PP_0062	-	DNA-3-methyladenine glycosylase I
63	 62.50	0	73525..74412	+	295	26986808	-	PP_0063	-	lipid A biosynthesis lauroyl acyltransferase
64	 59.68	0	74510..74824	-	104	26986809	-	PP_0064	-	TPR domain-containing protein
65	 61.57	0	74836..76209	-	457	26986810	trkA	PP_0065	-	potassium transporter peripheral membrane component
66	 67.73	+1	76233..77543	-	436	26986811	sun	PP_0066	-	sun protein
67	 65.81	0	77540..78472	-	310	26986812	fmt	PP_0067	-	methionyl-tRNA formyltransferase
68	 60.75	0	78533..79039	-	168	26986813	def	PP_0068	-	peptide deformylase
69	 66.12	+1	79246..80343	+	365	26986814	-	PP_0069	-	DNA protecting protein DprA
70	 65.23	0	80386..80943	+	185	26986815	-	PP_0070	-	Sua5/YciO/YrdC/YwlC family protein
71	 58.87	0	81562..82023	+	153	26986816	-	PP_0071	-	hypothetical protein
72	 63.91	0	82151..83128	-	325	26986817	qor-1	PP_0072	-	quinone oxidoreductase
73	 63.16	0	83261..84172	+	303	26986818	hemF	PP_0073	-	coproporphyrinogen III oxidase
74	 64.97	0	84198..85022	+	274	26986819	aroE	PP_0074	-	shikimate 5-dehydrogenase
75	 63.92	0	85152..86717	-	521	26986820	-	PP_0075	-	sulphate transporter
76	 59.45	0	86861..87802	-	313	26986821	-	PP_0076	-	glycine betaine-binding protein, putative
77	 63.04	0	87799..89316	-	505	26986822	betC	PP_0077	-	choline sulfatase
78	 52.94	-2	89315..89416	+	33	26986823	-	PP_0078	-	hypothetical protein
79	 62.22	0	89425..90324	+	299	26986824	-	PP_0079	-	LysR family transcriptional regulator
80	 65.05	0	90446..91063	-	205	26986825	-	PP_0080	-	hypothetical protein
81	 61.29	0	91077..91448	+	123	26986826	-	PP_0081	-	hypothetical protein
82	 65.31	0	91569..92378	-	269	26986827	trpA	PP_0082	-	tryptophan synthase subunit alpha
83	 63.14	0	92375..93592	-	405	26986828	trpB	PP_0083	-	tryptophan synthase subunit beta
84	 67.78	+1	93703..94599	+	298	26986829	trpI	PP_0084	-	LysR family transcriptional regulator
85	 57.67	-1	94596..95084	-	162	26986830	-	PP_0085	-	hypothetical protein
86	 53.70	-2	95070..95285	+	71	26986831	-	PP_0086	-	hypothetical protein
87	 60.61	0	95344..95607	+	87	26986832	-	PP_0087	-	hypothetical protein
88	 63.78	0	95679..96683	-	334	26986833	-	PP_0088	-	luciferase family protein
89	 59.86	0	96836..97261	+	141	26986834	osmC	PP_0089	-	OsmC family protein
90	 58.25	0	97274..97570	+	98	26986835	-	PP_0090	-	hypothetical protein
91	 63.04	0	97606..98019	-	137	26986836	-	PP_0091	-	putative lipoprotein
92	 58.70	0	98075..98488	-	137	26986837	-	PP_0092	-	putative lipoprotein
93	 61.60	0	98487..99650	+	387	26986838	-	PP_0093	-	hypothetical protein
94	 60.68	0	99757..100407	-	216	26986839	-	PP_0094	-	HAD superfamily hydrolase
95	 62.30	0	100529..101077	-	182	26986840	-	PP_0095	-	anhydrase family 3 protein
96	 64.33	0	101180..103231	+	683	26986841	prlC	PP_0096	-	oligopeptidase A
97	 61.70	0	103228..103509	+	93	26986842	-	PP_0097	-	hypothetical protein
98	 58.05	0	103528..103701	+	57	26986843	-	PP_0098	-	hypothetical protein
99	 62.23	0	103841..104899	+	352	26986844	-	PP_0099	-	radical SAM domain protein
100	 61.39	0	105206..105925	+	239	26986845	cynT	PP_0100	-	carbonate dehydratase
61.83	MEAN

4.04	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.