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).



No tRNA data available

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: 61.82   STD DEV: 4.04
Pseudomonas putida KT2440, complete genome - 0..6181863
5350 proteins

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

1	 62.54         147..1019     	 -	290	26986746	parB	PP0001	-	chromosome partitioning protein ParB	
2	 60.10        1029..1820     	 -	263	26986747	-	PP0002	-	ParA family protein	
3	 58.99        1839..2489     	 -	216	26986748	gidB	PP0003	-	glucose-inhibited division protein B	
4	 61.45        2486..4381     	 -	631	26986749	gidA	PP0004	-	glucose-inhibited division protein A	
5	 62.73        5012..6382     	 -	456	26986750	trmE	PP0005	-	tRNA modification GTPase	
6	 58.59        6471..8153     	 -	560	26986751	yidC	PP0006	-	inner membrane protein, 60 kDa	
7	 55.69 -1     8156..8401     	 -	81	26986752	-	PP0007	-	conserved hypothetical protein TIGR00278	
8	 57.28 -1     8394..8798     	 -	134	26986753	rnpA	PP0008	-	ribonuclease P protein component	
9	 58.52        8812..8946     	 -	44	26986754	rpmH	PP0009	-	ribosomal protein L34	
10	 58.32        9542..11062    	 +	506	26986755	dnaA	PP0010	-	chromosomal replication initiator protein DnaA	
11	 58.70       11103..12206    	 +	367	26986756	dnaN	PP0011	-	DNA polymerase III, beta subunit	
12	 58.88       12222..13325    	 +	367	26986757	recF	PP0012	-	DNA replication and repair protein RecF	
13	 57.46 -1    13330..15750    	 +	806	26986758	gyrB	PP0013	-	DNA gyrase, subunit B	
14	 53.54 -2    17133..19166    	 +	677	26986759	-	PP0014	-	transposase, putative	
15	 52.40 -2    19163..20122    	 +	319	26986760	-	PP0015	-	GTP-binding protein, putative	
16	 54.98 -1    20198..22114    	 +	638	26986761	-	PP0016	-	hypothetical protein	
17	 54.17 -1    22171..22530    	 +	119	26986762	-	PP0017	-	transcriptional regulator MvaT, P16 subunit, putative	
18	 52.55 -2    23176..24018    	 +	280	26986763	-	PP0018	-	hypothetical protein	
19	 54.22 -1    24000..24698    	 +	232	26986764	-	PP0019	-	hypothetical protein	
20	 54.00 -1    24695..25570    	 +	291	26986765	-	PP0020	-	hypothetical protein	
21	 53.25 -2    25881..26804    	 +	307	26986766	-	PP0021	-	hypothetical protein	
22	 53.48 -2    26989..27390    	 -	133	26986767	-	PP0022	-	hypothetical protein	
23	 54.26 -1    27599..27727    	 -	42	26986768	-	PP0023	-	hypothetical protein	
24	 55.18 -1    27850..29547    	 -	565	26986769	-	PP0024	-	membrane protein, putative	
25	 53.59 -2    29990..30142    	 -	50	26986770	-	PP0025	-	hypothetical protein	
26	 58.06       30431..31336    	 +	301	26986771	-	PP0026	-	cobalt/cadmium/zinc transporter, CDF family	
27	 56.01 -1    31404..31844    	 +	146	26986772	-	PP0027	-	hypothetical protein	
28	 47.71 -2    31877..32203    	 -	108	26986773	-	PP0028	-	conserved hypothetical protein	
29	 54.81 -1    32893..33567    	 +	224	26986774	czrR-1	PP0029	-	DNA-binding response regulator CzrR	
30	 56.87 -1    33564..34982    	 +	472	26986775	-	PP0030	-	sensor histidine kinase	
31	 58.67       35040..35627    	 -	195	26986776	-	PP0031	-	hypothetical protein	
32	 48.65 -2    35894..36115    	 +	73	26986777	-	PP0032	-	hypothetical protein	
33	 58.42       36198..37652    	 -	484	26986778	-	PP0033	-	sugar transferase, putative	
34	 57.32 -1    37646..38629    	 -	327	26986779	-	PP0034	-	glycosyl transferase, group 2 family protein	
35	 49.52 -2    38595..39014    	 -	139	26986780	-	PP0035	-	GtrA family protein	
36	 51.81 -2    39272..40240    	 +	322	26986781	-	PP0036	-	transcriptional regulator, putative	
37	 57.91       40469..41758    	 +	429	26986782	oprP	PP0037	-	porin P	
38	 56.30 -1    41778..41912    	 +	44	26986783	-	PP0038	-	hypothetical protein	
39	 57.80       42057..43082    	 +	341	26986784	-	PP0039	-	hypothetical protein	
40	 55.11 -1    43210..43434    	 +	74	26986785	-	PP0040	-	hypothetical protein	
41	 58.56       43527..45524    	 -	665	26986786	cadA-1	PP0041	-	cadmium translocating P-type ATPase	
42	 50.23 -2    45727..45939    	 -	70	26986787	-	PP0042	-	conserved hypothetical protein	
43	 58.00       46213..49374    	 -	1053	26986788	-	PP0043	-	cobalt/zinc/cadmium efflux RND transporter, permease protein, CzcA family	
44	 60.03       49399..50649    	 -	416	26986789	-	PP0044	-	cobalt/zinc/cadmium efflux RND transporter, membrane fusion protein, CzcB family	
45	 60.14       50718..51989    	 -	423	26986790	-	PP0045	-	cobalt/zinc/cadmium efflux RND transporter, outer membrane protein, CzcC family	
46	 56.25 -1    52394..53737    	 +	447	26986791	-	PP0046	-	porin, putative	
47	 51.70 -2    54227..54901    	 +	224	26986792	-	PP0047	-	DNA-binding heavy metal response regulator, putative	
48	 48.46 -2    55019..55342    	 +	107	26986793	-	PP0048	-	hypothetical protein	
49	 54.06 -1    56161..57627    	 -	488	26986794	-	PP0049	-	hypothetical protein	
50	 58.82       58777..59184    	 -	135	26986795	-	PP0050	-	conserved hypothetical protein	
51	 62.34       59316..60608    	 -	430	26986796	-	PP0051	-	sigma-54 dependent transcriptional regulator	
52	 59.77       60831..61715    	 +	294	26986797	-	PP0052	-	metallo-beta-lactamase family protein	
53	 63.04       61756..63024    	 +	422	26986798	-	PP0053	-	conserved hypothetical protein	
54	 65.97 +1    62982..63839    	 +	285	26986799	-	PP0054	-	conserved hypothetical protein	
55	 63.85       63828..64715    	 -	295	26986800	-	PP0055	-	transcriptional regulator, LysR family	
56	 62.49       64943..66595    	 +	550	26986801	-	PP0056	-	oxidoreductase, GMC family	
57	 59.57       66693..68312    	 +	539	26986802	-	PP0057	-	major facilitator family transporter	
58	 60.31       68487..69272    	 -	261	26986803	-	PP0058	-	1-acyl-sn-glycerol-3-phosphate acyltransferase, putative	
59	 62.31       69319..69846    	 -	175	26986804	-	PP0059	-	histidinol-phosphatase, putatitve	
60	 64.48       69850..71904    	 -	684	26986805	glyS	PP0060	-	glycyl-tRNA synthetase, tetrameric type, beta subunit	
61	 60.55       71901..72848    	 -	315	26986806	glyQ	PP0061	-	glycyl-tRNA synthetase, tetrameric type, alpha subunit	
62	 60.51       72932..73483    	 +	183	26986807	tag	PP0062	-	DNA-3-methyladenine glycosidase I	
63	 62.50       73525..74412    	 +	295	26986808	-	PP0063	-	lipid A biosynthesis lauroyl acyltransferase, putative	
64	 59.68       74510..74824    	 -	104	26986809	-	PP0064	-	TPR domain protein	
65	 61.57       74836..76209    	 -	457	26986810	trkA	PP0065	-	potassium uptake protein TrkA	
66	 67.73 +1    76233..77543    	 -	436	26986811	sun	PP0066	-	sun protein	
67	 65.81       77540..78472    	 -	310	26986812	fmt	PP0067	-	methionyl-tRNA formyltransferase	
68	 60.75       78533..79039    	 -	168	26986813	def-1	PP0068	-	polypeptide deformylase	
69	 66.12 +1    79246..80343    	 +	365	26986814	-	PP0069	-	smf protein	
70	 65.23       80386..80943    	 +	185	26986815	-	PP0070	-	Sua5/YciO/YrdC/YwlC family protein	
71	 58.87       81562..82023    	 +	153	26986816	-	PP0071	-	hypothetical protein	
72	 63.91       82151..83128    	 -	325	26986817	qor-1	PP0072	-	quinone oxidoreductase	
73	 63.16       83261..84172    	 +	303	26986818	hemF	PP0073	-	coproporphyrinogen III oxidase, aerobic	
74	 64.97       84198..85022    	 +	274	26986819	aroE-1	PP0074	-	shikimate 5-dehydrogenase	
75	 63.92       85152..86717    	 -	521	26986820	-	PP0075	-	sulfate transporter	
76	 59.45       86861..87802    	 -	313	26986821	-	PP0076	-	glycine betaine-binding protein, putative	
77	 63.04       87799..89316    	 -	505	26986822	betC	PP0077	-	choline sulfatase	
78	 52.94 -2    89315..89416    	 +	33	26986823	-	PP0078	-	hypothetical protein	
79	 62.22       89425..90324    	 +	299	26986824	-	PP0079	-	transcriptional regulator, LysR family	
80	 65.05       90446..91063    	 -	205	26986825	-	PP0080	-	conserved hypothetical protein	
81	 61.29       91077..91448    	 +	123	26986826	-	PP0081	-	conserved hypothetical protein	
82	 65.31       91569..92378    	 -	269	26986827	trpA	PP0082	-	tryptophan synthase, alpha subunit	
83	 63.14       92375..93592    	 -	405	26986828	trpB	PP0083	-	tryptophan synthase, beta subunit	
84	 67.78 +1    93703..94599    	 +	298	26986829	trpI	PP0084	-	transcriptional regulator TrpI	
85	 57.67 -1    94596..95084    	 -	162	26986830	-	PP0085	-	conserved hypothetical protein	
86	 53.70 -2    95070..95285    	 +	71	26986831	-	PP0086	-	conserved hypothetical protein	
87	 60.61       95344..95607    	 +	87	26986832	-	PP0087	-	conserved hypothetical protein	
88	 63.78       95679..96683    	 -	334	26986833	-	PP0088	-	conserved hypothetical protein	
89	 59.86       96836..97261    	 +	141	26986834	osmC	PP0089	-	osmotically inducible protein OsmC	
90	 58.25       97274..97570    	 +	98	26986835	-	PP0090	-	conserved hypothetical protein	
91	 63.04       97606..98019    	 -	137	26986836	-	PP0091	-	lipoprotein, putative	
92	 58.70       98075..98488    	 -	137	26986837	-	PP0092	-	lipoprotein, putative	
93	 61.60       98487..99650    	 +	387	26986838	-	PP0093	-	conserved hypothetical protein	
94	 60.68       99757..100407   	 -	216	26986839	-	PP0094	-	hydrolase, haloacid dehalogenase-like family	
95	 62.30      100529..101077   	 -	182	26986840	-	PP0095	-	anhydrase, family 3 protein	
96	 64.33      101180..103231   	 +	683	26986841	prlC	PP0096	-	oligopeptidase A	
97	 61.70      103228..103509   	 +	93	26986842	-	PP0097	-	conserved hypothetical protein	
98	 58.05      103528..103701   	 +	57	26986843	-	PP0098	-	hypothetical protein	
99	 62.23      103841..104899   	 +	352	26986844	-	PP0099	-	conserved hypothetical protein	
100	 61.39      105206..105925   	 +	239	26986845	cynT	PP0100	-	carbonic anhydrase	

 
 61.82 MEAN 
 
 4.04  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.