IslandPath Analysis: Salmonella typhimurium LT2



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: 52.39   STD DEV: 5.40
Salmonella typhimurium LT2, complete genome - 0..4857432
4451 proteins

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

1	 54.55         190..255      	 +	21	16763391	thrL	STM0001	-	thr operon leader peptide	
2	 55.95         337..2799     	 +	820	16763392	thrA	STM0002	E	aspartokinase I , bifunctional enxyme N-terminal is aspartokinaseI and C-terminal is homoserine dehydrogenase I	
3	 57.96 +1     2801..3730     	 +	309	16763393	thrB	STM0003	E	homoserine kinase	
4	 56.80        3734..5020     	 +	428	16763394	thrC	STM0004	E	threonine synthase	
5	 50.65        5114..5887     	 -	257	16763395	yaaA	STM0005	S	putative cytoplasmic protein	
6	 55.84        5966..7396     	 -	476	16763396	yaaJ	STM0006	E	putative AGCS family, alanine/glycine transport protein	
7	 53.98        7665..8618     	 +	317	16763397	talB	STM0007	G	transaldolase B	
8	 56.18        8729..9319     	 +	196	16763398	mog	STM0008	H	putative molybdochetalase in molybdopterine biosynthesis	
9	 54.14        9376..9942     	 -	188	16763399	yaaH	STM0009	R	putative regulator	
10	 54.34       10092..10805    	 -	237	16763400	htgA	STM0010	-	positive regulator for sigma H (sigma 32) promoters, permitting growth at high temperature	
11	 49.63       10841..11245    	 -	134	16763401	yaaI	STM0011	-	putative periplasmic protein	
12	 52.58       11593..13509    	 +	638	16763402	dnaK	STM0012	O	chaperone Hsp70 in DNA biosynthesis/cell division	
13	 54.04       13595..14734    	 +	379	16763403	dnaJ	STM0013	O	heat shock protein, DnaJ and GrpE stimulates ATPase activity of DnaK	
14	 40.61 -2    15014..15961    	 +	315	16763404	-	STM0014	K	putative transcriptional regulator, LysR family	
15	 40.58 -2    16088..16432    	 +	114	16763405	-	STM0015	-	putative bacteriophage protein	
16	 51.12       16493..17026    	 -	177	16763406	-	STM0016	-	putative protein	
17	 38.29 -2    17043..17486    	 -	147	16763407	-	STM0017	-	putative protein	
18	 51.10       17867..19966    	 +	699	16763408	-	STM0018	G	putative exochitinase	
19	 54.85       20058..23054    	 +	998	16763409	-	STM0019	-	putative hydroxymethyltransferase	
20	 46.95 -1    23335..24039    	 +	234	16763410	-	STM0020	-	putative cytoplasmic protein	
21	 51.75       24469..25011    	 +	180	16763411	bcfA	STM0021	N	fimbrial subunit	
22	 50.95       25112..25798    	 +	228	16763412	bcfB	STM0022	N	fimbrial chaparone	
23	 54.46       25803..28424    	 +	873	16763413	bcfC	STM0023	N	fimbrial usher	
24	 50.10       28425..29432    	 +	335	16763414	bcfD	STM0024	-	fimbrial subunit	
25	 49.45       29433..29978    	 +	181	16763415	bcfE	STM0025	-	fimbrial subunit	
26	 55.68       29994..30512    	 +	172	16763416	bcfF	STM0026	N	fimbrial subunit	
27	 53.96       30478..31209    	 +	243	16763417	bcfG	STM0027	N	fimbrial chaparone	
28	 54.96       31274..32119    	 +	281	16763418	bcfH	STM0028	O	putative thiol-disulfide isomerase	
29	 37.11 -2    32545..32994    	 -	149	16763419	-	STM0029	-	putative transcription regulator	
30	 38.81 -2    33364..34368    	 +	334	16763420	-	STM0030	K	putative transcriptional regulator, LysR family	
31	 35.83 -2    34376..34816    	 -	146	16763421	-	STM0031	K	putative transcription regulator	
32	 46.31 -1    35339..37057    	 +	572	16763422	-	STM0032	-	putative arylsulfatase	
33	 46.82 -1    37103..38674    	 -	523	16763423	-	STM0033	F	putative 5'-nucleotidase	
34	 44.23 -1    38773..39534    	 -	253	16763424	-	STM0034	-	putative outer membrane or exported protein	
35	 52.41       40131..41624    	 +	497	16763425	-	STM0035	P	putative arylsulfatase	
36	 49.71       41723..42913    	 +	396	16763426	-	STM0036	R	putative arylsulfatase regulatory protein	
37	 49.92       42932..44185    	 +	417	16763427	-	STM0037	-	putative cytoplasmic protein	
38	 49.71       44312..46027    	 +	571	16763428	-	STM0038	-	putative arylsulfatase	
39	 56.38       46190..47356    	 +	388	16763429	nhaA	STM0039	P	NhaA familiy of transport protein, Na+/H antiporter, pH dependent	
40	 50.56       47418..48317    	 +	299	16763430	nhaR	STM0040	K	transcriptional activator of nhaA (LysR family)	
41	 54.61       48372..50411    	 -	679	16763431	-	STM0041	G	putative glycosyl hydrolase	
42	 49.05       50451..51824    	 -	457	16763432	-	STM0042	G	putative sodium galactoside symporter	
43	 46.59 -1    52280..52543    	 -	87	16763433	rpsT	STM0043	J	30S ribosomal subunit protein S20	
44	 47.69       52649..52864    	 +	71	16763434	yaaY	STM0044	-	putative cytoplasmic protein	
45	 56.76       52872..53810    	 +	312	16763435	ribF	STM0045	H	flavokinase and FAD synthetase	
46	 54.78       53855..56689    	 +	944	16763436	ileS	STM0046	J	isoleucine tRNA synthetase	
47	 52.89       56689..57189    	 +	166	16763437	lspA	STM0047	N	prolipoprotein signal peptidase (SPase II)	
48	 54.67       57344..57793    	 +	149	16763438	slpA	STM0048	O	FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase)	
49	 57.41       57796..58746    	 +	316	16763439	lytB	STM0049	I	regulates the activity of guanosine 3',5'-bispyrophosphate synthetase I (RelA)	
50	 48.21       58946..60148    	 +	400	16763440	-	STM0050	-	putative nitrite reductase	
51	 56.57       60164..61084    	 +	306	16763441	rihC	STM0051	F	putative purine nucleoside hydrolase	
52	 48.62       61106..61792    	 -	228	16763442	-	STM0052	T	putative transcription regulator sensor for citrate	
53	 48.02       61794..63413    	 -	539	16763443	-	STM0053	T	putative transcription regulator, histidine kinase for citrate	
54	 63.98 +2    63548..64849    	 -	433	16763444	-	STM0054	C	putative oxalacetate decarboxylase, subunit beta	
55	 63.68 +2    64862..66637    	 -	591	16763445	-	STM0055	C	putative oxalacetate decarboxylase, subunit alpha	
56	 57.50       66654..66893    	 -	79	16763446	-	STM0056	C	putative oxalacetate decarboxylase, subunit gamma	
57	 49.37       67052..68392    	 -	446	16763447	-	STM0057	C	putative citrate-sodium symport	
58	 53.74       68637..69680    	 +	347	16763448	citC2	STM0058	C	putative citrate lyase synthetase (citrate (pro-3S)-lyase ligase	
59	 57.14       69710..70003    	 +	97	16763449	citD2	STM0059	C	putative citrate lyase acyl carrier protein (gamma chain)	
60	 55.63       70000..70869    	 +	289	16763450	citE2	STM0060	G	putative citrate lyase beta chain (acyl lyase subunit)	
61	 55.23       70880..72400    	 +	506	16763451	citF2	STM0061	C	putativ bifunctional citrate lyase alpha chain/citrate-ACP transferase	
62	 55.98       72400..72951    	 +	183	16763452	citX2	STM0062	H	putative cytoplasmic protein	
63	 54.79       72929..73837    	 +	302	16763453	citG2	STM0063	H	putative modifier of citrate lyase protein	
64	 56.57       74017..74838    	 +	273	16763454	dapB	STM0064	E	dihydrodipicolinate reductase	
65	 43.68 -1    75088..75435    	 +	115	16763455	-	STM0065	-	putative viral protein	
66	 55.35       75880..77028    	 +	382	16763456	carA	STM0066	E	carbamoyl-phosphate synthetase, glutamine-hydrolysing small subunit	
67	 59.11 +1    77047..80274    	 +	1075	16763457	carB	STM0067	E	carbamoyl-phosphate synthase, large subunit	
68	 46.46 -1    80548..80943    	 +	131	16763458	caiF	STM0068	-	transcriptional regulator of cai and fix operon	
69	 55.95       81020..81616    	 -	198	16763459	caiE	STM0069	R	stimulates carnitine racemase activity of CaiD and CaiB activity	
70	 56.87       81725..82510    	 -	261	16763460	caiD	STM0070	I	carnitine racemase	
71	 50.77       82564..84117    	 -	517	16763461	caiC	STM0071	I	crotonobetaine/carnitine-CoA ligase	
72	 53.20       84180..85397    	 -	405	16763462	caiB	STM0072	C	l-carnitine dehydratase	
73	 52.58       85509..86651    	 -	380	16763463	caiA	STM0073	I	putative acyl-CoA dehydrogenase, carnitine metabolism	
74	 54.08       86686..88203    	 -	505	16763464	caiT	STM0074	M	putative BCCT family, betaine/carnitine/choline transport protein	
75	 52.01       88684..89454    	 +	256	16763465	fixA	STM0075	C	putative flavoprotein reductase, carnitine metabolism	
76	 58.92 +1    89470..90411    	 +	313	16763466	fixB	STM0076	C	putative electron transfer flavoprotein, carnitine metabolism	
77	 55.48       90461..91747    	 +	428	16763467	fixC	STM0077	C	related to carnitine metabolism	
78	 54.51       91744..92031    	 +	95	16763468	fixX	STM0078	C	putative ferredoxin, carnitine metabolism	
79	 54.14       92178..93518    	 +	446	16763469	yaaU	STM0079	G	putative MFS family transport protein	
80	 48.48       93607..93837    	 +	76	16763470	-	STM0080	-	putative outer membrane lipoprotein	
81	 47.00       94131..94547    	 +	138	16763471	-	STM0081	-	putative secreted protein	
82	 46.39 -1    94771..95061    	 -	96	16763472	-	STM0082	-	putative secreted protein	
83	 38.97 -2    95271..95465    	 +	64	16763473	-	STM0083	-	putative inner membrane protein	
84	 46.19 -1    95959..97848    	 +	629	16763474	-	STM0084	P	putative sulfatase	
85	 53.67       98255..98785    	 +	176	16763475	yabF	STM0085	R	putative NAD(P)H oxidoreductase	
86	 58.19 +1    98778..100640   	 +	620	16763476	kefC	STM0086	P	CPA2 family, K+ efflux antiporter, glutathione-regulated	
87	 53.75      100839..101318   	 +	159	16763477	folA	STM0087	H	dihydrofolate reductase type I; trimethoprim resistance	
88	 56.30      101424..102272   	 -	282	16763478	apaH	STM0088	T	diadenosine tetraphosphatase	
89	 55.03      102283..102660   	 -	125	16763479	apaG	STM0089	P	putative cytoplasmic protein	
90	 52.43      102663..103484   	 -	273	16763480	ksgA	STM0090	J	S-adenosylmethionine-6-N',N'-adenosyl (rRNA) dimethyltransferase; kasugamycin resistance	
91	 58.69 +1   103481..104470   	 -	329	16763481	pdxA	STM0091	H	NAD-dependent dehydrogenase/carboxylase; pyridoxine phosphate biosynthetic protein PdxJ-PdxA subunit	
92	 54.39      104470..105756   	 -	428	16763482	surA	STM0092	O	peptidyl-prolyl cis-trans isomerase, survival protein	
93	 52.77      105810..108170   	 -	786	16763483	imp	STM0093	M	Organic solvent tolerance protein	
94	 54.12      108424..109236   	 +	270	16763484	djlA	STM0094	O	DnaJ like chaperone protein	
95	 57.12      109331..109990   	 -	219	16763485	rluA	STM0095	J	23S rRNA pseudouridylate 746 synthase	
96	 57.00      110002..112908   	 -	968	16763486	hepA	STM0096	K	RNA polymerase associated protein, putative SNF2 family RNA helicase	
97	 56.51      113082..115433   	 -	783	16763487	polB	STM0097	L	DNA polymerase II and and 3' --> 5' exonuclease	
98	 49.44      115477..116097   	 -	206	16763488	-	STM0098	S	putative secreted protein	
99	 37.62 -2   116299..116601   	 +	100	16763489	-	STM0099	-	putative inner membrane protein	
100	 42.62 -1   116816..117235   	 +	139	16763490	-	STM0100	-	putative cytoplasmic protein	

 
 52.39 MEAN 
 
 5.40  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.