IslandPathversion 1.0

IslandPath Analysis: Shigella flexneri 2a str. 2457T



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: 51.60 STD DEV: 4.04
Shigella flexneri 2a str. 2457T, complete genome - 1..4599354
4061 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
3478	 52.58	0	3956733..3957236	+	167	30065056	-	S4059	-	IS1 orfB
3479	 40.35	-2	3957757..3958155	-	132	30065057	shiD	S4830	-	colV-immunity protein
3480	 53.01	0	3959474..3959839	+	121	161486394	-	S4060	-	insertion sequence 2 OrfA protein
3481	 55.08	0	3959797..3960702	+	301	161486393	-	S4061	-	insertion element IS2 transposase InsD
3482	 54.13	0	3961705..3962031	+	108	30065060	-	S4062	-	IS629 orfA
3483	 54.63	0	3962267..3962914	+	215	30065061	-	S4063	-	IS629 orfB
3484	 33.91	-2	3962995..3963513	-	172	30065062	shiC	S4831	-	hypothetical protein
3485	 52.67	0	3963698..3963997	+	99	30065063	-	S4064	-	IS3 orfA
3486	 58.02	+1	3963994..3964386	+	130	30065064	-	S4832	-	IS3 orfB
3487	 47.84	0	3964845..3965306	-	153	30065065	shiB	S4833	-	hypothetical protein
3488	 46.46	-1	3965821..3966864	-	347	30065066	shiA	S4834	-	hypothetical protein
3489	 44.97	-1	3967276..3968487	-	403	30065067	-	S4835	-	putative integrase
3490	 52.01	0	3970539..3972857	+	772	30065068	yicI	S4073	-	alpha-xylosidase YicI
3491	 54.33	0	3972910..3974619	-	569	30065069	yicH	S4074	-	hypothetical protein
3492	 55.03	0	3974740..3976131	-	463	30065070	yicE	S4075	-	putative transport protein
3493	 53.90	0	3976411..3977616	+	401	30065071	gltS	S4076	-	glutamate transport protein
3494	 57.01	+1	3977650..3979731	-	693	30065072	recG	S4077	-	ATP-dependent DNA helicase RecG
3495	 55.22	0	3979737..3980426	-	229	30065073	spoU	S4078	-	tRNA guanosine-2'-O-methyltransferase
3496	 53.77	0	3980433..3982541	-	702	30065074	spoT	S4079	-	bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase
3497	 53.26	0	3982560..3982835	-	91	30065075	rpoZ	S4080	-	DNA-directed RNA polymerase subunit omega
3498	 49.04	0	3982890..3983513	-	207	30065076	gmk	S4081	-	guanylate kinase
3499	 52.76	0	3983771..3985453	+	560	30065077	ligB	S4082	-	NAD-dependent DNA ligase LigB
3500	 52.53	0	3985450..3986121	-	223	30065078	yicG	S4083	-	hypothetical protein
3501	 45.70	-1	3986358..3987182	-	274	30065079	dinD	S4084	-	DNA-damage-inducible protein D
3502	 53.36	0	3987403..3988266	-	287	30065080	yicC	S4085	-	hypothetical protein
3503	 56.35	+1	3988393..3989109	+	238	30065081	rph	S4086	-	ribonuclease PH
3504	 52.80	0	3989175..3989816	+	213	30065082	pyrE	S4087	-	orotate phosphoribosyltransferase
3505	 53.27	0	3989853..3990449	-	198	161486392	slmA	S4088	-	nucleoid occlusion protein
3506	 54.68	0	3990556..3991014	-	152	30065084	dut	S4089	-	deoxyuridine 5'-triphosphate nucleotidohydrolase
3507	 53.15	0	3990992..3992212	-	406	161486391	dfp	S4090	-	bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase
3508	 47.70	0	3992378..3993052	+	224	161486390	radC	S4091	-	DNA repair protein RadC
3509	 53.16	0	3993269..3993505	+	78	30065087	rpmB	S4092	-	50S ribosomal protein L28
3510	 39.88	-2	3993526..3993693	+	55	30065088	rpmG	S4093	-	50S ribosomal protein L33
3511	 53.95	0	3993791..3994600	+	269	30065089	mutM	S4094	-	formamidopyrimidine-DNA glycosylase
3512	 52.71	0	3994639..3995118	-	159	30065090	coaD	S4095	-	phosphopantetheine adenylyltransferase
3513	 53.91	0	3995126..3996403	-	425	30065091	kdtA	S4096	-	3-deoxy-D-manno-octulosonic-acid transferase
3514	 52.90	0	3996537..3996812	+	91	30065092	-	S4097	-	IS1 orfA
3515	 52.98	0	3996731..3997234	+	167	30065093	-	S4098	-	IS1 orfB
3516	 46.65	-1	3997592..3998650	+	352	30065094	waaQ	S4099	-	lipopolysaccharide core biosynthesis protein
3517	 48.36	0	3998647..3999771	+	374	30065095	waaG	S4100	-	LPS alpha1,3-glucosyltransferase
3518	 47.83	0	3999755..4000561	+	268	30065096	waaP	S4101	-	lipopolysaccharide core biosynthesis protein
3519	 31.05	-2	4000604..4001611	+	335	30065097	waaL	S4102	-	UDP-D-galactose:(glucosyl)lipopolysaccharide- alpha-1,3-D-galactosyltransferase
3520	 30.51	-2	4001637..4002344	+	235	30065098	waaY	S4103	-	lipopolysaccharide core biosynthesis protein
3521	 30.87	-2	4002369..4003382	+	337	30065099	waaJ	S4104	-	putative UDP-glucose:(galactosyl) LPS alpha1,2-glucosyltransferase
3522	 36.75	-2	4003391..4004533	+	380	30065100	waaD	S4105	-	lipopolysaccharide 1,2-N- acetylglucosaminetransferase
3523	 35.32	-2	4004569..4005777	-	402	30065101	waaI	S4106	-	lipid A-core, surface polymer ligase
3524	 50.26	0	4005774..4006736	-	320	30065102	rfaC	S4107	-	ADP-heptose:LPS heptosyl transferase I
3525	 53.87	0	4006770..4007816	-	348	30065103	rfaF	S4108	-	ADP-heptose:LPS heptosyltransferase II
3526	 50.91	0	4007826..4008758	-	310	30065104	rfaD	S4109	-	ADP-L-glycero-D-mannoheptose-6-epimerase
3527	 54.39	0	4010194..4011390	+	398	30065105	kbl	S4110	-	2-amino-3-ketobutyrate coenzyme A ligase
3528	 52.44	0	4011400..4012425	+	341	30065106	tdh	S4111	-	L-threonine 3-dehydrogenase
3529	 52.90	0	4012655..4012930	+	91	30065107	-	S4112	-	IS1 orfA
3530	 52.78	0	4012849..4013352	+	167	30065108	-	S4113	-	IS1 orfB
3531	 53.19	0	4013434..4013574	+	46	30065109	yibD	S4114	-	putative regulator
3532	 52.76	0	4013561..4014394	-	277	30065110	yibQ	S4115	-	hypothetical protein
3533	 56.15	+1	4014524..4015807	-	427	161486389	yibP	S4116	-	hypothetical protein
3534	 53.27	0	4015817..4017361	-	514	30065112	yibO	S4117	-	phosphoglyceromutase
3535	 50.00	0	4017606..4018037	+	143	30065113	yibN	S4118	-	hypothetical protein
3536	 51.19	0	4018179..4018430	+	83	30065114	grxC	S4119	-	glutaredoxin 3
3537	 51.07	0	4018493..4018960	+	155	30065115	secB	S4120	-	preprotein translocase subunit SecB
3538	 56.57	+1	4018960..4019979	+	339	30065116	gpsA	S4121	-	NAD(P)H-dependent glycerol-3-phosphate dehydrogenase
3539	 53.16	0	4020059..4020880	+	273	30065117	cysE	S4122	-	serine acetyltransferase
3540	 55.06	0	4020933..4021406	-	157	30065118	yibK	S4123	-	putative tRNA/rRNA methyltransferase YibK
3541	 55.67	+1	4021602..4022792	-	396	30065119	lldD	S4124	-	L-lactate dehydrogenase
3542	 54.18	0	4022789..4023565	-	258	30065120	lldR	S4125	-	DNA-binding transcriptional repressor LldR
3543	 55.07	0	4023565..4025220	-	551	30065121	lldP	S4126	-	L-lactate permease
3544	 52.54	0	4031481..4031756	+	91	30065122	-	S4130	-	IS1 orfA
3545	 52.58	0	4031675..4032178	+	167	30065123	-	S4131	-	IS1 orfB
3546	 50.96	0	4032297..4032659	-	120	30065124	yibL	S4132	-	hypothetical protein
3547	 51.19	0	4033164..4033751	-	195	30065125	mtlR	S4133	-	mannitol repressor protein
3548	 53.00	0	4033751..4034899	-	382	30065126	mtlD	S4134	-	mannitol-1-phosphate 5-dehydrogenase
3549	 53.40	0	4034994..4036907	-	637	30065127	mtlA	S4135	-	PTS system, mannitol-specific enzyme IIABC components
3550	 51.24	0	4037444..4037806	+	120	30065128	yibI	S4136	-	hypothetical protein
3551	 52.21	0	4037809..4038894	+	361	30065129	yibH	S4137	-	hypothetical protein
3552	 52.87	0	4038965..4039573	+	202	30065130	yibF	S4138	-	glutathione S-transferase
3553	 56.39	+1	4039671..4041062	+	463	30065131	selA	S4139	-	selenocysteine synthase
3554	 56.21	+1	4041059..4042903	+	614	30065132	selB	S4140	-	selenocysteinyl-tRNA-specific translation factor
3555	 50.35	0	4043093..4044244	+	383	30065133	yiaY	S4141	-	putative alcohol dehydrogenase
3556	 54.57	0	4044319..4045947	+	542	30065134	aldB	S4142	-	aldehyde dehydrogenase B (lactaldehyde dehydrogenase)
3557	 52.98	0	4046643..4047146	-	167	30065135	-	S4143	-	IS1 orfB
3558	 52.54	0	4047065..4047340	-	91	30065136	-	S4144	-	IS1 orfA
3559	 50.89	0	4047374..4048666	-	430	30065137	-	S4145	-	hypothetical protein
3560	 53.17	0	4049001..4049504	-	167	30065138	-	S4147	-	IS1 orfB
3561	 52.54	0	4049423..4049698	-	91	30065139	-	S4148	-	IS1 orfA
3562	 53.65	0	4049913..4050911	-	332	30065140	yiaK	S4150	-	2,3-diketo-L-gulonate reductase
3563	 52.18	0	4051111..4051959	+	282	30065141	yiaJ	S4151	-	putative regulator
3564	 53.80	0	4052061..4052534	+	157	30065142	yiaI	S4152	-	hypothetical protein
3565	 52.39	0	4052685..4053938	-	417	30065143	avtA	S4153	-	valine--pyruvate transaminase
3566	 52.29	0	4054116..4056146	-	676	30065144	malS	S4154	-	periplasmic alpha-amylase precursor
3567	 47.64	0	4056466..4057290	+	274	30065145	bax	S4155	-	hypothetical protein
3568	 53.55	0	4058654..4059835	-	393	30065146	xylH	S4157	-	putative xylose transporter, membrane component
3569	 47.02	-1	4059813..4061354	-	513	30065147	xylG	S4158	-	xylose transporter ATP-binding subunit
3570	 43.30	-2	4061432..4062424	-	330	30065148	xylF	S4159	-	D-xylose transporter subunit XylF
3571	 54.16	0	4064184..4065638	+	484	30065149	xylB	S4161	-	xylulokinase
3572	 40.94	-2	4065807..4066148	+	113	30065150	yiaB	S4162	-	hypothetical protein
3573	 42.01	-2	4066194..4066631	+	145	30065151	yiaA	S4163	-	hypothetical protein
3574	 46.69	-1	4066673..4067668	-	331	30065152	yiaH	S4164	-	hypothetical protein
3575	 55.81	+1	4068237..4069148	+	303	30065153	glyQ	S4165	-	glycyl-tRNA synthetase subunit alpha
3576	 55.70	+1	4069158..4071227	+	689	30065154	glyS	S4166	-	glycyl-tRNA synthetase subunit beta
3577	 52.58	0	4071285..4071788	-	167	30065155	-	S4167	-	IS1 orfB
51.60	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.