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
1749	 49.89	0	1928680..1929120	-	146	30063322	cutC	S2005	-	copper homeostasis protein
1750	 50.79	0	1929440..1930006	-	188	30063323	yecM	S2006	-	hypothetical protein
1751	 53.00	0	1930222..1931955	+	577	30063324	argS	S2007	-	arginyl-tRNA synthetase
1752	 52.18	0	1932840..1933274	-	144	30063325	-	S2009	-	IS629 orfB
1753	 53.21	0	1933709..1934035	-	108	30063326	-	S2011	-	IS629 orfA
1754	 55.75	+1	1934087..1934425	-	112	30063327	flhE	S2012	-	flagellar protein
1755	 55.11	0	1936449..1937642	-	397	30063328	flhB	S2014	-	flagellar biosynthesis protein FlhB
1756	 47.06	-1	1937878..1938336	+	152	30063329	-	S2015	-	hypothetical protein
1757	 44.88	-1	1939126..1939428	-	100	30063330	-	S2018	-	IS911 orfA
1758	 45.20	-1	1939569..1939964	+	131	30063331	-	S2019	-	hypothetical protein
1759	 52.24	0	1940459..1941172	+	237	30063332	-	S2020	-	IS600 orfB
1760	 53.33	0	1941677..1942321	-	214	30063333	cheZ	S2021	-	chemotaxis regulator CheZ
1761	 48.97	0	1942332..1942721	-	129	30063334	cheY	S2022	-	chemotaxis regulatory protein CheY
1762	 53.71	0	1942736..1943785	-	349	30063335	cheB	S2023	-	chemotaxis-specific methylesterase
1763	 53.89	0	1943788..1944648	-	286	30063336	cheR	S2024	-	chemotaxis methyltransferase CheR
1764	 53.87	0	1944667..1946268	-	533	30063337	tap	S2025	-	methyl-accepting protein IV
1765	 52.71	0	1946314..1947975	-	553	30063338	tar	S2026	-	methyl-accepting chemotaxis protein II, aspartate sensor receptor
1766	 51.59	0	1948120..1948623	-	167	30063339	cheW	S2027	-	purine-binding chemotaxis protein
1767	 53.18	0	1948644..1950608	-	654	30063340	cheA	S2028	-	chemotaxis protein CheA
1768	 53.07	0	1950613..1951539	-	308	30063341	motB	S2029	-	flagellar motor protein MotB
1769	 51.69	0	1951536..1952423	-	295	30063342	motA	S2030	-	flagellar motor protein MotA
1770	 49.05	0	1952550..1953128	-	192	30063343	flhC	S2031	-	transcriptional activator FlhC
1771	 52.90	0	1953391..1953666	+	91	30063344	-	S2033	-	IS1 orfA
1772	 52.78	0	1953585..1954088	+	167	30063345	-	S2034	-	IS1 orfB
1773	 50.81	0	1954526..1955326	-	266	30063346	otsB	S2036	-	trehalose-6-phosphate phosphatase
1774	 50.81	0	1955493..1956482	-	329	30063347	araH	S2038	-	L-arabinose transporter permease protein
1775	 52.48	0	1956494..1958008	-	504	30063348	araG	S2039	-	L-arabinose transporter ATP-binding protein
1776	 48.21	0	1959864..1960367	+	167	30063349	yecI	S2041	-	ferritin-like protein
1777	 50.62	0	1961162..1961485	+	107	30063351	-	S2043	-	hypothetical protein
1778	 42.97	-2	1961656..1962153	+	165	30063352	ftn	S2044	-	ferritin
1779	 47.08	-1	1962190..1962429	-	79	30063353	yecH	S2045	-	hypothetical protein
1780	 50.91	0	1962619..1963830	+	403	30063354	tyrP	S2046	-	tyrosine-specific transport protein
1781	 52.40	0	1963892..1964557	-	221	30063355	yecA	S2047	-	hypothetical protein
1782	 52.46	0	1965207..1965755	-	182	30063356	pgsA	S2051	-	phosphatidylglycerophosphate synthetase
1783	 51.72	0	1965812..1967644	-	610	161486474	uvrC	S2052	-	excinuclease ABC subunit C
1784	 49.01	0	1967641..1968297	-	218	30063358	uvrY	S2053	-	response regulator
1785	 48.00	0	1968756..1968980	+	74	30063359	yecF	S2054	-	hypothetical protein
1786	 47.05	-1	1969007..1969633	-	208	30063360	sdiA	S2055	-	transcriptional regulator of ftsQAZ gene cluster
1787	 54.58	0	1969863..1970615	-	250	30063361	yecC	S2056	-	putative amino-acid ABC transporter ATP-binding protein YecC
1788	 53.36	0	1970612..1971280	-	222	30063362	yecS	S2057	-	putative transport system permease protein (former yecC)
1789	 54.10	0	1971295..1972281	-	328	161486473	yedO	S2058	-	D-cysteine desulfhydrase
1790	 46.26	-1	1973275..1973862	-	195	30063364	fliZ	S2060	-	protein FliZ
1791	 48.22	0	1974756..1976408	-	550	30063365	fliC	S2062	-	flagellin
1792	 52.24	0	1976674..1978080	+	468	30063366	fliD	S2063	-	flagellar capping protein
1793	 48.18	0	1978105..1978515	+	136	30063367	fliS	S2064	-	flagellar protein FliS
1794	 51.91	0	1978515..1978880	+	121	30063368	fliT	S2065	-	flagellar biosynthesis protein FliT
1795	 49.80	0	1978958..1980445	+	495	30063369	amyA	S2066	-	cytoplasmic alpha-amylase
1796	 57.00	+1	1980479..1980892	-	137	30063370	yedD	S2067	-	hypothetical protein
1797	 54.48	0	1981079..1982284	+	401	30063371	yedE	S2068	-	putative inner membrane protein
1798	 48.29	0	1982281..1982514	+	77	30063372	yedF	S2069	-	hypothetical protein
1799	 52.17	0	1983331..1984137	-	268	30063373	-	S2072	-	putative virulence protein
1800	 44.14	-1	1985546..1986628	+	360	30063374	nmpC	S2073	-	putative outer membrane porin protein C precurser
1801	 37.13	-2	1987178..1987915	-	245	30063375	-	S4819	-	putative regulator
1802	 42.39	-2	1987925..1988476	-	183	30063376	ybcL	S4820	-	putative kinase inhibitor
1803	 43.24	-2	1988645..1988977	-	110	30063377	emrE	S4821	-	multidrug efflux protein
1804	 54.92	0	1989322..1989636	-	104	30063378	fliE	S2076	-	flagellar hook-basal body protein FliE
1805	 56.22	+1	1991502..1992497	+	331	30063379	fliG	S2078	-	flagellar motor switch protein G
1806	 57.21	+1	1992490..1993176	+	228	30063380	fliH	S2079	-	flagellar assembly protein H
1807	 58.01	+1	1993176..1994549	+	457	30063381	fliI	S2080	-	flagellum-specific ATP synthase
1808	 54.43	0	1994909..1996036	+	375	30063382	fliK	S2082	-	flagellar hook-length control protein
1809	 52.90	0	1996141..1996605	+	154	30063383	fliL	S2083	-	flagellar basal body-associated protein FliL
1810	 53.03	0	1996610..1997614	+	334	30063384	fliM	S2084	-	flagellar motor switch protein FliM
1811	 55.80	+1	1997611..1998024	+	137	30063385	fliN	S2085	-	flagellar motor switch protein FliN
1812	 55.74	+1	1998027..1998392	+	121	161486472	fliO	S2086	-	flagellar biosynthesis protein FliO
1813	 51.11	0	1999167..1999436	+	89	30063387	fliQ	S2088	-	flagellar biosynthesis protein FliQ
1814	 47.20	-1	1999445..2000230	+	261	30063388	fliR	S2089	-	flagellar biosynthesis protein FliR
1815	 38.30	-2	2000515..2001138	+	207	30063389	rcsA	S2090	-	positive regulator for ctr capsule biosynthesis, positive transcription factor
1816	 50.79	0	2001182..2001370	-	62	30063390	dsrB	S2091	-	hypothetical protein
1817	 48.68	0	2001533..2001760	+	75	30063391	-	S2092	-	hypothetical protein
1818	 51.91	0	2004735..2004917	-	60	30063392	-	S2096	-	hypothetical protein
1819	 52.72	0	2004996..2005913	-	305	30063393	yedI	S2097	-	hypothetical protein
1820	 53.64	0	2006086..2007006	+	306	30063394	yedA	S2098	-	hypothetical protein
1821	 56.26	+1	2006995..2007465	-	156	30063395	vsr	S2099	-	DNA mismatch endonuclease, patch repair protein
1822	 51.87	0	2007446..2008864	-	472	30063396	dcm	S2100	-	DNA cytosine methylase
1823	 50.43	0	2009769..2010581	-	270	30063397	-	S2103	-	ISEhe3 orfB
1824	 49.10	0	2010638..2010916	-	92	30063398	-	S2104	-	ISEhe3 orfA
1825	 45.27	-1	2010943..2011830	+	295	30063399	-	S2105	-	putative outer membrane pore protein
1826	 54.86	0	2011755..2012660	-	301	161486471	-	S2106	-	insertion element IS2 transposase InsD
1827	 52.46	0	2012618..2012983	-	121	161486470	-	S2107	-	insertion sequence 2 OrfA protein
1828	 41.43	-2	2013047..2013256	+	69	30063402	-	S2108	-	putative outer membrane protein
1829	 52.90	0	2013884..2014159	+	91	30063403	-	S2109	-	IS1 orfA
1830	 53.37	0	2014078..2014581	+	167	30063404	-	S2110	-	IS1 orfB
1831	 48.11	0	2014627..2015499	+	290	30063405	yedU	S2111	-	chaperone protein HchA
1832	 39.44	-2	2015585..2016943	-	452	30063406	yedV	S2112	-	putative 2-component sensor protein
1833	 44.64	-1	2016943..2017614	-	223	30063407	yedW	S2113	-	transcriptional regulatory protein YedW
1834	 42.27	-2	2017747..2018160	+	137	30063408	-	S2114	-	hypothetical protein
1835	 47.96	0	2019274..2019909	+	211	30063409	-	S2116	-	putative sulfite oxidase subunit YedZ
1836	 38.86	-2	2020167..2020817	+	216	30063410	-	S2117	-	hypothetical protein
1837	 49.63	0	2021895..2022164	-	89	30063411	-	S2118	-	putative bacteriophage protein
1838	 47.93	0	2023205..2024848	+	547	30063412	ipaH_5	S2119	-	invasion plasmid antigen
1839	 54.76	0	2025028..2025405	-	125	30063413	-	S2121	-	hypothetical protein
1840	 52.90	0	2026462..2026737	+	91	30063414	-	S2122	-	IS1 orfA
1841	 52.98	0	2026656..2027159	+	167	30063415	-	S2123	-	IS1 orfB
1842	 52.10	0	2027802..2029751	-	649	30063416	-	S2124	-	putative tail protein
1843	 49.11	0	2029836..2030171	-	111	30063417	-	S2126	-	bacteriophage protein
1844	 51.54	0	2030171..2030527	-	118	30063418	-	S2127	-	hypothetical protein
1845	 53.77	0	2030527..2032023	-	498	30063419	-	S2128	-	putative sheath protein
1846	 50.59	0	2032191..2032445	-	84	30063420	-	S2129	-	hypothetical protein
1847	 52.38	0	2032575..2033288	-	237	30063421	-	S2130	-	IS600 orfB
1848	 46.20	-1	2033429..2033731	-	100	30063422	-	S2131	-	IS600 orfA
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.