IslandPathversion 1.0

IslandPath Analysis: Silicibacter sp. TM1040



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: 60.41 STD DEV: 3.16
Silicibacter sp. TM1040, complete genome - 1..3200938
3030 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
313	 60.74	0	318476..318610	-	44	99080154	rpmH	TM1040_0313	-	50S ribosomal protein L34
314	 63.69	+1	319077..319814	+	245	99080155	-	TM1040_0314	-	hypothetical protein
315	 63.35	0	319818..321233	+	471	99080156	-	TM1040_0315	-	pyridine nucleotide-disulphide oxidoreductase dimerisation region
316	 62.27	0	321251..322636	+	461	99080157	-	TM1040_0316	-	periplasmic sensor signal transduction histidine kinase
317	 50.28	-2	323531..324073	+	180	99080158	-	TM1040_0317	-	hypothetical protein
318	 57.14	-1	324245..324664	+	139	99080159	-	TM1040_0318	-	hypothetical protein
319	 64.10	+1	324863..325447	+	194	99080160	-	TM1040_0319	-	TetR family transcriptional regulator
320	 59.96	0	325584..326150	+	188	99080161	-	TM1040_0320	-	carboxymuconolactone decarboxylase
321	 61.47	0	326224..326781	+	185	99080162	-	TM1040_0321	-	redoxin
322	 63.00	0	326868..327740	-	290	99080163	-	TM1040_0322	-	LysR family transcriptional regulator
323	 63.53	0	327846..328961	+	371	99080164	-	TM1040_0323	-	twin-arginine translocation pathway signal
324	 63.63	+1	329049..329936	+	295	99080165	-	TM1040_0324	-	binding-protein-dependent transport systems inner membrane component
325	 60.71	0	329940..330761	+	273	99080166	-	TM1040_0325	-	binding-protein-dependent transport systems inner membrane component
326	 63.90	+1	330758..331876	+	372	99080167	-	TM1040_0326	-	ABC transporter related
327	 67.53	+2	331873..333141	+	422	99080168	-	TM1040_0327	-	amidase
328	 62.71	0	333138..334046	+	302	99080169	-	TM1040_0328	-	polysaccharide deacetylase
329	 65.67	+1	334033..334734	+	233	99080170	-	TM1040_0329	-	hypothetical protein
330	 63.53	0	334809..335477	-	222	99080171	-	TM1040_0330	-	(Acyl-carrier protein) phosphodiesterase
331	 66.22	+1	335647..336549	+	300	99080172	-	TM1040_0331	-	LysR family transcriptional regulator
332	 65.85	+1	336588..337442	-	284	99080173	-	TM1040_0332	-	LysR family transcriptional regulator
333	 63.01	0	337542..338690	+	382	99080174	-	TM1040_0333	-	gamma-butyrobetaine,2-oxoglutarate dioxygenase
334	 59.56	0	338687..339277	+	196	99080175	-	TM1040_0334	-	hypothetical protein
335	 61.77	0	339509..339937	-	142	99080176	-	TM1040_0335	-	hypothetical protein
336	 64.10	+1	339939..341264	-	441	99080177	-	TM1040_0336	-	major facilitator transporter
337	 60.54	0	341517..341957	+	146	99080178	-	TM1040_0337	-	3-dehydroquinate dehydratase
338	 60.23	0	342242..343732	+	496	99080179	-	TM1040_0338	-	NCS1 nucleoside transporter
339	 63.83	+1	343924..344769	+	281	99080180	-	TM1040_0339	-	hypothetical protein
340	 60.28	0	344893..345972	+	359	99080181	-	TM1040_0340	-	peptidoglycan-binding LysM
341	 62.38	0	345984..347057	+	357	99080182	-	TM1040_0341	-	hypothetical protein
342	 59.02	0	347255..349738	+	827	99080183	-	TM1040_0342	-	multi-sensor hybrid histidine kinase
343	 63.73	+1	349883..350665	-	260	99080184	-	TM1040_0343	-	hemin importer ATP-binding subunit
344	 64.37	+1	350662..351750	-	362	99080185	-	TM1040_0344	-	transport system permease protein
345	 64.19	+1	351754..352602	-	282	99080186	-	TM1040_0345	-	periplasmic binding protein
346	 62.59	0	352602..353681	-	359	99080187	-	TM1040_0346	-	hemin-degrading
347	 58.42	0	353932..355944	+	670	99080188	-	TM1040_0347	-	TonB-dependent receptor, plug
348	 62.55	0	355964..356425	+	153	99080189	-	TM1040_0348	-	hypothetical protein
349	 63.73	+1	356422..357102	+	226	99080190	-	TM1040_0349	-	MotA/TolQ/ExbB proton channel
350	 59.54	0	357102..357494	+	130	99080191	-	TM1040_0350	-	biopolymer transport protein ExbD/TolR
351	 62.37	0	357498..357893	+	131	99080192	-	TM1040_0351	-	hypothetical protein
352	 68.09	+2	357890..358804	+	304	99080193	-	TM1040_0352	-	TonB-like
353	 62.47	0	358801..359538	-	245	99080194	-	TM1040_0353	-	hypothetical protein
354	 58.52	0	359541..360473	-	310	99080195	-	TM1040_0354	-	LysR family transcriptional regulator
355	 61.94	0	360576..361823	+	415	99080196	-	TM1040_0355	-	D-amino-acid dehydrogenase
356	 61.04	0	361863..362840	+	325	99080197	-	TM1040_0356	-	TRAP dicarboxylate transporter- DctP subunit
357	 59.84	0	363053..363667	+	204	99080198	-	TM1040_0357	-	hypothetical protein
358	 59.35	0	363664..364962	+	432	99080199	-	TM1040_0358	-	TRAP dicarboxylate transporter- DctM subunit
359	 61.53	0	365386..368169	+	927	99080200	-	TM1040_0359	-	methyl-accepting chemotaxis sensory transducer
360	 61.74	0	368350..370440	+	696	99080201	-	TM1040_0360	-	short chain enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase
361	 62.00	0	370462..371640	+	392	99080202	-	TM1040_0361	-	Acetyl-CoA C-acyltransferase
362	 61.53	0	371829..372626	+	265	99080203	-	TM1040_0362	-	IclR family transcriptional regulator
363	 65.32	+1	372959..373921	+	320	99080204	-	TM1040_0363	-	glucokinase
364	 56.98	-1	374058..374852	+	264	99080205	-	TM1040_0364	-	hypothetical protein
365	 65.66	+1	374933..375625	-	230	99080206	-	TM1040_0365	-	GntR family transcriptional regulator
366	 62.96	0	375616..376452	-	278	99080207	-	TM1040_0366	-	hypothetical protein
367	 62.08	0	376581..377822	-	413	99080208	-	TM1040_0367	-	ROK domain-containing protein
368	 61.06	0	377973..378989	+	338	99080209	-	TM1040_0368	-	periplasmic binding protein/LacI transcriptional regulator
369	 58.12	0	379177..380241	+	354	99080210	-	TM1040_0369	-	inner-membrane translocator
370	 61.15	0	380238..381017	+	259	99080211	-	TM1040_0370	-	ABC transporter related
371	 66.03	+1	381014..381637	+	207	99080212	frcK	TM1040_0371	-	putative fructose transport system kinase
372	 59.31	0	381666..382331	+	221	99080213	-	TM1040_0372	-	hypothetical protein
373	 62.21	0	382535..383410	-	291	99080214	-	TM1040_0373	-	NAD-dependent epimerase/dehydratase
374	 58.51	0	383481..383897	-	138	99080215	-	TM1040_0374	-	glutathione-dependent formaldehyde-activating, GFA
375	 66.36	+1	384038..384685	-	215	99080216	-	TM1040_0375	-	2-keto-3-deoxy-phosphogluconate aldolase
376	 63.02	0	384690..386501	-	603	99080217	-	TM1040_0376	-	phosphogluconate dehydratase
377	 60.88	0	386534..387985	-	483	99080218	-	TM1040_0377	-	glucose-6-phosphate 1-dehydrogenase
378	 61.82	0	388010..389620	-	536	99080219	-	TM1040_0378	-	glucose-6-phosphate isomerase
379	 52.21	-2	389724..390131	-	135	99080220	-	TM1040_0379	-	hypothetical protein
380	 62.15	0	390218..390859	-	213	99080221	-	TM1040_0380	-	urease accessory protein UreG
381	 62.33	0	390856..391500	-	214	99080222	-	TM1040_0381	-	urease accessory protein UreF
382	 63.09	0	391490..392020	-	176	99080223	-	TM1040_0382	-	UreE urease accessory-like
383	 57.89	0	392070..392297	-	75	99080224	-	TM1040_0383	-	hypothetical protein
384	 58.21	0	392436..393050	-	204	99080225	-	TM1040_0384	-	hypothetical protein
385	 61.88	0	393082..394794	-	570	99080226	ureC	TM1040_0385	-	urease subunit alpha
386	 64.05	+1	394907..395212	-	101	99080227	-	TM1040_0386	-	urease, beta subunit
387	 61.72	0	395402..395704	-	100	99080228	-	TM1040_0387	-	urease, gamma subunit
388	 64.88	+1	395726..396619	-	297	99080229	-	TM1040_0388	-	urease accessory protein UreD
389	 60.98	0	396997..398121	+	374	99080230	-	TM1040_0389	-	L-carnitine dehydratase/bile acid-inducible protein F
390	 62.30	0	398118..398918	-	266	99080231	-	TM1040_0390	-	hypothetical protein
391	 61.83	0	399046..401052	+	668	99080232	-	TM1040_0391	-	peptidase S15
392	 58.65	0	401118..401666	-	182	99080233	-	TM1040_0392	-	hypothetical protein
393	 60.38	0	401790..402266	-	158	99080234	-	TM1040_0393	-	hypothetical protein
394	 64.96	+1	402282..402986	-	234	99080235	-	TM1040_0394	-	hypothetical protein
395	 62.16	0	402983..404047	-	354	99080236	-	TM1040_0395	-	Mrp/NBP35 family protein
396	 62.99	0	404143..406101	-	652	99080237	-	TM1040_0396	-	4Fe-4S ferredoxin, iron-sulfur binding
397	 61.71	0	406357..407001	+	214	99080238	-	TM1040_0397	-	hypothetical protein
398	 64.99	+1	406998..407654	+	218	99080239	-	TM1040_0398	-	hypothetical protein
399	 59.81	0	407651..408277	+	208	99080240	-	TM1040_0399	-	cytoplasmic chaperone TorD
400	 62.96	0	408384..408572	+	62	99080241	-	TM1040_0400	-	twin-arginine translocation pathway signal
401	 60.73	0	408686..411580	+	964	99080242	-	TM1040_0401	-	formate dehydrogenase alpha subunit
402	 59.60	0	411594..412187	+	197	99080243	-	TM1040_0402	-	4Fe-4S ferredoxin, iron-sulfur binding
403	 60.00	0	412303..413517	+	404	99080244	-	TM1040_0403	-	formate dehydrogenase gamma subunit
404	 62.69	0	413522..414805	+	427	99080245	-	TM1040_0404	-	cytochrome c, class I
405	 58.76	0	414942..416294	+	450	99080246	-	TM1040_0405	-	two component, sigma54 specific, Fis family transcriptional regulator
406	 60.24	0	416325..418301	-	658	99080247	-	TM1040_0406	-	periplasmic sensor signal transduction histidine kinase
407	 60.46	0	418401..419141	-	246	99080248	-	TM1040_0407	-	short-chain dehydrogenase/reductase SDR
408	 59.75	0	419138..419860	-	240	99080249	-	TM1040_0408	-	short-chain dehydrogenase/reductase SDR
409	 58.95	0	419857..420426	-	189	99080250	-	TM1040_0409	-	hypothetical protein
410	 64.04	+1	420423..421640	-	405	99080251	-	TM1040_0410	-	sodium:galactoside symporter family protein
411	 62.25	0	421643..422185	-	180	99080252	-	TM1040_0411	-	hypothetical protein
412	 59.69	0	422175..423335	-	386	99080253	-	TM1040_0412	-	cyclopropane-fatty-acyl-phospholipid synthase
60.41	MEAN

3.16	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.