MaGe - MicroScope - Web Interface System & Specialized Databases for (re)Annotation and Analysis of Microbial Genomes

Genome Browser interface provides an user-friendly way to visualize and explore a replicon content (cartographic map of the genome), together with the similarity results (synteny maps) obtained with other bacterial genomes available in our PkGDB database (i.e, (re)annotation of bacterial genomes or complete proteome downloaded from the RefSeq/WGS sections). Artemis tool can be launched at this level to examine more precisely the nucleotidic/proteic sequences (a useful interface to correct translational start codon positions if necessary). For genomic objects drawn in part of the chromosome visualized in the cartographic map, additional information is listed in a table.

Label	Type	Gene	Begin	End	Length	Frame	Product	Matrix	Evidence	AMIGene Status	Mutation	GC Content	GC3 Content	CAI	Mw (Da)	pI
Z3163	CDS		2819535	2819756	222	+3	YeeT	1	automatic/finished	COMMON	no	0.5270	0.5135	0.56	8410.41	10.00
Z3164	CDS	cbeA	2819830	2820198	369	+1	CP4-44 prophage; cytoskeleton bundling-enhancing antitoxin CbeA	1	automatic/finished	COMMON	no	0.5772	0.6504	0.41	13576.94	5.89
Z3165	CDS		2820287	2820550	264	+2	YeeV toxin protein	1	automatic/finished	COMMON	no	0.5303	0.5227	0.37	9524.61	4.85
Z3166	CDS	yeeW	2820657	2820851	195	+3	Protein YeeW	2	automatic/finished	COMMON	no	0.4923	0.5231	0.57	6958.48	4.14
ECO572887	CDS		2821267	2821425	159	-1	transposase	1	automatic/finished	UNIQUE_AMIGA	no	0.5220	0.5472	0.52	5912.70	8.18
Z3167	CDS		2821293	2821649	357	+3	Propanediol utilization protein PduV, truncated fragment	3	automatic/finished	COMMON	no	0.4986	0.4538	0.33	13007.40	7.89
Z3168	CDS		2821750	2822145	396	-1	conserved protein of unknown function	2	automatic/finished	COMMON	no	0.4646	0.5985	0.59	15131.88	9.16
Z3169	CDS	yeeA	2822251	2823309	1059	-1	putative transporter YeeA	1	automatic/finished	COMMON	no	0.5071	0.5751	0.42	39863.62	9.55
Z3170	CDS	sbmC	2823508	2823981	474	-1	DNA gyrase inhibitor	1	automatic/finished	COMMON	no	0.4705	0.5316	0.49	18060.67	4.60
Z3171	CDS	dacD	2824100	2825272	1173	-3	D-alanyl-D-alanine carboxypeptidase DacD	1	automatic/finished	COMMON	no	0.4936	0.4936	0.45	43506.62	6.36
Z3173	CDS	sbcB	2825476	2826903	1428	+1	exodeoxyribonuclease I	1	automatic/finished	COMMON	no	0.5007	0.5189	0.47	54484.73	5.38
Z3174	CDS	yeeD	2826946	2827173	228	-1	putative sulfurtransferase YeeD	1	automatic/finished	COMMON	no	0.5175	0.5132	0.55	8091.90	4.16
Z3175	CDS	yeeE	2827187	2828245	1059	-3	inner membrane protein YeeE	1	automatic/finished	COMMON	no	0.5118	0.5184	0.40	38008.64	10.14
Z3176	CDS	plaP	2828424	2829788	1365	-2	putrescine:H(+) symporter PlaP	2	automatic/finished	COMMON	no	0.5275	0.6374	0.67	49767.98	8.81
Z3177	CDS	yeeY	2830049	2830999	951	-3	putative DNA-binding transcriptional regulator YeeY	1	automatic/finished	COMMON	no	0.5079	0.5142	0.42	34940.66	5.96
Z3178	CDS	yeeZ	2831024	2831848	825	-3	putative epimerase YeeZ	1	automatic/finished	COMMON	no	0.5200	0.4873	0.38	29678.76	5.25
Z3179	CDS		2831921	2832127	207	+2	conserved protein of unknown function	3	automatic/finished	WRONG	no	0.3720	0.3333	0.21	7577.66	9.11
Z3180	CDS	hisL	2832274	2832324	51	+1	his operon leader peptide	1	automatic/finished	UNIQUE_BANK	no	0.4314	0.4118	0.53	2072.22	8.79
Z3181	CDS	hisG	2832470	2833369	900	+2	ATP phosphoribosyltransferase	2	automatic/finished	COMMON	no	0.5456	0.6000	0.59	33350.42	5.58
Z3182	CDS	hisD	2833375	2834679	1305	+1	histidinal/histidinol dehydrogenase	1	automatic/finished	COMMON	no	0.5724	0.6230	0.54	46086.56	5.16
Z3183	CDS	hisC	2834676	2835746	1071	+3	histidinol-phosphate aminotransferase	1	automatic/finished	COMMON	no	0.5490	0.6190	0.51	39386.72	5.02

Sequence

Label

Type

Gene

Begin

End

Length

Frame

Product

Matrix

Evidence

AMIGene Status

Mutation

GC Content

GC3 Content

CAI

Mw (Da)

History

Z3163

CDS

2819535

2819756

222

YeeT

automatic/finished

COMMON

0.5270

0.5135

0.56

8410.41

10.00

Z3164

CDS

cbeA

2819830

2820198

369

CP4-44 prophage; cytoskeleton bundling-enhancing antitoxin CbeA

automatic/finished

COMMON

0.5772

0.6504

0.41

13576.94

5.89

Z3165

CDS

2820287

2820550

264

YeeV toxin protein

automatic/finished

COMMON

0.5303

0.5227

0.37

9524.61

4.85

Z3166

CDS

yeeW

2820657

2820851

195

Protein YeeW

automatic/finished

COMMON

0.4923

0.5231

0.57

6958.48

4.14

ECO572887

CDS

2821267

2821425

159

-1

transposase

automatic/finished

UNIQUE_AMIGA

0.5220

0.5472

0.52

5912.70

8.18

Z3167

CDS

2821293

2821649

357

Propanediol utilization protein PduV, truncated fragment

automatic/finished

COMMON

0.4986

0.4538

0.33

13007.40

7.89

Z3168

CDS

2821750

2822145

396

-1

conserved protein of unknown function

automatic/finished

COMMON

0.4646

0.5985

0.59

15131.88

9.16

Z3169

CDS

yeeA

2822251

2823309

1059

-1

putative transporter YeeA

automatic/finished

COMMON

0.5071

0.5751

0.42

39863.62

9.55

Z3170

CDS

sbmC

2823508

2823981

474

-1

DNA gyrase inhibitor

automatic/finished

COMMON

0.4705

0.5316

0.49

18060.67

4.60

Z3171

CDS

dacD

2824100

2825272

1173

-3

D-alanyl-D-alanine carboxypeptidase DacD

automatic/finished

COMMON

0.4936

0.45

43506.62

6.36

Z3173

CDS

sbcB

2825476

2826903

1428

exodeoxyribonuclease I

automatic/finished

COMMON

0.5007

0.5189

0.47

54484.73

5.38

Z3174

CDS

yeeD

2826946

2827173

228

-1

putative sulfurtransferase YeeD

automatic/finished

COMMON

0.5175

0.5132

0.55

8091.90

4.16

Z3175

CDS

yeeE

2827187

2828245

1059

-3

inner membrane protein YeeE

automatic/finished

COMMON

0.5118

0.5184

0.40

38008.64

10.14

Z3176

CDS

plaP

2828424

2829788

1365

-2

putrescine:H(+) symporter PlaP

automatic/finished

COMMON

0.5275

0.6374

0.67

49767.98

8.81

Z3177

CDS

yeeY

2830049

2830999

951

-3

putative DNA-binding transcriptional regulator YeeY

automatic/finished

COMMON

0.5079

0.5142

0.42

34940.66

5.96

Z3178

CDS

yeeZ

2831024

2831848

825

-3

putative epimerase YeeZ

automatic/finished

COMMON

0.5200

0.4873

0.38

29678.76

5.25

Z3179

CDS

2831921

2832127

207

conserved protein of unknown function

automatic/finished

WRONG

0.3720

0.3333

0.21

7577.66

9.11

Z3180

CDS

hisL

2832274

2832324

his operon leader peptide

automatic/finished

UNIQUE_BANK

0.4314

0.4118

0.53

2072.22

8.79

Z3181

CDS

hisG

2832470

2833369

900

ATP phosphoribosyltransferase

automatic/finished

COMMON

0.5456

0.6000

0.59

33350.42

5.58

Z3182

CDS

hisD

2833375

2834679

1305

histidinal/histidinol dehydrogenase

automatic/finished

COMMON

0.5724

0.6230

0.54

46086.56

5.16

Z3183

CDS

hisC

2834676

2835746

1071

histidinol-phosphate aminotransferase

automatic/finished

COMMON

0.5490

0.6190

0.51

39386.72

5.02

Id	Begin	End	Comments
RPTR1259135	2818183	2819756	22 repeats
RPTR1259136	2819795	2820803	7 repeats
RPTR1259137	2820893	2821064	2 repeats
RPTR1259138	2821220	2821395	3 repeats

Sequence

Begin

End

Comments

RPTR1259135

2818183

2819756

22 repeats

RPTR1259136

2819795

2820803

7 repeats

RPTR1259137

2820893

2821064

2 repeats

RPTR1259138

2821220

2821395

3 repeats

Escherichia coli O157:H7 EDL933 - chromosome NC_002655.2 Public

(sequence length : 5528445 bases)