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
NMV_0001	CDS		7	498	492	-2	putative acetyltransferase	1	validated/Curated	no	no	0.4878	0.5183	0.53	18750.79	6.32
NMV_0002	CDS		502	897	396	-2	conserved hypothetical periplasmic protein	1	validated/Curated	no	no	0.5117	0.5351	0.57	12496.71	8.25
NMV_0003	CDS	gltX	918	2312	1395	-3	glutamate-tRNA ligase (glutamyl-tRNA synthetase; GluRS)	2	validated/Curated	no	no	0.5498	0.6882	0.79	52441.10	5.52
NMV_0004	CDS		2504	3160	657	-1	conserved hypothetical protein	1	validated/Curated	no	no	0.5510	0.6621	0.61	24821.78	10.07
NMV_0005	CDS		3157	3510	354	-2	putative arsenate reductase	1	validated/Curated	no	no	0.5226	0.6356	0.70	12897.49	5.40
NMV_0006	CDS		3634	4116	483	+1	putative periplasmic thioredoxin	2	validated/Curated	no	no	0.5424	0.6398	0.65	17521.50	9.51
NMV_0007	CDS	ftsE	4310	4960	651	+2	cell division ATP-binding protein FtsE	2	validated/Curated	no	no	0.5484	0.6636	0.69	24012.82	9.46
NMV_0008	CDS	ftsX	4957	5874	918	+1	cell division protein FtsX	2	validated/Curated	no	no	0.5447	0.7059	0.65	34209.98	7.99
NMV_0010	CDS		5965	6213	249	+1	putative BolA-like protein	2	validated/Curated	no	no	0.5141	0.4940	0.72	8978.90	5.92
NMV_0011	CDS	pgk	6278	7456	1179	-1	phosphoglycerate kinase	2	validated/Curated	no	no	0.5844	0.7099	0.79	40599.92	5.25
NMV_0012	CDS	murA	7537	8790	1254	-2	UDP-N-acetylglucosamine 1-carboxyvinyltransferase (enoylpyruvate transferase; UDP-N-acetylglucosamine enolpyruvyl transferase; EPT)	1	validated/Curated	no	no	0.5861	0.7129	0.64	43891.90	5.54
NMV_tRNA_59	tRNA		9009	9084	76	-1	Lys tRNA		validated/Curated	no	no
NMV_0013	CDS		9153	10127	975	-3	conserved hypothetical integral membrane protein	1	validated/Curated	no	no	0.5036	0.6585	0.72	35754.12	7.18
NMV_0014	CDS		10160	10609	450	-1	conserved hypothetical integral membrane protein	1	validated/Curated	no	no	0.5444	0.7200	0.65	16511.31	9.80
NMV_0015	CDS	kdtA	10650	11921	1272	-3	3-deoxy-D-manno-octulosonic-acid transferase (KDO transferase)	1	validated/Curated	no	no	0.5936	0.6557	0.57	47170.37	9.11
NMV_0016	CDS	gnd	11984	13432	1449	-1	6-phosphogluconate dehydrogenase, decarboxylating	1	validated/Curated	no	no	0.5424	0.6605	0.67	53025.36	5.04
NMV_0017	CDS	lpxC	14960	15883	924	-1	UDP-3-O-acyl-N-acetylglucosamine deacetylase	1	validated/Curated	no	no	0.5357	0.6688	0.72	33966.34	5.13
NMV_0019	CDS	pilE	16989	17495	507	-3	major pilin PilE	2	validated/Curated	no	no	0.5345	0.6213	0.74	17822.38	8.51
NMNmiscRNA0159	misc_RNA		16990	17776	787	+1	AS RNA		validated/Curated		no
NMNmiscRNA0158	misc_RNA		17872	18035	164	+1	pilE G4-associated sRNA		validated/Curated		no
NMV_0022	CDS	pilS1	19549	19914	366	-2	pilS1 cassette	2	validated/Curated	no	partial	0.5214	0.5929	0.72	14830.95	8.73

Sequence

Label

Type

Gene

Begin

End

Length

Frame

Product

Matrix

Evidence

AMIGene Status

Mutation

GC Content

GC3 Content

CAI

Mw (Da)

History

NMV_0001

CDS

498

492

-2

putative acetyltransferase

validated/Curated

0.4878

0.5183

0.53

18750.79

6.32

NMV_0002

CDS

502

897

396

-2

conserved hypothetical periplasmic protein

validated/Curated

0.5117

0.5351

0.57

12496.71

8.25

NMV_0003

CDS

gltX

918

2312

1395

-3

glutamate-tRNA ligase (glutamyl-tRNA synthetase; GluRS)

validated/Curated

0.5498

0.6882

0.79

52441.10

5.52

NMV_0004

CDS

2504

3160

657

-1

conserved hypothetical protein

validated/Curated

0.5510

0.6621

0.61

24821.78

10.07

NMV_0005

CDS

3157

3510

354

-2

putative arsenate reductase

validated/Curated

0.5226

0.6356

0.70

12897.49

5.40

NMV_0006

CDS

3634

4116

483

putative periplasmic thioredoxin

validated/Curated

0.5424

0.6398

0.65

17521.50

9.51

NMV_0007

CDS

ftsE

4310

4960

651

cell division ATP-binding protein FtsE

validated/Curated

0.5484

0.6636

0.69

24012.82

9.46

NMV_0008

CDS

ftsX

4957

5874

918

cell division protein FtsX

validated/Curated

0.5447

0.7059

0.65

34209.98

7.99

NMV_0010

CDS

5965

6213

249

putative BolA-like protein

validated/Curated

0.5141

0.4940

0.72

8978.90

5.92

NMV_0011

CDS

pgk

6278

7456

1179

-1

phosphoglycerate kinase

validated/Curated

0.5844

0.7099

0.79

40599.92

5.25

NMV_0012

CDS

murA

7537

8790

1254

-2

UDP-N-acetylglucosamine 1-carboxyvinyltransferase (enoylpyruvate transferase; UDP-N-acetylglucosamine enolpyruvyl transferase; EPT)

validated/Curated

0.5861

0.7129

0.64

43891.90

5.54

NMV_tRNA_59

tRNA

9009

9084

-1

Lys tRNA

validated/Curated

NMV_0013

CDS

9153

10127

975

-3

conserved hypothetical integral membrane protein

validated/Curated

0.5036

0.6585

0.72

35754.12

7.18

NMV_0014

CDS

10160

10609

450

-1

conserved hypothetical integral membrane protein

validated/Curated

0.5444

0.7200

0.65

16511.31

9.80

NMV_0015

CDS

kdtA

10650

11921

1272

-3

3-deoxy-D-manno-octulosonic-acid transferase (KDO transferase)

validated/Curated

0.5936

0.6557

0.57

47170.37

9.11

NMV_0016

CDS

gnd

11984

13432

1449

-1

6-phosphogluconate dehydrogenase, decarboxylating

validated/Curated

0.5424

0.6605

0.67

53025.36

5.04

NMV_0017

CDS

lpxC

14960

15883

924

-1

UDP-3-O-acyl-N-acetylglucosamine deacetylase

validated/Curated

0.5357

0.6688

0.72

33966.34

5.13

NMV_0019

CDS

pilE

16989

17495

507

-3

major pilin PilE

validated/Curated

0.5345

0.6213

0.74

17822.38

8.51

NMNmiscRNA0159

misc_RNA

16990

17776

787

AS RNA

validated/Curated

NMNmiscRNA0158

misc_RNA

17872

18035

164

pilE G4-associated sRNA

validated/Curated

NMV_0022

CDS

pilS1

19549

19914

366

-2

pilS1 cassette

validated/Curated

partial

0.5214

0.5929

0.72

14830.95

8.73

Id	Begin	End	Comments
RPTR1443286	4124	4165	3 repeats
RPTR1443287	7499	7529	3 repeats
RPTR1443288	8959	9091	1 repeats
RPTR1443289	14030	14963	376 repeats
RPTR1443290	15978	16109	3 repeats
RPTR1443291	16110	16762	408 repeats
RPTR1443292	16995	17373	5 repeats
RPTR1443293	17979	21936	714 repeats

Sequence

Begin

End

Comments

RPTR1443286

4124

4165

3 repeats

RPTR1443287

7499

7529

3 repeats