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
BRADO0001	CDS	dnaA	936	2366	1431	+3	Chromosomal replication initiator protein dnaA	1	validated/finished	no	no	0.6813	0.8826	0.67	52688.20	9.51
BRADO0002	CDS	dnaN	2659	3777	1119	+1	DNA polymerase III, beta-subunit	1	validated/finished	no	no	0.6622	0.9008	0.69	40404.46	5.34
BRADO0003	CDS	recF	3998	5134	1137	+2	DNA replication and repair protein recF	1	validated/finished	no	no	0.7054	0.8918	0.64	40758.80	5.98
BRADO0004	CDS	gyrB	5434	7872	2439	+1	DNA gyrase subunit B	2	validated/finished	no	no	0.6494	0.8918	0.72	89873.12	5.58
BRADO0005	CDS	murA	8037	9332	1296	+3	UDP-N-acetylglucosamine 1-carboxyvinyltransferase (Enoylpyruvate transferase) (UDP-N-acetylglucosamine enolpyruvyl transferase) (EPT)	3	validated/finished	no	no	0.6929	0.9259	0.72	46211.51	6.09
BRADO0006	CDS		9479	9958	480	+2	conserved hypothetical protein	3	validated/finished	no	no	0.6479	0.8188	0.51	17544.72	10.42
BRADO0007	CDS		10145	10891	747	-3	Conserved hypothetical protein; putative membrane protein	3	validated/finished	no	no	0.6332	0.8353	0.55	28348.74	6.93
BRADO0008	CDS		11087	11854	768	-3	Putative transcriptional regulatory protein,luxR family	2	validated/finished	no	no	0.6719	0.8672	0.56	27792.98	7.99
BRADO0009	CDS		12876	14252	1377	+3	putative MATE efflux family protein; putative multidrug resistance protein norM (Multidrug-efflux transporter)	3	validated/finished	no	no	0.6725	0.8453	0.56	48126.50	9.98
BRADO0010	CDS		14255	15397	1143	-3	conserved hypothetical protein; putative membrane protein	2	validated/finished	no	no	0.7130	0.9108	0.69	39625.30	9.45
BRADO0011	CDS		15509	16879	1371	+2	Conserved hypothetical protein; Putative MmgE/PrpD family protein	3	validated/finished	no	no	0.6659	0.8403	0.60	48231.48	5.88
BRADO0012	CDS		16888	18294	1407	-1	putative Beta-lactamase family protein; putative 6-aminohexanoate-dimer hydrolase	1	validated/finished	no	no	0.6894	0.8550	0.59	49901.14	6.03
BRADO0013	CDS		18436	19512	1077	-1	putative transcriptional regulatory protein, AraC family	3	validated/finished	no	no	0.6899	0.8802	0.58	37926.06	10.51
BRADO0014	CDS		19653	20570	918	+3	putative Pirin family protein	2	validated/finished	no	no	0.6721	0.8856	0.64	33817.10	5.80

Sequence

Label

Type

Gene

Begin

End

Length

Frame

Product

Matrix

Evidence

AMIGene Status

Mutation

GC Content

GC3 Content

CAI

Mw (Da)

History

BRADO0001

CDS

dnaA

936

2366

1431

Chromosomal replication initiator protein dnaA

validated/finished

0.6813

0.8826

0.67

52688.20

9.51

BRADO0002

CDS

dnaN

2659

3777

1119

DNA polymerase III, beta-subunit

validated/finished

0.6622

0.9008

0.69

40404.46

5.34

BRADO0003

CDS

recF

3998

5134

1137

DNA replication and repair protein recF

validated/finished

0.7054

0.8918

0.64

40758.80

5.98

BRADO0004

CDS

gyrB

5434

7872

2439

DNA gyrase subunit B

validated/finished

0.6494

0.8918

0.72

89873.12

5.58

BRADO0005

CDS

murA

8037

9332

1296

UDP-N-acetylglucosamine 1-carboxyvinyltransferase (Enoylpyruvate transferase) (UDP-N-acetylglucosamine enolpyruvyl transferase) (EPT)

validated/finished

0.6929

0.9259

0.72

46211.51

6.09

BRADO0006

CDS

9479

9958

480

conserved hypothetical protein

validated/finished

0.6479

0.8188

0.51

17544.72

10.42

BRADO0007

CDS

10145

10891

747

-3

Conserved hypothetical protein; putative membrane protein

validated/finished

0.6332

0.8353

0.55

28348.74

6.93

BRADO0008

CDS

11087

11854

768

-3

Putative transcriptional regulatory protein,luxR family

validated/finished

0.6719

0.8672

0.56

27792.98

7.99

BRADO0009

CDS

12876

14252

1377

putative MATE efflux family protein; putative multidrug resistance protein norM (Multidrug-efflux transporter)

validated/finished

0.6725

0.8453

0.56

48126.50

9.98

BRADO0010

CDS

14255

15397

1143

-3

conserved hypothetical protein; putative membrane protein

validated/finished

0.7130

0.9108

0.69

39625.30

9.45

BRADO0011

CDS

15509

16879

1371

Conserved hypothetical protein; Putative MmgE/PrpD family protein

validated/finished

0.6659

0.8403

0.60

48231.48

5.88

BRADO0012

CDS

16888

18294

1407

-1

putative Beta-lactamase family protein; putative 6-aminohexanoate-dimer hydrolase

validated/finished

0.6894

0.8550

0.59

49901.14

6.03

BRADO0013

CDS

18436

19512

1077

-1

putative transcriptional regulatory protein, AraC family

validated/finished

0.6899

0.8802

0.58

37926.06

10.51

BRADO0014

CDS

19653

20570

918

putative Pirin family protein

validated/finished

0.6721

0.8856

0.64

33817.10

5.80

Id	Begin	End	Comments
RPTR1396837	3798	3996	44 repeats
RPTR1396838	6285	7096	1 repeats
RPTR1396839	9250	9449	60 repeats

Sequence

Begin

End

Comments

RPTR1396837

3798

3996

44 repeats

RPTR1396838

6285

7096

1 repeats

RPTR1396839

9250

9449

60 repeats

Bradyrhizobium sp. ORS278 - chromosome BRADO.1 Public

(sequence length : 7456587 bases)