ICON LBMGE



  

Acidobacteria Project

a joint project by:

Achim, Orsay France
Yvan, Orsay France

Sequence info:

Last modification: Tue Jul 07 2009 10:49:09

 

 
Opens a 50000 nt range genome map
Use "Zoom in" button to change display range		 Clones Info GC%
total		 GC%
(no RNA)		 Coding
density		 Coding
density
(no RNA)		 Info Database/link Status

 
L35480_AD106_G4

42095 nt.

 57,6 % 58 % 79.85% 90.1%

Annotation closed

 
L35496_AD370_D1

37430 nt.

 48,8% 48,1% 75.08% 85.55%

Annotation closed

 
L35498_AD55_D2

37647 nt.

Merged with L35511_KM3_47_B8
 Restored

Annotation closed
L35_B8_D2

46199 nt.

 52,5% 52,1% 81.27% 90.49%

L35498_AD55_D2 & L35516_KM4_9_H7 merger

Annotation closed

 
L35501_KM3_17_A5c2

14928 nt.

 55,1% 54,7% 54.31% 79.24%

L35501_KM3_173_A5 contig 2 (contains 16sRNA)

Annotation closed

 
L35501_KM3_173_A5c1

20463 nt.

 53,2% 53,2% 91.22% 91.22%

L35501_KM3_173_A5 contig 1
no 16sRNA inside

Annotation closed

 
L35504_KM3_187_G1

33396 nt.

 59,4% 60,1% 76.98% 89.56%

Annotation closed

 
L35505_KM3_18_F8

41169 nt.

 40,7% 39,2% 78.3% 88.38%

Annotation closed

 
L35507_KM3_205_D9

37834 nt.

 52,6% 53,1% 81.1% 92.64%

Annotation closed

 
L35509_KM3_25_B4

33664 nt.

 53,6% 53,8% 75.64% 87.98%

Annotation closed

 
L35511_KM3_47_B8

37314 nt.

Merged with L35498_AD55_D2
Restored

Annotation closed

 
L35516_KM4_9_H7

34997 nt.

 53,7% 52,2% 80.04% 88.37%

Annotation closed

 
L35893_AD248_D7

35310 nt.

 52,3% 51.9% 79.19% 91.64%

Annotation closed
AY214600
25348 nt.
 Uncultured Acidobacterium sp.
 BAC clone P17F9 GenBank acc. AY214600

Annotation closed

 

Annotation Database:

search currently available annotations and more in Acidobacteria database

New coords fixed

Open

Complete Annotations:

complete annotation data:
L35480_AD106_G4 L35501_KM3_17_A5c2
L35496_AD370_D1 L35501_KM3_173_A5c1
L35_B8_D2 L35504_KM3_187_G1
L35516_KM4_9_H7 L35893_AD248_D7
L35498_AD55_D2 L35511_KM3_47_B8
L35505_KM3_18_F8 L35509_KM3_25_B4
L35507_KM3_205_D9 AY214600

new coordinates have been corrected

Open

 

Matched Database Search Form:

complete orfs hits in public ressources (1)

Open
COG categories: complete COG functional categories Open
COG statistics: by Clone COG distribution statistics Open

 

Blast search:

Blast in Acidobacteria sequence databases

Open

 

Genome Guts:

retrieve genome sequences and inner parts

Open

 

Nucleotidic sequence:

retrieve complete sequences

Closed

 

Orfs sequence (amino): 

retreive orfs sequences ( >= 30 aa )

Closed

Orfs sequence (nucleic):

retreive orfs sequences ( >= 90 nt ) 

Closed
-(1) Similarity in GenBank NR protein sequence database (Jan 19, 2004); Similarity in SWISSPROT protein sequence database ( release 41.O); Pattern matches in Pfam (version 8) database using HMMER; Similarity in COG + KOG (7 eukaryal genomes) with function prediction; Hits in CDD (rpsBlast) : CDD.v.2.10; COG.v.1.0; KOG.v.1.0; Pfam.v.11.0; SMART.v4.0 ; Hits in InterPro (Interproscan) : INTERPRO v.12.1 ; PRINTS v.38.0 ; PROSITE v.19.10 ; PFAM v.19.0 ; PRODOM v.2004.1 ; SMART v.5.0 ; TIGRFAMs v.4.2 ; GO v.N/A ; SSF v.1.65 ; PIRSF v.2.68 ; GENE3D v.3.0 ; PANTHER v.6.0 ;; Transmembrane regions (modhmm0.91)

 

Problems/Questions: yvan.zivanovic@igmors.u-psud.fr