aa_ha Gene Table Build 14_10_01 [A quick tutorial]

Citation
Kittichotirat W, Bumgarner RE, Asikainen S, Chen C, 2011
Identification of the Pangenome and Its Components in 14 Distinct Aggregatibacter actinomycetemcomitans Strains by Comparative Genomic Analysis
PLoS ONE 6(7): e22420. doi:10.1371/journal.pone.0022420

Keyword search
Search for
Also include clusters with significant sequence similarity
Also include clusters containing upstream and downstream genes (Must sort rows by Gene position in a genome first)

BLAST search
Sequence type

Row sorting and cell coloring options
Sort rows by Order rows in
Color cells by Display rows

Row filtering options
 Show COG of type
 Show clusters with minimum expected length of bp
Show clusters containing genes near the ends of contigs
Show clusters containing genes with frameshift mutation

Display column
1) D17P-3new
2) D7S-1new
3) H5P-1new
4) I63Bnew
5) SA508
6) SA3733
7) SA3033
8) SA269
9) SA2200
10) D18P-1new
11) SC29R
12) SA2876
13) SCC393new
14) A160new
15) SC936
16) SC1083
17) SA3096
18) ANH9776
19) RHAAInew
20) HK1651new
21) ANH9381gb
22) SCC1398new
23) SCC4092new
24) I23Cnew
25) S23Anew
26) D11S-1new
27) D17P-2new
28) SA2149
29) SC383s
30) SCC2302new
31) AAS4anew
32) ATCC33389new
33) NJ8700new
Show genes only present in
1) D17P-3new
2) D7S-1new
3) H5P-1new
4) I63Bnew
5) SA508
6) SA3733
7) SA3033
8) SA269
9) SA2200
10) D18P-1new
11) SC29R
12) SA2876
13) SCC393new
14) A160new
15) SC936
16) SC1083
17) SA3096
18) ANH9776
19) RHAAInew
20) HK1651new
21) ANH9381gb
22) SCC1398new
23) SCC4092new
24) I23Cnew
25) S23Anew
26) D11S-1new
27) D17P-2new
28) SA2149
29) SC383s
30) SCC2302new
31) AAS4anew
32) ATCC33389new
33) NJ8700new
All genomes (Core genes)
Some genomes (Variable genes)

Show genes not present in
1) D17P-3new
2) D7S-1new
3) H5P-1new
4) I63Bnew
5) SA508
6) SA3733
7) SA3033
8) SA269
9) SA2200
10) D18P-1new
11) SC29R
12) SA2876
13) SCC393new
14) A160new
15) SC936
16) SC1083
17) SA3096
18) ANH9776
19) RHAAInew
20) HK1651new
21) ANH9381gb
22) SCC1398new
23) SCC4092new
24) I23Cnew
25) S23Anew
26) D11S-1new
27) D17P-2new
28) SA2149
29) SC383s
30) SCC2302new
31) AAS4anew
32) ATCC33389new
33) NJ8700new


<< Prev    Next >>
First Page    Last Page
Go to page   / 74  

# Cluster ID COG Function Annotation Expected gene Length (bp)

Serotype-a D17P3 New

Serotype-a D7S-1 New

Serotype-a H5P1 New

Serotype-d I63B New

Serotype-d SA508

Serotype-d SA3733

Serotype-d SA3033

Serotype-d SA269

Serotype-d SA2200

Serotype-f D18P1 New

Serotype-f SC29R

Serotype-e SA2876

Serotype-e SCC393 New

Serotype-e A160 New

Serotype-e SC936

Serotype-e SC1083

Serotype-e SA3096

Serotype-e ANH9776

Serotype-b RHAA1 New

Serotype-b HK1651 New

Serotype-b ANH9381 Genbank

Serotype-b SCC1398 New

Serotype-b SCC4092 New

Serotype-b I23C New

Serotype-b S23A New

Serotype-c D11S-1 New

Serotype-c D17P2 New

Serotype-c SA2149

Serotype-c SC383s

Serotype-c SCC2302 New

Serotype-c AAS4A New

ATCC33389 New

NJ8700 New

1p-cluster01063 COG3084 [S]hypothetical protein264        * *   *                                                  
2p-cluster00832 COG0746 [H]molybdenum cofactor guanylyltransfe582          *                       *                              
3p-cluster00477 Uncategoriziedhypothetical protein537                                                                 
4p-cluster00158 COG1925 [G]bifunctional PTS system fructose-sp1536                                                                 
5p-cluster00487 COG1105 [G]1-phosphofructokinase939                                                                 
6p-cluster00122 COG1299 [G]PTS system fructose-specific transp1662                                                                 
7p-cluster06256 Uncategoriziedrecombinase RecA237                                                                 
8p-cluster14433 Uncategoriziedhypothetical protein129                                                                 
9p-cluster02334 COG0583 [K]LysR family transcriptional regulat399                                                                 
10p-cluster01749 COG2249 [R]NAD(P)H dehydrogenase549                                                                 
11p-cluster01749 COG2249 [R]NAD(P)H dehydrogenase549                                                                 
12p-cluster01849 Uncategoriziedhypothetical protein336        * *   *                                                  
13p-cluster02461 Uncategoriziedhypothetical protein315                      *                                          
14p-cluster01955 COG0790 [R]hypothetical protein1173*   * *   * * * * * * * * *                                   *  
15p-cluster14875 Uncategoriziedhypothetical protein201          * * * *     * *                                        
16p-cluster39900 COG0790 [R]hypothetical protein756*   * *   * * * * *                                           *  
17p-cluster00072 Uncategoriziedhypothetical protein495    * * * * * * *                                                
18p-cluster15336 COG1502 [I]hypothetical protein282                  *                                              
19p-cluster06147 Uncategoriziedpermease2421        * *   *     *             *                   *          
20p-cluster00329 COG0192 [H]S-adenosylmethionine synthetase1152*   * * * * * * * * * * * *       *                              
21p-cluster01078 COG0184 [J]30S ribosomal protein S15267                                  *                              
22p-cluster00675 COG0596 [R]2-succinyl-6-hydroxy-2, 4-cyclohexa747                                                                 
23p-cluster01155 COG1165 [H]2-succinyl-5-enolpyruvyl-6-hydroxy-1704                                  *                              
24p-cluster01325 COG1165 [H]2-succinyl-6-hydroxy-2, 4-cyclohexa231                *                                                
25p-cluster00149 COG0147 [EH]anthranilate synthase subunit I1545          *   * *           *     *       *             *        
26p-cluster39416 COG0147 [EH]isochorismate synthase1305                                                                 
27p-cluster00294 COG0436 [E]aminotransferase1212          *   *                   *