myRT
Top 15 domains that tend to co-occur with G2Lb RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with G2Lb RT.Note 2: X*2, if found in the table, either means one gene has two consecutive X domains or two adjacent genes both have X domain.
Note 3: If two instances of a domain X are found in the neighborhood of a particular RT R, it will be counted as 2 occurences of domain X, but 1 co-occurance of X and R).
Note 4: click on 'link' to retrieve all genomes that contain the domain, and 'piechart' to see this domain's distribution among different RTs (including G2Lb).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2Lb | 15 (100%) | 1 (15/15) | link | piechart |
| GT4_PimA-like (cd03801) | 8 (53%) | 0.267 (4/15) | link | piechart |
| queuosine biosynthesis protein QueC (PRK11106) | 7 (47%) | 0.583 (7/12) | link | piechart |
| pfam03781 (FGE-sulfatase;Sulfatase-modifying factor enzyme 1) | 5 (33%) | 0.192 (5/26) | link | piechart |
| PRK05755 (DNA polymerase I; Provisional) | 4 (27%) | 0.25 (4/16) | link | piechart |
| nirV (LOAD_nirV) | 4 (27%) | 0.5 (4/8) | link | piechart |
| YfmG (COG1262) | 3 (20%) | 0.055 (3/55) | link | piechart |
| zinc-ribbons_6 (pfam07191) | 1 (7%) | 1 (1/1) | link | piechart |
| PTPS (pfam01242) | 1 (7%) | 0.25 (1/4) | link | piechart |
| PRK02101 (peroxide stress protein YaaA) | 1 (7%) | 0.125 (1/8) | link | piechart |
| PHA02517 (putative transposase OrfB; Reviewed) | 1 (7%) | 0 (1/2144) | link | piechart |
| NrdG (TIGR02491) | 1 (7%) | 0.125 (1/8) | link | piechart |
| FolA (COG0262) | 1 (7%) | 0.143 (1/7) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2Lb | 9 (100%) | 1 (9/9) | link | piechart |
| GT4_PimA-like (cd03801) | 3 (33%) | 0.023 (3/133) | link | piechart |
| queuosine biosynthesis protein QueC (PRK11106) | 2 (22%) | 0.027 (2/73) | link | piechart |
| PRK05755 (DNA polymerase I; Provisional) | 2 (22%) | 0.017 (2/119) | link | piechart |
| LmbE (COG2120) | 2 (22%) | 0.095 (2/21) | link | piechart |
| YfmG (COG1262) | 1 (11%) | 0.001 (1/1704) | link | piechart |
| WbqC (pfam08889) | 1 (11%) | 0.091 (1/11) | link | piechart |
| RVT-UG6 | 1 (11%) | 0.014 (1/72) | link | piechart |
| PRK02101 (peroxide stress protein YaaA) | 1 (11%) | 0.032 (1/31) | link | piechart |
| pfam03781 (FGE-sulfatase;Sulfatase-modifying factor enzyme 1) | 1 (11%) | 0.002 (1/566) | link | piechart |
| HTH_19 (pfam12844) | 1 (11%) | 0.006 (1/155) | link | piechart |
| DraG (COG1397) | 1 (11%) | 0.042 (1/24) | link | piechart |
| dnaG (TIGR01391) | 1 (11%) | 0.002 (1/493) | link | piechart |
| ALP_N-acyl_transferase (cd07571) | 1 (11%) | 0.045 (1/22) | link | piechart |