myRT
Top 15 domains that tend to co-occur with UG10 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG10 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 UG10).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG10 | 28 (100%) | 1 (28/28) | link | piechart |
| AE_Prim_S_like (cl01287) | 13 (46%) | 0.867 (13/15) | link | piechart |
| TPR (smart00028)*2 | 4 (14%) | 0.091 (4/44) | link | piechart |
| TPR (smart00028) | 4 (14%) | 0.032 (4/126) | link | piechart |
| RapH_N (pfam18801) | 4 (14%) | 0.333 (4/12) | link | piechart |
| PRK13922 (rod shape-determining protein MreC; Provisional) | 4 (14%) | 0.571 (4/7) | link | piechart |
| RVT-UG10*2 | 3 (11%) | 1 (3/3) | link | piechart |
| HTH_Tnp_1 (pfam01527) | 3 (11%) | 0.01 (3/296) | link | piechart |
| guaA (PRK00074) | 3 (11%) | 0.063 (3/48) | link | piechart |
| dnaG (TIGR01391) | 3 (11%) | 0.023 (3/130) | link | piechart |
| VbhA_like (cl17006) | 2 (7%) | 0.286 (2/7) | link | piechart |
| VapI (COG3093) | 2 (7%) | 0.105 (2/19) | link | piechart |
| TrbL_P (TIGR02783) | 2 (7%) | 0.118 (2/17) | link | piechart |
| conjugal transfer protein TrbL (PRK13875) | 2 (7%) | 0.045 (2/44) | link | piechart |
| SufI (COG2132) | 2 (7%) | 0.667 (2/3) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG10 | 207 (100%) | 1 (207/207) | link | piechart |
| AE_Prim_S_like (cl01287) | 144 (70%) | 0.847 (144/170) | link | piechart |
| RapH_N (pfam18801) | 25 (12%) | 0.641 (25/39) | link | piechart |
| TPR (smart00028)*2 | 24 (12%) | 0.089 (24/271) | link | piechart |
| TPR (smart00028) | 24 (12%) | 0.029 (24/826) | link | piechart |
| pheT (PRK09616) | 20 (10%) | 0.196 (20/102) | link | piechart |
| pheS (TIGR00468) | 19 (9%) | 0.264 (19/72) | link | piechart |
| dnaG (TIGR01391) | 19 (9%) | 0.062 (19/308) | link | piechart |
| RVT-UG10*2 | 17 (8%) | 1 (17/17) | link | piechart |
| PRK13922 (rod shape-determining protein MreC; Provisional) | 15 (7%) | 0.122 (15/123) | link | piechart |
| INT_ICEBs1_C_like (cd01189) | 11 (5%) | 0.021 (11/518) | link | piechart |
| PHA02517 (putative transposase OrfB; Reviewed) | 9 (4%) | 0.001 (9/10153) | link | piechart |
| valS (TIGR00422) | 8 (4%) | 0.068 (8/117) | link | piechart |
| PRK09182 (DNA polymerase III subunit epsilon; Validated) | 8 (4%) | 0.167 (8/48) | link | piechart |
| InsE (COG2963) | 8 (4%) | 0.001 (8/5377) | link | piechart |