myRT
Top 15 domains that tend to co-occur with UG27 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG27 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 UG27).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG27 | 12 (100%) | 1 (12/12) | link | piechart |
| HTH_Hin_like (cd00569) | 2 (17%) | 0.074 (2/27) | link | piechart |
| GP88 (pfam17338) | 2 (17%) | 1 (2/2) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG27 | 424 (100%) | 1 (424/424) | link | piechart |
| HTH_Hin_like (cd00569) | 14 (3%) | 0.135 (14/104) | link | piechart |
| RVT-UG27*2 | 12 (3%) | 1 (12/12) | link | piechart |
| DUF3846 (pfam12957) | 8 (2%) | 0.32 (8/25) | link | piechart |
| DpnD-PcfM (pfam14207) | 8 (2%) | 0.8 (8/10) | link | piechart |
| DUF2958 (pfam11171) | 6 (1%) | 0.162 (6/37) | link | piechart |
| DUF481 (pfam04338) | 5 (1%) | 0.455 (5/11) | link | piechart |
| RPC10 (COG1996) | 4 (1%) | 0.364 (4/11) | link | piechart |
| Propeptide_C25 (pfam08126) | 4 (1%) | 0.5 (4/8) | link | piechart |
| Por_Secre_tail (TIGR04183) | 4 (1%) | 0.019 (4/206) | link | piechart |
| Peptidase_C25 (pfam01364) | 4 (1%) | 0.25 (4/16) | link | piechart |
| PcfJ (pfam14284) | 4 (1%) | 0.235 (4/17) | link | piechart |
| PRK02406 (DNA polymerase IV; Validated) | 3 (1%) | 0.125 (3/24) | link | piechart |
| P22_AR_N (pfam10547) | 3 (1%) | 0.333 (3/9) | link | piechart |
| LptA (COG1934) | 3 (1%) | 0.214 (3/14) | link | piechart |