myRT
Top 15 domains that tend to co-occur with UG13 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG13 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 UG13).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG13 | 20 (100%) | 1 (20/20) | link | piechart |
| group_II_RT_mat (TIGR04416) | 3 (15%) | 0.008 (3/376) | link | piechart |
| VOC (cl14632) | 2 (10%) | 0.118 (2/17) | link | piechart |
| PrtC (COG0826) | 2 (10%) | 0.333 (1/3) | link | piechart |
| PRK05298 (excinuclease ABC subunit UvrB) | 2 (10%) | 0.095 (2/21) | link | piechart |
| DDE_Tnp_1 (pfam01609) | 2 (10%) | 0.004 (2/570) | link | piechart |
| YrpB (COG2070) | 1 (5%) | 0.333 (1/3) | link | piechart |
| YraI (COG4991) | 1 (5%) | 0.5 (1/2) | link | piechart |
| YjgR (COG0433)*2 | 1 (5%) | 0.091 (1/11) | link | piechart |
| YjgR (COG0433) | 1 (5%) | 0.077 (1/13) | link | piechart |
| YeaQ (COG2261) | 1 (5%) | 0.111 (1/9) | link | piechart |
| Vsr (pfam03852) | 1 (5%) | 0.2 (1/5) | link | piechart |
| Uma2 (pfam05685) | 1 (5%) | 0.04 (1/25) | link | piechart |
| Transposase_20 (pfam02371) | 1 (5%) | 0.011 (1/89) | link | piechart |
| Tas (COG0667) | 1 (5%) | 0.029 (1/34) | link | piechart |