myRT
Top 15 domains that tend to co-occur with UG5 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG5 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 UG5).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG5 | 213 (100%) | 1 (213/213) | link | piechart |
| nitrilase (cl11424) | 107 (50%) | 0.535 (107/200) | link | piechart |
| AbiEii (pfam08843) | 50 (23%) | 0.568 (50/88) | link | piechart |
| AbiEi_3_N (pfam17194) | 49 (23%) | 0.961 (49/51) | link | piechart |
| AbiEi_3 (pfam11459) | 49 (23%) | 0.961 (49/51) | link | piechart |
| YeeA (COG1002) | 48 (23%) | 0.577 (30/52) | link | piechart |
| TIGR02687 (TIGR02687 family protein) | 20 (9%) | 0.87 (20/23) | link | piechart |
| Phage_ASH (pfam10554) | 20 (9%) | 0.952 (20/21) | link | piechart |
| YeeA (COG1002)*2 | 17 (8%) | 0.682 (15/22) | link | piechart |
| SfsB (COG3423) | 17 (8%) | 0.81 (17/21) | link | piechart |
| PRK09692 (Integrase; provisional) | 10 (5%) | 0.029 (10/342) | link | piechart |
| HATPase_c_3 (pfam13589) | 10 (5%) | 0.37 (10/27) | link | piechart |
| PRK04247 (endonuclease NucS) | 7 (3%) | 0.7 (7/10) | link | piechart |
| HTH_Tnp_1 (pfam01527) | 7 (3%) | 0.024 (7/296) | link | piechart |
| DUF262 (pfam03235) | 6 (3%) | 0.167 (6/36) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG5 | 2691 (100%) | 1 (2691/2691) | link | piechart |
| nitrilase (cl11424) | 1313 (49%) | 0.944 (1313/1391) | link | piechart |
| AbiEii (pfam08843) | 564 (21%) | 0.535 (564/1054) | link | piechart |
| AbiEi_3_N (pfam17194) | 562 (21%) | 0.84 (562/669) | link | piechart |
| AbiEi_3 (pfam11459) | 562 (21%) | 0.969 (562/580) | link | piechart |
| YeeA (COG1002) | 505 (19%) | 0.573 (391/682) | link | piechart |
| PRK09692 (Integrase; provisional) | 374 (14%) | 0.185 (374/2021) | link | piechart |
| DUF262 (pfam03235) | 246 (9%) | 0.574 (245/427) | link | piechart |
| AAA_21 (pfam13304) | 234 (9%) | 0.388 (234/603) | link | piechart |
| AAA_21 (pfam13304)*2 | 230 (9%) | 0.628 (230/366) | link | piechart |
| Phage_ASH (pfam10554) | 188 (7%) | 0.969 (188/194) | link | piechart |
| Phage_integrase (pfam00589) | 131 (5%) | 0.518 (131/253) | link | piechart |
| TIGR02687 (TIGR02687 family protein) | 127 (5%) | 0.888 (127/143) | link | piechart |
| YeeA (COG1002)*2 | 125 (5%) | 0.518 (115/222) | link | piechart |
| CAD1 (cd05283) | 120 (4%) | 0.504 (120/238) | link | piechart |