myRT
Top 15 domains that tend to co-occur with AbiP2 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with AbiP2 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 AbiP2).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-AbiP2 | 226 (100%) | 1 (226/226) | link | piechart |
| Tra8 (COG2826) | 29 (13%) | 0.099 (27/274) | link | piechart |
| PRK13316 (heme oxygenase IsdG) | 29 (13%) | 1 (29/29) | link | piechart |
| HsdM (COG0286) | 26 (12%) | 0.313 (26/83) | link | piechart |
| Arsenite_oxidase | 25 (11%) | 0.962 (25/26) | link | piechart |
| YdeE (COG3708) | 24 (11%) | 0.857 (24/28) | link | piechart |
| PinE (COG1961) | 24 (11%) | 0.076 (24/316) | link | piechart |
| Phage_GPA (pfam05840) | 24 (11%) | 0.143 (24/168) | link | piechart |
| Q (PHA02536) | 20 (9%) | 0.183 (20/109) | link | piechart |
| RpmF (COG0333) | 19 (8%) | 0.731 (19/26) | link | piechart |
| Rve (COG3316) | 17 (8%) | 0.047 (17/360) | link | piechart |
| PRK09290 (allantoate amidohydrolase; Reviewed) | 17 (8%) | 0.85 (17/20) | link | piechart |
| DUF3841 (pfam12952) | 17 (8%) | 1 (17/17) | link | piechart |
| AlbA_2 (pfam04326) | 17 (8%) | 0.567 (17/30) | link | piechart |
| HTH_XRE (smart00530) | 12 (5%) | 0.018 (12/667) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-AbiP2 | 2839 (100%) | 1 (2826/2826) | link | piechart |
| PRK13316 (heme oxygenase IsdG) | 356 (13%) | 1 (356/356) | link | piechart |
| Arsenite_oxidase | 347 (12%) | 0.98 (347/354) | link | piechart |
| YdeE (COG3708) | 344 (12%) | 0.961 (344/358) | link | piechart |
| RpmF (COG0333) | 332 (12%) | 0.951 (332/349) | link | piechart |
| HsdM (COG0286) | 305 (11%) | 0.36 (308/856) | link | piechart |
| Phage_GPA (pfam05840) | 182 (6%) | 0.424 (182/429) | link | piechart |
| COG1373 (Predicted ATPase, AAA+ superfamily ) | 176 (6%) | 0.342 (176/514) | link | piechart |
| metH (TIGR02082) | 142 (5%) | 0.628 (142/226) | link | piechart |
| HTH_33 (pfam13592) | 137 (5%) | 0.422 (137/325) | link | piechart |
| DDE_3 (pfam13358) | 137 (5%) | 0.14 (137/980) | link | piechart |
| napF (TIGR00402) | 113 (4%) | 0.683 (114/167) | link | piechart |
| Fer4 (pfam00037) | 113 (4%) | 0.785 (113/144) | link | piechart |
| metH (TIGR02082)*2 | 112 (4%) | 0.949 (112/118) | link | piechart |
| RVT-Retrons | 108 (4%) | 0.003 (108/30878) | link | piechart |