myRT
Top 15 domains that tend to co-occur with DGRs RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with DGRs 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 DGRs).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-DGRs | 461 (100%) | 1 (459/459) | link | piechart |
| Avd_like (cd16376) | 284 (62%) | 1 (283/283) | link | piechart |
| DUF1566 (pfam07603) | 102 (22%) | 0.895 (94/105) | link | piechart |
| YfmG (COG1262) | 57 (12%) | 0.818 (45/55) | link | piechart |
| Dcm (COG0270) | 20 (4%) | 0.282 (20/71) | link | piechart |
| PHA00653 (mtd;major tropism determinant) | 17 (4%) | 1 (16/16) | link | piechart |
| pfam03781 (FGE-sulfatase;Sulfatase-modifying factor enzyme 1) | 16 (3%) | 0.538 (14/26) | link | piechart |
| FGE-sulfatase (pfam03781) | 16 (3%) | 0.8 (16/20) | link | piechart |
| Fib_succ_major (TIGR02145) | 15 (3%) | 0.824 (14/17) | link | piechart |
| HRDC (smart00341) | 14 (3%) | 0.875 (14/16) | link | piechart |
| DUF772 (pfam05598) | 13 (3%) | 0.066 (13/197) | link | piechart |
| COG5635 (Predicted NTPase, NACHT family domain ) | 13 (3%) | 0.625 (10/16) | link | piechart |
| Phage_XkdX (pfam09693) | 10 (2%) | 1 (10/10) | link | piechart |
| Phage_holin_4_1 (pfam05105) | 10 (2%) | 0.833 (10/12) | link | piechart |
| Dam (pfam05869) | 10 (2%) | 0.152 (10/66) | link | piechart |