myRT
Top 15 domains that tend to co-occur with UG28b RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG28b 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 UG28b).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG28b | 9 (100%) | 1 (9/9) | link | piechart |
| VirE_N (pfam08800) | 7 (78%) | 0.636 (7/11) | link | piechart |
| trehalose_TreZ (TIGR02402) | 1 (11%) | 1 (1/1) | link | piechart |
| Tra8 (COG2826) | 1 (11%) | 0.004 (1/274) | link | piechart |
| TPR (smart00028)*2 | 1 (11%) | 0.023 (1/44) | link | piechart |
| TPR (smart00028) | 1 (11%) | 0.008 (1/126) | link | piechart |
| RelE (pfam06296) | 1 (11%) | 0.04 (1/25) | link | piechart |
| PRK09358 (adenosine deaminase; Provisional)*2 | 1 (11%) | 0.5 (1/2) | link | piechart |
| PRK09358 (adenosine deaminase; Provisional) | 1 (11%) | 0.5 (1/2) | link | piechart |
| PriCT_2 (pfam08707) | 1 (11%) | 0.2 (1/5) | link | piechart |
| polC (TIGR00354) | 1 (11%) | 0.045 (1/22) | link | piechart |
| Phage_int_SAM_5 (pfam13102) | 1 (11%) | 0.016 (1/64) | link | piechart |
| Peptidase_M50B (pfam13398) | 1 (11%) | 1 (1/1) | link | piechart |
| PemK_toxin (pfam02452) | 1 (11%) | 0.053 (1/19) | link | piechart |
| pcm (PRK00312) | 1 (11%) | 0.25 (1/4) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG28b | 230 (100%) | 1 (230/230) | link | piechart |
| VirE_N (pfam08800) | 102 (44%) | 0.935 (101/108) | link | piechart |
| PriCT_2 (pfam08707) | 46 (20%) | 0.807 (46/57) | link | piechart |
| DUF932 (pfam06067) | 14 (6%) | 0.028 (14/509) | link | piechart |
| SMC_N (pfam02463) | 9 (4%) | 0.184 (9/49) | link | piechart |
| RVT-UG28b*2 | 9 (4%) | 1 (9/9) | link | piechart |
| AE_Prim_S_like (cl01287) | 8 (3%) | 0.047 (8/170) | link | piechart |
| DUF262 (pfam03235) | 7 (3%) | 0.016 (7/427) | link | piechart |
| SMC_N (pfam02463)*2 | 6 (3%) | 0.667 (6/9) | link | piechart |
| Por_Secre_tail (TIGR04183) | 6 (3%) | 0.029 (6/206) | link | piechart |
| HTH_XRE (smart00530) | 6 (3%) | 0.001 (6/4863) | link | piechart |
| COG4849 (Predicted nucleotidyltransferase ) | 6 (3%) | 0.6 (6/10) | link | piechart |
| COG4551 (Predicted protein tyrosine phosphatase ) | 6 (3%) | 0.857 (6/7) | link | piechart |
| CBM6_cellulase-like (cd04080) | 6 (3%) | 0.462 (6/13) | link | piechart |
| Big_7 (pfam17957) | 6 (3%) | 0.25 (6/24) | link | piechart |