myRT
Top 15 domains that tend to co-occur with UG25 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG25 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 UG25).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG25 | 10 (100%) | 1 (10/10) | link | piechart |
| dnaG (TIGR01391) | 5 (50%) | 0.039 (5/128) | link | piechart |
| DUF1848 (pfam08902) | 4 (40%) | 0.6 (3/5) | link | piechart |
| zf-IS66 (pfam13005) | 2 (20%) | 0.008 (2/241) | link | piechart |
| UvrD (COG0210) | 2 (20%) | 0.019 (1/53) | link | piechart |
| TnpB_IS66 (pfam05717) | 2 (20%) | 0.006 (2/322) | link | piechart |
| sensory_box (TIGR00229) | 2 (20%) | 0.056 (1/18) | link | piechart |
| PRK01184 (flagellar hook-basal body complex protein FliE) | 2 (20%) | 1 (2/2) | link | piechart |
| pcrA (TIGR01073) | 2 (20%) | 0.071 (1/14) | link | piechart |
| LZ_Tnp_IS66 (pfam13007) | 2 (20%) | 0.009 (2/234) | link | piechart |
| DEDDh (cd06127) | 2 (20%) | 0.222 (2/9) | link | piechart |
| DDE_Tnp_IS66_C (pfam13817) | 2 (20%) | 0.005 (2/401) | link | piechart |
| DDE_Tnp_IS66 (pfam03050) | 2 (20%) | 0.004 (2/446) | link | piechart |
| ComEB (TIGR02571) | 2 (20%) | 1 (2/2) | link | piechart |
| AdoMet_MTases (cl17173) | 2 (20%) | 0.035 (2/57) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG25 | 102 (100%) | 1 (102/102) | link | piechart |
| UvrD (COG0210) | 31 (30%) | 0.041 (17/413) | link | piechart |
| DUF1848 (pfam08902) | 31 (30%) | 0.446 (25/56) | link | piechart |
| DEDDh (cd06127) | 16 (16%) | 0.258 (16/62) | link | piechart |
| sensory_box (TIGR00229) | 10 (10%) | 0.044 (5/113) | link | piechart |
| pcrA (TIGR01073) | 6 (6%) | 0.005 (4/787) | link | piechart |
| SpoIIE (pfam07228) | 5 (5%) | 0.135 (5/37) | link | piechart |
| rps10 (CHL00135) | 5 (5%) | 0.833 (5/6) | link | piechart |
| PAS_9 (pfam13426) | 5 (5%) | 0.106 (5/47) | link | piechart |
| HEAT_2 (pfam13646) | 4 (4%) | 0.009 (4/450) | link | piechart |
| dnaG (TIGR01391) | 4 (4%) | 0.012 (4/329) | link | piechart |
| YeeA (COG1002) | 3 (3%) | 0.003 (2/682) | link | piechart |
| UvrD_C (pfam13361) | 3 (3%) | 0.031 (3/97) | link | piechart |
| PhdYeFM_antitox (pfam02604) | 3 (3%) | 0.014 (3/222) | link | piechart |
| COG4951 (Uncharacterized protein ) | 3 (3%) | 0.023 (3/132) | link | piechart |