myRT
Top 15 domains that tend to co-occur with G2L4 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with G2L4 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 G2L4).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2L4 | 28 (100%) | 1 (28/28) | link | piechart |
| RNase_HI_prokaryote_like (cd09278) | 5 (18%) | 0.833 (5/6) | link | piechart |
| DNA-binding transcriptional regulator LysR (PRK11013) | 5 (18%) | 0.029 (5/171) | link | piechart |
| TraA_Ti (TIGR02768) | 3 (11%) | 0.045 (3/67) | link | piechart |
| superantigen-like protein SSL2 (PRK13041)*2 | 3 (11%) | 0.273 (3/11) | link | piechart |
| superantigen-like protein SSL2 (PRK13041) | 3 (11%) | 0.097 (3/31) | link | piechart |
| RVT-UG17 | 3 (11%) | 0.017 (3/179) | link | piechart |
| Mod (COG2189)*2 | 3 (11%) | 0.429 (3/7) | link | piechart |
| Mod (COG2189) | 3 (11%) | 0.15 (3/20) | link | piechart |
| GIIM (pfam08388) | 3 (11%) | 0 (3/11422) | link | piechart |
| ALDH_F6_MMSDH (cd07085) | 3 (11%) | 0.375 (3/8) | link | piechart |
| Acetyltransf_1 (pfam00583) | 3 (11%) | 0.038 (3/79) | link | piechart |
| SLATT_5 (pfam18160) | 2 (7%) | 0.012 (2/173) | link | piechart |
| PRK02304 (adenine phosphoribosyltransferase; Provisional) | 2 (7%) | 0.25 (2/8) | link | piechart |
| PinE (COG1961) | 2 (7%) | 0.006 (2/316) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2L4 | 514 (100%) | 1 (514/514) | link | piechart |
| CxxC_CXXC_SSSS (smart00834) | 125 (24%) | 0.874 (125/143) | link | piechart |
| xerC (PRK01287) | 97 (19%) | 0.124 (97/783) | link | piechart |
| Acetyltransf_1 (pfam00583) | 41 (8%) | 0.095 (41/432) | link | piechart |
| SLATT_5 (pfam18160) | 40 (8%) | 0.022 (40/1796) | link | piechart |
| RVT-UG17 | 39 (8%) | 0.019 (39/2053) | link | piechart |
| DNA-binding transcriptional regulator LysR (PRK11013) | 31 (6%) | 0.032 (31/982) | link | piechart |
| GIIM (pfam08388) | 23 (4%) | 0 (23/84267) | link | piechart |
| PinE (COG1961) | 19 (4%) | 0.012 (19/1543) | link | piechart |
| COG4916 (Uncharacterized protein ) | 12 (2%) | 0.667 (12/18) | link | piechart |
| PRK09362 (phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed) | 10 (2%) | 0.11 (10/91) | link | piechart |
| ALDH_F6_MMSDH (cd07085) | 10 (2%) | 0.139 (10/72) | link | piechart |
| AAA_21 (pfam13304) | 10 (2%) | 0.017 (10/604) | link | piechart |
| YycJ-like_MBL-fold (cd07733) | 9 (2%) | 0.173 (9/52) | link | piechart |
| BaeS (COG0642) | 8 (2%) | 0.018 (8/457) | link | piechart |