myRT
Top 15 domains that tend to co-occur with UG22 RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with UG22 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 UG22).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG22 | 16 (100%) | 1 (16/16) | link | piechart |
| xerC (PRK01287) | 2 (13%) | 0.014 (2/141) | link | piechart |
| Transposase_mut (pfam00872) | 2 (13%) | 0.015 (2/130) | link | piechart |
| Mrr_cat (pfam04471) | 2 (13%) | 0.044 (2/45) | link | piechart |
| INT_tnpA_C_Tn554 (cd01186) | 2 (13%) | 0.667 (2/3) | link | piechart |
| WHTH_GntR (cd07377) | 1 (6%) | 0.333 (1/3) | link | piechart |
| Uup (COG0488) | 1 (6%) | 0.022 (1/46) | link | piechart |
| Tra5 (COG2801) | 1 (6%) | 0.004 (1/239) | link | piechart |
| TPP_enzyme_C (pfam02775) | 1 (6%) | 1 (1/1) | link | piechart |
| Spr (COG0791) | 1 (6%) | 0.01 (1/102) | link | piechart |
| SHOCT (pfam09851) | 1 (6%) | 0.1 (1/10) | link | piechart |
| SF2-N (cd00046) | 1 (6%) | 0.333 (1/3) | link | piechart |
| RNaseH_pPIWI_RE | 1 (6%) | 0.2 (1/5) | link | piechart |
| RES (smart00953) | 1 (6%) | 0.1 (1/10) | link | piechart |
| PurR (COG1609) | 1 (6%) | 0.05 (1/20) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-UG22 | 66 (100%) | 1 (66/66) | link | piechart |
| MFS_YfmO_like (cd17474) | 5 (8%) | 0.455 (5/11) | link | piechart |
| HTH_MARR (smart00347) | 5 (8%) | 0.048 (5/104) | link | piechart |
| HEAT_2 (pfam13646) | 5 (8%) | 0.011 (5/450) | link | piechart |
| YbjD (COG3593)*2 | 4 (6%) | 0.033 (4/122) | link | piechart |
| YbjD (COG3593) | 4 (6%) | 0.023 (4/175) | link | piechart |
| UvrD (COG0210)*2 | 4 (6%) | 0.023 (4/171) | link | piechart |
| UvrD (COG0210) | 4 (6%) | 0.01 (4/413) | link | piechart |
| PHA02517 (putative transposase OrfB; Reviewed) | 4 (6%) | 0 (4/10155) | link | piechart |
| DUF3618 (pfam12277) | 4 (6%) | 1 (4/4) | link | piechart |
| PurR (COG1609) | 3 (5%) | 0.02 (3/150) | link | piechart |
| PBP2_TMBP (cd14750) | 3 (5%) | 0.5 (3/6) | link | piechart |
| his_9_HisN (TIGR02067) | 3 (5%) | 0.429 (3/7) | link | piechart |
| TrwC (pfam08751) | 2 (3%) | 0.222 (2/9) | link | piechart |
| SF2-N (cd00046) | 2 (3%) | 0.333 (2/6) | link | piechart |