myRT
Top 15 domains that tend to co-occur with G2Lc RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with G2Lc 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 G2Lc).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2Lc | 4 (100%) | 1 (4/4) | link | piechart |
| YncA (COG1247) | 1 (25%) | 0.143 (1/7) | link | piechart |
| YcjR (COG1082) | 1 (25%) | 0.091 (1/11) | link | piechart |
| RimL (COG1670) | 1 (25%) | 0.018 (1/56) | link | piechart |
| PRK05809 (short-chain-enoyl-CoA hydratase) | 1 (25%) | 0.333 (1/3) | link | piechart |
| PDDEXK_1 (pfam12705) | 1 (25%) | 0.2 (1/5) | link | piechart |
| PaiB (COG2808) | 1 (25%) | 0.125 (1/8) | link | piechart |
| MATE_NorM_like (cd13137) | 1 (25%) | 0.143 (1/7) | link | piechart |
| GIIM (pfam08388) | 1 (25%) | 0 (1/11422) | link | piechart |
| Crp (pfam00325) | 1 (25%) | 0.032 (1/31) | link | piechart |
| COG3893 (Inactivated superfamily I helicase ) | 1 (25%) | 0.5 (1/2) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-G2Lc | 19 (100%) | 1 (19/19) | link | piechart |
| PRK07983 (exodeoxyribonuclease X; Provisional)*2 | 3 (16%) | 0.5 (3/6) | link | piechart |
| PRK07983 (exodeoxyribonuclease X; Provisional) | 3 (16%) | 0.13 (3/23) | link | piechart |
| GIIM (pfam08388) | 3 (16%) | 0 (3/84270) | link | piechart |
| Peptidases_S8_Subtilisin_like_2 (cd04847) | 2 (11%) | 0.012 (2/169) | link | piechart |
| PagL (pfam09411) | 2 (11%) | 0.182 (2/11) | link | piechart |
| MACS_AAE_MA_like (cd05970) | 2 (11%) | 0.333 (2/6) | link | piechart |
| UvrD (COG0210) | 1 (5%) | 0.002 (1/413) | link | piechart |
| TOPRIM_OLD (cd01026) | 1 (5%) | 0.007 (1/148) | link | piechart |
| SusD (NF033071) | 1 (5%) | 0.013 (1/76) | link | piechart |
| STN (smart00965) | 1 (5%) | 0.006 (1/160) | link | piechart |
| SpoVK (COG0464) | 1 (5%) | 0.011 (1/88) | link | piechart |
| SIR2-like (cd01406) | 1 (5%) | 0.011 (1/91) | link | piechart |
| RVT-UG5 | 1 (5%) | 0 (1/2699) | link | piechart |
| PRK09276 (LL-diaminopimelate aminotransferase; Provisional) | 1 (5%) | 0.2 (1/5) | link | piechart |