myRT
Top 15 domains that tend to co-occur with AbiK RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with AbiK 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 AbiK).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-AbiK | 118 (100%) | 1 (112/112) | link | piechart |
| PenP (COG2367) | 49 (42%) | 0.817 (49/60) | link | piechart |
| RVT-AbiK*2 | 34 (29%) | 1 (34/34) | link | piechart |
| MecR1 (COG4219) | 25 (21%) | 0.862 (25/29) | link | piechart |
| Transpeptidase (pfam00905) | 24 (20%) | 0.857 (24/28) | link | piechart |
| PinE (COG1961) | 10 (8%) | 0.032 (10/316) | link | piechart |
| MAP (pfam03642) | 9 (8%) | 1 (9/9) | link | piechart |
| HAD_SPP (cd02605) | 9 (8%) | 1 (9/9) | link | piechart |
| eMpr (COG3591) | 9 (8%) | 0.818 (9/11) | link | piechart |
| ADPrib_exo_Tox (pfam03496) | 9 (8%) | 0.9 (9/10) | link | piechart |
| Transposase_mut (pfam00872) | 7 (6%) | 0.038 (5/130) | link | piechart |
| rpsI (PRK00132) | 6 (5%) | 0.086 (6/70) | link | piechart |
| PRK07251 (FAD-containing oxidoreductase) | 5 (4%) | 0.625 (5/8) | link | piechart |
| AAA_15 (pfam13175) | 5 (4%) | 0.029 (5/175) | link | piechart |
| DAGK_cat (pfam00781) | 4 (3%) | 1 (4/4) | link | piechart |
| draft genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-AbiK | 3267 (100%) | 1 (3027/3027) | link | piechart |
| RVT-AbiK*2 | 1958 (60%) | 1 (1958/1958) | link | piechart |
| PenP (COG2367) | 1702 (52%) | 0.989 (1702/1721) | link | piechart |
| MecR1 (COG4219) | 849 (26%) | 0.999 (849/850) | link | piechart |
| Transpeptidase (pfam00905) | 766 (23%) | 0.999 (766/767) | link | piechart |
| RimL (COG1670) | 112 (3%) | 0.237 (112/473) | link | piechart |
| PinE (COG1961) | 101 (3%) | 0.065 (101/1549) | link | piechart |
| HAD_SPP (cd02605) | 96 (3%) | 0.97 (96/99) | link | piechart |
| ADPrib_exo_Tox (pfam03496) | 88 (3%) | 0.957 (88/92) | link | piechart |
| eMpr (COG3591) | 87 (3%) | 0.806 (87/108) | link | piechart |
| COG2842 (Bacteriophage DNA transposition protein, AAA+ family ATPase ) | 72 (2%) | 0.935 (72/77) | link | piechart |
| HTH_ARSR (smart00418) | 69 (2%) | 0.165 (69/417) | link | piechart |
| HTH_XRE (smart00530) | 66 (2%) | 0.014 (66/4862) | link | piechart |
| MAP (pfam03642) | 59 (2%) | 1 (59/59) | link | piechart |
| PRK13339 (malate:quinone oxidoreductase; Reviewed) | 35 (1%) | 0.897 (35/39) | link | piechart |