myRT
Top 15 domains that tend to co-occur with AbiA RT in their genomic neighborhood
Note 1: Specificity score -- ranges between 0 and 1, with 1 indicating that a domain is exclusively associated with AbiA 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 AbiA).
| complete genomes | |||
|---|---|---|---|
| Domains | Number of occurrences (%) | Specificity score | Co-occurring RTs |
| RVT-AbiA | 38 (100%) | 1 (38/38) | link | piechart |
| HEPN_AbiA_CTD (pfam18732) | 21 (55%) | 1 (21/21) | link | piechart |
| SLATT_5 (pfam18160) | 9 (24%) | 0.051 (9/175) | link | piechart |
| RmlD_sub_bind (pfam04321) | 7 (18%) | 1 (7/7) | link | piechart |
| YycJ-like_MBL-fold (cd07733) | 5 (13%) | 0.385 (5/13) | link | piechart |
| SPOUT_MTase (pfam02590) | 5 (13%) | 0.455 (5/11) | link | piechart |
| dTDP_sugar_isom (pfam00908) | 4 (11%) | 1 (4/4) | link | piechart |
| tRNA_RlmH_YbeA (TIGR00246) | 3 (8%) | 0.103 (3/29) | link | piechart |
| DEXXQc_Upf1-like (cd17934) | 3 (8%) | 0.115 (3/26) | link | piechart |
| Abi_2 (pfam07751) | 3 (8%) | 0.25 (3/12) | link | piechart |
| YdfJ (COG2409) | 2 (5%) | 0.5 (2/4) | link | piechart |
| Trypsin_2 (pfam13365) | 2 (5%) | 0.021 (2/96) | link | piechart |
| Transposase_20 (pfam02371) | 2 (5%) | 0.022 (2/89) | link | piechart |
| SIR2-like (cd01406) | 2 (5%) | 0.182 (2/11) | link | piechart |
| PRK14975 (bifunctional 3'-5' exonuclease/DNA polymerase; Provisional)*2 | 2 (5%) | 1 (2/2) | link | piechart |