Classification within the REXdb framework is primarily concerned with elements in plants, in particular to the subdivisions below the superfamily level for LTR retrotransposons. This schema is used in association with the repeat detection and annotation program RepeatExplorer.
*The Gypsy name is currently under reconsideration by the community, learn more here*
| URL | REXdb |
|---|---|
| DOI | https://doi.org/10.1186/s13100-018-0144-1 |
| Type | Classification Schema |
| Root | Class | Unranked | Superfamily | Subdivision 1 | Subdivision 2 | Subdivision 3 | Sudivision 4 | Additional References |
|---|---|---|---|---|---|---|---|---|
| Mobile Element | Class I | LINE | ||||||
| Mobile Element | Class I | Penelope | ||||||
| Mobile Element | Class I | SINE | ||||||
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | non-chromo-outgroup | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | Phygy | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | Selgy | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Athila | ||
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Tat | TatI | |
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Tat | TatII | |
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Tat | TatIII | |
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Tat | Ogre | |
| Mobile Element | Class I | LTR | Ty3/gypsy | non-chromovirus | OTA | Tat | Retand | |
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | Chlamyvir | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | Tcn1 | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | chromo-outgroup | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | CRM | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | Galadriel | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | Tekay | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | Reina | |||
| Mobile Element | Class I | LTR | Ty3/gypsy | chromovirus | chromo-unclassified | |||
| Mobile Element | Class I | LTR | Ty1/copia | Ale | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Alesia | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Angela | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Bianca | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Bryco | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Lyco | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Gymco-I | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Gymco-II | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Gymco-III | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Gymco-IV | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Ikeros | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Ivana | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Osser | ||||
| Mobile Element | Class I | LTR | Ty1/copia | SIRE | ||||
| Mobile Element | Class I | LTR | Ty1/copia | TAR | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Tork | ||||
| Mobile Element | Class I | LTR | Ty1/copia | Ty1-outgroup | ||||
| Mobile Element | Class I | LTR | Bel-Pao | 2 | ||||
| Mobile Element | Class I | LTR | Retrovirus | |||||
| Mobile Element | Class I | DIRS | ||||||
| Mobile Element | Class I | pararetrovirus | ||||||
| Mobile Element | Class II | Subclass_1/TIR | EnSpm/CACTA | Peterson, P.A. 1953. A mutable pale green locus in maize. Genetics 38: 682. , 3 | ||||
| Mobile Element | Class II | Subclass_1/TIR | hAT | 2, 3, 4 | ||||
| Mobile Element | Class II | Subclass_1/TIR | Kolobok | |||||
| Mobile Element | Class II | Subclass_1/TIR | Merlin | |||||
| Mobile Element | Class II | Subclass_1/TIR | MuDR/Mutator | |||||
| Mobile Element | Class II | Subclass_1/TIR | Novosib | |||||
| Mobile Element | Class II | Subclass_1/TIR | P | |||||
| Mobile Element | Class II | Subclass_1/TIR | PIF/Harbinger | 2, 3 | ||||
| Mobile Element | Class II | Subclass_1/TIR | PiggyBac | 2 | ||||
| Mobile Element | Class II | Subclass_1/TIR | Sola1 | |||||
| Mobile Element | Class II | Subclass_1/TIR | Sola2 | |||||
| Mobile Element | Class II | Subclass_1/TIR | Tc1 | Mariner | ||||
| Mobile Element | Class II | Subclass_1/TIR | MITE | |||||
| Mobile Element | Class II | Subclass_2 | Helitron |