Review Article
RNA-Mediated Gene Duplication and Retroposons: Retrogenes, LINEs, SINEs, and Sequence Specificity
Table 2
3′-Repeats of plant SINE families [
34].
| SINE | Species | 3′-Repeat | LINE tail | Reference for SINEs |
| | Green algae | | | | SINEX-1_CR | Chlamydomonas reinhardtii | (ATT) | RandI-2/DualenCr3 | [83] | SINEX-2_CR | Chlamydomonas reinhardtii | (CTTT) | RandI-2 (RandI-3) | [83] | SINEX-3_CR | Chlamydomonas reinhardtii | (A) | L1-1_CR | [83] | SINEX-4_CR | Chlamydomonas reinhardtii | (ATT) | RandI-2 (RandI-3) | [83] | SINEX-5_CR/SINEX-6_CR | Chlamydomonas reinhardtii | (ATT) | RandI-5 | [83] |
| | Seed plants | | | | Au | Angiosperms and a gymnosperm | (T)2–5 | Nd | [76–79] | ZmSINE1 (Au-like) | Zea mays | (T) | Nd | [66] | SINE2-1_ZM (Au-like) | Zea mays | (T)3 | Nd | [15] | SINE-5_Mad (Au-like) | Malus x domestica | (T)3 | Nd | [15] |
| | Monocots | | | | p-SINE1 | Oryza sativa | (T) | Nd | [74] | p-SINE2 | Oryza sativa | (T) | Nd | [75] | p-SINE3 | Oryza sativa | (T) | Nd | [75] | ZmSINE2.1*/SINE2-1a_SBi | Zea mays, Sorghum bicolor | (T) | LINE1-1_ZM | [15, 66] | ZmSINE2.2* | Zea mays | (T) | LINE1-1_ZM | [66] | ZmSINE2.3* | Zea mays | (T) | LINE1-1_ZM | [66] | SINE2-1_SBi (ZmSINE2-like) | Sorghum bicolor | (T) | LINE1-1_ZM | [15] | SINE2-1c_SBi (ZmSINE2-like) | Sorghum bicolor | (T) | LINE1-1_ZM | [15] | ZmSINE3 | Zea mays | (A) | LINE1-1_ZM | [66] | OsSN1/F524 | Oryza sativa | (A) | Nd | [140] | OsSN2/SINE2-12_SBi | Oryza sativa, Sorghum bicolor | (A) | Nd | [15, 140] | OsSN3 | Oryza sativa | (A) | Nd | [140] | SINE9_OS/SINE2-11_SBi (OsSN-like) | Oryza sativa, Sorghum bicolor | (A) | Nd | [15] |
| | Eudicots | | | | TS | Nicotiana tabacum | (TTG) | RTE-1_STu | [35] | SB1-15 (S1/AtSN/RAthE/BoS) | Arabidopsis thaliana, Brassicaceae (Cruciferae) | (A) | Nd | [68, 69, 141–144] | LJ_SINE-1 | Lotus japonicus | (A) | Nd | [145] | LJ_SINE-2 | Lotus japonicus | (A) | Nd | [145] | LJ_SINE-3 | Lotus japonicus | (A) | Nd | [145] | MT_SINE-1 | Medicago truncatula | (A) | Nd | [145] | MT_SINE-2 | Medicago truncatula | (A) | Nd | [145] | MT_SINE-3 | Medicago truncatula | (A) | Nd | [145] | SINE-1_Mad | Malus x domestica | (A) | Nd | [15] | SINE-2_Mad | Malus x domestica | (A) | Nd | [15] | SINE-4_Mad | Malus x domestica | (A) | Nd | [15] | SINE2-1_PTr | Populus trichocarpa | (A) | Nd | [15] | SINE2-2_PTr | Populus trichocarpa | (A) | Nd | [15] |
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*subfamilies. Nd: no data.
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