Fig. 2

Tandemly arrayed terminal repeat retrotransposons in miniature (TA-TRIMs) of Zma-SMART in the maize genome. Boxes containing black triangles indicate the long terminal repeats (LTRs) of TRIMs and gray boxes denote the internal regions of TRIMs. The gray pentagons are target site duplications (TSDs) that flank TRIMs and arrows indicate the polymerase chain reaction primers used to validate the TRIM sequences. M indicates a 100 base pair DNA ladder; A indicates a typical Zma-SMARTTRIM with two LTRs and one internal region (AC186328:154584–154863; TSD:AACAT); B indicates a TA-TRIM with three LTRs and two internal regions (AC210283: 61391–61889; TSD: GGGTT); C indicates a TA-TRIM with two inverted TRIMs (AC220956: 117725–118283; TSD: CTTCA); and D indicates a TA-TRIM with five LTRs and four internal regions (AC185340: 80554–81415; TSD: ATAAT)