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Table 1 Top sixteen largest germline nuclear RNAi-dependent transcriptional silencing (GRTS) clusters

From: Complex coding of endogenous siRNA, transcriptional silencing and H3K9 methylation on native targets of germline nuclear RNAi in C. elegans

Genomic position (WS190) Length (kb) LTR retrotransposon LINE Tc/mariner-type DNA transposon Other types of DNA repeat Protein-coding genes GRH
chrI:226000-239000 13 A Cer13 fragment (656 bp) with homology to the PAO family retrotransposon integrase. No LTR at this target. - -   Y48G1BM.5, Y48G1BM.6, Y48G1BM.7 +
chrI:4456000-4464000 8 - - - Two ~930 bp DNA repeats that are 1.9 kb apart and 99% identical (chrI:4456382–4457314 and chrI:4459215–4460136). One of the two repeats is located between eri-6 and eri-7 and contains the promoter active for the two genes. eri-7, eri-6, C41D11.6, T01A4.3 +
chrI:11438000-11449000 11 Cer16-2 (9.3 kb) with LTR in both ends - -   C27C7.1 +
chrII:2150000-2163000 13 Cer9-1 (9.5 kb) with LTR in both ends - -   C40A11.8, math-18 +
chrII:2516000-2521000 5 - - - Two ~430 bp DNA repeats that are 3.5 kb apart and 98% identical to each other (chrII:2,520,235-2,520,670 and chrII:2516272–2516702) bath-12, bath-13 +
chrII:13245000-13250000 5 - - -   F15D4.5, F15D4.6 +
chrIV:915000-922000 7 An extensive Cer3-1 (8.7 kb) with LTR in both ends - -   F58H7.5, F58H7.6 +
chrIV:4124000-4138000 14 A solo LTR (Cer2) with four other Cer2 fragments (275 bp-412 bp) - -   F49F1.7, F49F1.8 +
chrIV:13633000-13639000 6 - LINE2C1 fragment -   C08F11.5, C08F11.7 +
chrV:5182000-5201000 19 Cer9-1 (11.5 kb) with LTR in both ends - -   C03A7.12, C03A7.2, C03A7.13, abu-8, Y47A7.2 +
chrV:5482000-5487000 5 - - -   srg-66, srg-65, grl-18 +
chrV:8826000-8837000 11 Mixed Cer8 and Cer9 sequence (19.8 kb) with LTR (cer9) in both ends, - -   F09B7.3, W09B7.2 (F07B7.2), W09B7.1 (F07B7.1), F07B7.7, F07B7.8 +
chrV:8868000–8879000 (identical sequence to chrV:8826000–8837000) 11 Mixed Cer8 and Cer9 sequence (19.8 kb) with LTR (cer9) in both ends, - -   F09B7.3, W09B7.2 (F07B7.2), W09B7.1 (F07B7.1), F07B7.7, F07B7.8 +
chrV:14039000-14055000 16 - LINE2H -   T08G5.9, T08G5.8, T08G5.7, F58D12.5, T08G5.19 -
chrV:17568000-17573000 5 A Cer8-1 fragment (68 bp) - -   C38D9.2 +
chrV:18439000-18457000 18 Cer8-1 (19.4 kb) with LTR in both ends - Tc1 embedded in the Cer8-1   ZK262.8, ZK262.9, ZK228.1, ZK228.10 +