Table 4.
Differentially expressed transcripts involved in epigenetic regulation (with BRH found)
| Clustera | Transcript | At Locus | Pta Locus | Pla Locus | Annotationb |
|---|---|---|---|---|---|
| DNA modification | |||||
| 3 | Pp11214 | AT1G57820.1 | #N/A | V_2kb_2/polished_high/000175|m.181 | VARIANT IN METHYLATION 1 (VIM1), ORTHRUS 2 (ORTH2) |
| 5 | Pp3794 | #N/A | #N/A | P/miseq/c15561_g1_i1|m.8297 | PREDICTED: DNA (cytosine-5)-methyltransferase DRM2-like |
| Histone modification | |||||
| 1 | Pp30887 | #N/A | #N/A | SDN/miseq/c40928_g1_i1|m.61118 | ubiquitin-conjugating enzyme 28, E2 |
| 3 | Pp44003 | AT5G24330.1 | 6A_all_VO_L_4227_T_27/112|m.53170 | DCS/hiseq/c48519_g1_i1|m.18331 | ARABIDOPSIS TRITHORAX-RELATED PROTEIN 6 (ATXR6), SET DOMAIN PROTEIN 34 (SDG34) |
| 10 | Pp33894 | #N/A | 5A_I16_NT_comp45588_c0_seq2|m.47551 | S/hiseq/c42737_g1_i1|m.36406 | PREDICTED: histone-lysine N-methyltransferase SUVR5 |
| Chromatin formation or chromatin remodelling | |||||
| 3 | Pp26994 | AT5G22750.1 | #N/A | S/hiseq/c37932_g2_i1|m.21712 | RAD5, RAD5A |
| 3 | Pp34781 | AT1G65470.1 | 6A_I23_VO_L_4689_T_39/51|m.59955 | RF-S_3/polished_high/005053|m.5101 | FASCIATA 1 (FAS1), FUGU 2, FUGU2, NFB2, NUCLEOSOME/CHROMATIN ASSEMBLY FACTOR GROUP B |
| 7 | Pp30270 | AT5G37055.1 | #N/A | BRN/hiseq/c66142_g2_i1|m.38827 | SERRATED LEAVES AND EARLY FLOWERING (SEF), ATSWC6 |
| 8 | Pp14163 | AT1G05490.1 | #N/A | S/hiseq/c33164_g1_i2|m.13589 | CHROMATIN REMODELING 31 (CHR31) |
| RNA silencing | |||||
| 1 | Pp12441 | #N/A | 5A_I13_OT_comp19461_c0_seq4|m.44088 | #N/A | PREDICTED: protein argonaute 2-like |
| Histones | |||||
| 3 | Pp36206 | #N/A | #N/A | E1_2kb_2/polished_high/001369|m.1490 | histone H3 |
| 3 | Pp38724 | #N/A | #N/A | DCS1kb_3/polished_high/000803|m.897 | histone H2A 12 |
| 6 | Pp46360 | #N/A | 2A_all_VO_L_1_T_65055/181832|m.14308 | #N/A | PREDICTED: histone H1-like |
| 10 | Pp14332 | AT2G30620.1 | #N/A | M_S1/c4520_g1_i1|m.114500 | HISTONE 1.2 (H1.2) |
| 10 | Pp46359 | #N/A | #N/A | SDN/miseq/c31005_g5_i1|m.46415 | histone H1.2 |
| Others | |||||
| 3 | Pp41359 | #N/A | 5A_all_VO_L_69333_T_11/13|m.42398 | V_3_3-6 kb/016515|m.360307 | Telomere-associated protein RIF1 |
aNumber of the cluster of expression that the transcript is associated with
bOrder of preference for annotating each P. pinaster transcript after its homologs is: A. thaliana, P. taeda, and P. lambertiana