International Journal of Genomics / 2022 / Article / Tab 2 / Research Article
Weighted Gene Correlation Network Analysis (WGCNA) of Arabidopsis Somatic Embryogenesis (SE) and Identification of Key Gene Modules to Uncover SE-Associated Hub Genes Table 2 Conserved motifs identified in the promoter regions of hub genes using the MEME tool.
Motif - valueMotif width Sites Significant GO enriched terms ( value<0.05) 1 NAVAAAAAAARAAARARAAARAAAAHMAA Consensus sequence: [AGT]A[AG]AA[AC]AAAA[AG]A[AG][AG][AGC]A[AG]AA[AG][AG]A[AG]AA[ATC][AC]A[AGT] 2.8e-077 29 229 (i) GO:0042023: DNA endoreduplication (ii) GO:0009944: Polarity specification of adaxial/abaxial axis (iii) GO:0009735: Response to cytokinin stimulus (iv) GO:0009744: Response to sucrose stimulus (v) GO:0006468: Protein amino acid phosphorylation (vi) GO:0009965: Leaf morphogenesis Consensus logo: 2 DTTTTTKTTTTKTTY Consensus sequence: [AGT][TG]TTTT[TG]TTTT[TG][TG]T[TCG] 6.0e-020 15 245 Consensus logo: 3 NDRRAGDDDRRWARRRARAGAADRRDAG Consensus sequence: [AGC][GAT][AG][AG][AT][GA][AGT][ATG][AGT][GA][AG][AT]A[GA][AG][GAC]A[AG]A[GA]A[AG][GAT][AG][AG][GTA][AT][GT] 3.6e-025 28 121 (i) GO:0009944: Polarity specification of adaxial/abaxial axis (ii) GO:0048481: Ovule development (iii) GO:0010050: Vegetative phase change (iv) GO:0010051: Xylem and phloem pattern formation (v) GO:0042023: DNA endoreduplication (vi) GO:0035196: Production of miRNAs involved in gene silencing by miRNA (vii) GO:0009740: Gibberellic acid mediated signaling pathway Consensus logo: 4 CMAYCTYCTCCDTCHBCATC Consensus sequence: [CT][CA]A[TC]CT[CT]CT[CT]C[TAG][TGC][CT][ATC][GTC]C[AT][TC]C 5.3e-007 20 44 Consensus logo: