Skip to main content

Advertisement

Table 5 Properties of Fom-5190a effector candidates

From: Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors

Gene FOXM-5190a_15788 FOXM-5190a_16235 FOXM-5190a_16257 FOXM-5190a_16301 FOXM-5190a_16306 FOXM-5190a_16326 FOXM_5190a-SIX1 FOXM_5190a-SIX8 FOXM_5190a-SIX9 FOXM5190a-SIX13
Protein length (aa) 199 264 91 144 131 111 279 141 122 292
Mature protein length (aa) 186 247 72 128 112 95 263 126 105 276
Cysteine count in mature protein 7 8 8 6 10 9 8 2 6 6
% Cysteine (of aa length) 3.5 3 8.8 4.2 8.9 8.1 2.8 1.4 5.7 2.1
Predicted to be secreted by SignalP Y Y Y Y Y Y Y Y Y Y
WoLFPsort predicted location extr extr extr extr extr extr extr extr extr extr, mito
Phobius predicted signal peptide Y Y Y Y Y Y Y Y Y Y
TMHMM predicted transmembrane count 0 0 0 0 0 0 0 0 0 0
Pfam domains - - - LysM - - - - - -
Number of aligned RNAseq reads overlapping gene model from combined 2d in planta libraries 24 1039 89 378 10 369 2546 828 246 440
Average depth of RNAseq coverage per base of gene 4 123 27 88 3 76 354 141 33 61
Gene length (bp) 655 844 324 432 458 488 720 587 728 720
Proportion of gene model supported by RNAseq 0.96 1 1 1 0.69 1 0.99 1 1 1
Scaffold 122 322 364 461 485 531 3157, 696, 1167 420 270 306, 3812
Scaffold length (bp) 28,293 2356 1489 971 914 815 219, 647, 416 1129 4106 3,471, 204
Predicted scaffold type Dispensable Dispensable Dispensable Dispensable Dispensable Dispensable Dispensable Dispensable Dispensable Dispensable
Orthology Has orthologs in other ff.spp. Has orthologs in other ff.spp. Single ortholog unique to Fom5190a Has orthologs in other ff.spp. Has orthologs in other ff.spp. Has orthologs in other ff.spp. Has orthologs in other ff.spp. Has orthologs in other ff.spp. Has orthologs in other ff.spp. Has orthologs in other ff.spp.