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Table 1 The BLASTN alignment of curated wnt genes

From: A transcriptional blueprint for a spiral-cleaving embryo

Wnt genes FPKMa Length (bp) % Identity Aligned Length (bp) % Coverage
pdum_wnt1 0 1473 0 0 0.0
pdum_wnt2 0.1 (6 h) 1366 98.02 757 55.4
pdum_wnt4 9.0 (10 h) 2503 97.91 2344 93.6
pdum_wnt5_Ab 15.7 (12 h) 2911 98.25 2906 99.8
pdum_wnt5_Bb 3.8 (14 h) 2190 97.8 1317 60.1
pdum_wnt6 0.1 (8 h) 1475 94.46 992 67.3
pdum_wnt7 0.2 (6 h) 2312 97.1 1309 56.6
pdum_wnt8 3.5 (10 h) 2139 99.58 1908 89.2
pdum_wnt9 0.2 (10 h) 1169 98.95 382 32.7
pdum_wnt10 0.1 (14 h) 1523 95.1 469 30.8
pdum_wnt11 2.3 (14 h) 1835 97.71 1837 100.0
pdum_wnt16 0.2 (10 h) 1903 96.69 1512 79.5
pdum_wntA 12.7 (8 h) 1840 98.42 1832 99.6
  1. astage with highest FPKM shown
  2. bwnt 5a and wnt 5b are different splice variants of the same gene.
  3. We evaluate the quality of our assembly by examining curated wnt sequences in Platynereis dumerilii. We used BLASTN to compare the similarity between these sequences with our assembly. The coverage refers to the proportion of the curated genes covered by our assembly. Out of 12 wnt genes, we successfully reconstructed wnt4, wnt5, wnt8, wnt11, wnt16 and wntA with at least 75 % coverage. wnt2, wnt6, wnt7, wnt9, and wnt10 were partially assembled due to the low expression level (<1 FPKM) during early developmental stages