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Table 4 Frequency of optimal codons (Fop) in non-domain and domain regions of S. rosetta TE genes

From: A genomic survey of transposable elements in the choanoflagellate Salpingoeca rosetta reveals selection on codon usage

FamilyNon-domain FopDomain FopSignificance (Fisher’s Exact Test)a
LTR Retrotransposon Families
Sroscv10.5650.576NS
Sroscv20.5910.609NS
Sroscv30.5590.4720.002
Sroscv40.7000.684NS
Sroscv50.6210.619NS
Srosgyp10.6840.725NS
Srosgyp20.6630.688NS
Srospv10.5930.619NS
Srospv20.6980.783< 0.001
Srospv30.7110.820< 0.0001
Srospv40.4570.438NS
Srospv50.5310.596< 0.03
Transposon Families
SrosH0.6080.636NS
SrosHar0.4590.415NS
SrosM0.5300.456NS
SrosTig10.4770.548NS
SrosTig20.4660.519NS
SrosTm0.5900.649NS
  1. a P values showing significantly elevated values of Fop in domain regions are highlighted in bold