Table 1 The length of introns and a summary of the motifs examined in 2022 introns from 226 core genes in four Fusarium species
Lengtha5′ Splice Site MotifbPolypyrimidine TractBranch Site Motifc3′ Splice Site Motifd
42–529 nucleotidesA38A38G53|G100T99A74A42G93T6683% located between 5′ splice site and the branch site, 17% located between the branch site and the 3′ splice siteCTRAY (91%)Y93A100G100 |R59
CTHAH (4.99%)YAG|R (94.31%)
TTRAY (3.96%)RAG|R (3.51%)
ACCAT (0.05%)RAG|Y (2.18%)
  • a Subscript digits following individual bases indicate the proportion (in percentage) of occurrence of the base in that position.

  • b For comparison with the literature, we included the 5′ splice site consensus sequence in this form. However, full details regarding the frequency of specific bases are as follows: N1N2N3|G100YN4N5N6N7, where N1 = A38/G21/T19/C24; N2 = A38/G20/T21/C21; N3 = A15/G53/T15/C1; N3 = A15/G53/T15/C17; N4 = A74/G16/T6/C4; N5 = A42/G4/T22/C32; N6 = A3/G93/T3/C1; N7 = A14/G4/T66/C16; and Y = T99/C1.

  • c The proportion of the introns in which a specific branch site motif was observed is indicated in parentheses. Alternative branch site sequences: CTHAH represents CTTAC, CTCAA, CTAAA, and CTCAT; TTRAY represents TTAAC, TTAAT, TTGAC, and TTGAT*. All the predicted branch site motifs were supported by expressed sequence tags data, except for TTGAT. Within the sequences, R, H, and Y represent standard International Union of Pure and Applied Chemistry codes for degenerate nucleotides, where R represents a nucleotide with either 2′-deoxyguanosine or 2′-deoxyadenosine bases, Y represents either 2′-deoxycytidine or 2′-deoxythymidine bases, and H represents 2′-deoxyadenosine, 2′-deoxycytidine, or 2′-deoxythymidine bases.

  • d The proportion of the introns in which a specific 3′ splice site was observed is indicated in parentheses.