Table 2. Identification of I-UmaI homologs.
| NCBI accession no.1/species (phylum)2 | Similarity:E-value1 | Predicted lengthof HE3 | LAGLIDADGdomains4 | Intron type/(E-value)5 | Hostgene | I-UmaI target site6 |
| ACL27287 (I-UmaI)/Ustilago maydis (B) | – | 336 (0) | 2 | Group II/(1.23e-14) | LSU | yes |
| FQ311469/Sporisorium reilianum (B) | 3e−101 | nd (12) | 2 | Group II/(1.23e−14) | LSU | yes |
| AB697988/Lentinula edodes (B) | 5e−63 | 365 (0) | 2 | Group II/(2.75e−12) | LSU | yes |
| HQ540074/Limacella glischra (B) | 7e−56 | 329 (1) | 2 | Group II/(2.80e−12) | LSU | yes |
| AF087656/Agrocybe aegerita (B) | 4e−48 | 319 (4) | 2 | Group II/(1.37e−12) | LSU | yes |
| FN377860/Glomus coronatum (G) | 3e−40 | 309 (1) | 2 | no hit | LSU | no |
| AF404306/Rhizophydium sp. 136 (C) | 3e−29 | 352 (3) | 2 | no hit | cox1 | no |
| HQ259115/Moniliophthora roreri (B) | 4e−27 | 327 (0) | 2 | no hit | nad5 | no |
| DQ364632/Gibberella zeae (A) | 1e−25 | 372 (0) | 2 | no hit | cox1 | no |
| JN007486/Chaetomium thermophilum (A) | 2e−25 | 348 (0) | 2 | no hit | cox1 | no |
| JQ015302/Madurella mycetomatis (A) | 8e−25 | 366 (0) | 2 | no hit | cox2 | no |
NCBI TBLASTN 2.2.26+ search (July 2012) against the nr data base with the I-UmaI protein sequence as query. Shown are the top 10 hits.
B: Basidiomycota; G: Glomeromycota; C: Chytridiomycota; A: Ascomycota.
Length in amino acids. See Figure S4 for the ORF regions derived from the indicated accession numbers. In brackets: the number of premature stop codons (UAA, UAG) within the predicted ORFs. UGA has been converted to Trp according to the mitochondrial codon usage; for FN377860 and AF404306, each one nucleotide (positions 465 and 301, respectively) has been removed to provide for a continuous ORF; nd: not determined for FQ311469 due to 7 frameshift mutations within the predicted ORF region (data not shown).
According to Pfam; see alignment in Figure S4.
According to Rfam; see reference [18] for I-UmaI.
See Figure S3; for HQ540074, the minimum target sequence on the left of the intron insertion site is fully conserved, with positions 348–401 in HQ540074 corresponding to 3360–3413 in the U. maydis 521 mtDNA sequence. The right border could not be aligned due to the limited sequence available in HQ540074.