TABLE 2.
cDNA sequences of circularized tRNAs
| Speciesa | tRNA | Originb | Sequencec | # of cDNAs | Commentsd |
| S.punc | Lys | mtDNA | 3′-GUGAAUU-----AUCCUCAC-5′ | — | — |
| cDNA | 3′-GUGAGGA--ACCAUCCUCAC-5′ | 8 | E | ||
| fMet | mtDNA | 3′-GGCCUUC-----UUCAGGCC-5′ | — | — | |
| cDNA | 3′-GGCCUGA--ACCUUCAGGCC-5′ | 5 | E | ||
| Pro | mtDNA | 3′-GCGGAAU-----AGUCCCGC-5′ | — | — | |
| cDNA | 3′-GCGGGAC--ACCAGUCCCGC-5′ | 15 | E | ||
| R.brook | Leu | mtDNA | 3′-AUCCCCG-----AUGGGGAU-5′ | — | — |
| cDNA | 3′-AUCCCCG--ACCAUGGGGAU-5′ | 16 | NE | ||
| cDNA | 3′-AUCCCCGauACCAUGGGGAU-5′ | 1 | NE | ||
| Mono15 | Glu | mtDNA | 3′-UCCAAGG-----GCUCUGGA-5′ | — | — |
| cDNA | 3′-UCCAGAG--ACCGCUCUGGA-5′ | 23 | E | ||
| cDNA | 3′-UCCAAGG--ACCGCUCUGGA-5′ | 4 | NE | ||
| cDNA | 3′-UCCAAGGg-ACCGCUCUGGA-5′ | 2 | NE | ||
| cDNA | 3′-UCCAAGG---CCGCUCUGGA-5′ | 4 | NE | ||
| fMet | mtDNA | 3′-AAGAUAG-----AACGUCUU-5′ | — | — | |
| cDNA | 3′-AAGACGU--ACCAACGUCUU-5′ | 21 | E | ||
| cDNA | 3′-AAGAUGU--ACCAACGUCUU-5′ | 15 | PE | ||
| Pro | mtDNA | 3′-AAGGAGU-----AGUCCCUU-5′ | — | — | |
| cDNA | 3′-AAGGGAC--ACCAGUCCCUU-5′ | 10 | E | ||
| Gly | mtDNA | 3′-UGGAUAU-----AGGAUCCA-5′ | — | — | |
| cDNA | 3′-UGGAUCC--ACCAGGAUCCA-5′ | 8 | E | ||
| Harp94 | Glu | mtDNA | 3′-UCCAAUU-----GCUCUGGA-5′ | — | — |
| cDNA | 3′-UCCAGAG--ACCGCUCUGGA-5′ | 3 | E | ||
| fMet | mtDNA | 3′-AAGAUGU-----AACGUCUU-5′ | — | — | |
| cDNA | 3′-AAGAUGU--ACCAACGUCUU-5′ | 2 | NE | ||
| Pro | mtDNA | 3′-AAGAAAA-----AGUCUCUU-5′ | — | — | |
| cDNA | 3′-AAGAGAC--ACCAGUCUCUU-5′ | 7 | E | ||
| cDNA | 3′-AAGAGACug---AGUCUCUU-5′ | 1 | E | ||
| cDNA | 3′-AAGAGAC-----AGUCUCUU-5′ | 1 | E | ||
| cDNA | 3′-AAGAAAA--ACCAGUCUCUU-5′ | 1 | NE | ||
| Harp105 | Glu | mtDNA | 3′-UCCAACA-----GCUCUGGA-5′ | — | — |
| cDNA | 3′-UCCAGAG--ACCGCUCUGGA-5′ | 13 | E | ||
| cDNA | 3′-UCCAGAGa-ACCGCUCUGGA-5′ | 1 | E | ||
| cDNA | 3′-UCCAGAGuu--CGCUCUGGA-5′ | 1 | E | ||
| cDNA | 3′-UCCAAAG--ACCGCUCUGGA-5′ | 1 | PE | ||
| fMet | mtDNA | 3′-AAGAUAA-----AACGUCUU-5′ | — | — | |
| cDNA | 3′-AAGAUGU--ACCAACGUCUU-5′ | 15 | PE | ||
| Pro | mtDNA | 3′-AAGGAUA-----AGUCCCUU-5′ | — | — | |
| cDNA | 3′-AAGGGAC--ACCAGUCUCUU-5′ | 5 | E |
aS.punc, S. punctatus; R.brook, R. brooksianum; Mono15, Monoblepharella15; Harp94, Harpochytrium94; Harp105, Harpochytrium105.
bSequence inferred from either the mtDNA gene sequence or cDNA sequences.
cIsolated tRNAs were circularized and amplified by RT-PCR (see Materials and Methods). Sequences are given from 3′ to 5′ starting at position 7 on the 5′ side of the acceptor stem and ending at position 66 on the 3′ side of the acceptor stem and including other nucleotides present at the ligation junction (e.g., the CCA tail; other nucleotides of uncertain origin are indicated in lowercase).
dE, edited; NE, not edited; PE, partially edited