Table 1. The miRNAs derived from 8 snoRNAs in Giardia.
| snoRNA | snoRNA lengtha |
Northern blot of overlapped portions |
Primer Extension |
Small RNA |
Position of small RNA in snoRNAc |
chromosomal localization |
Sequences of small RNAs (after 3′-RACE) |
Small RNA length |
Co-IP with GlAgo |
Designation | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 5′-portion | Mid-portionb | 3′-portion | ||||||||||
| GlsR1 | 85 nt (77 nt) | − | N/D | + | 3′-end | sdR1 | 54~81 | GLCHR03 (+) 412207..412234 |
GACGCGTGACGAAGTTTGTCGTATTCTG | 28 nt | + | miR6 |
| GlsR8 | 70 nt (67 nt) | + | N/D | + | 5′-end | sdR2 | 4~25 | GLCHR03 (−) 136711..136732 |
AGATGAAGAGAGATAAATCAGC | 22 nt | − | − |
| 3′-end | sdR3 | 43~70 | GLCHR03 (−) 136666..136693 |
TGAGGAAGAAACCGCCTTTCGTCTGACC | 28 nt | + | miR10 | |||||
| GlsR10 | 68 nt (65 nt) | + | N/D | − | 5′-end | sdR4 | 2~28 | GLCHR05 (+) 3181814..3181840 |
GAATGATGAGACGTGTTCCTCTCTCCT | 27 nt | − | − |
| GlsR13 | 100 nt (100 nt) |
+ | + | − | Mid-portion | sdR5 | 15~38 | GLCHR05 (−) 4314800..4314823 |
GATATGATGATTGGGAGCGACCTA | 24 nt | − | − |
| sdR6 | 14~38 | GLCHR05 (−) 4314800..4314824 |
AGATATGATGATTGGGAGCGACCTA | 25 nt | − | − | ||||||
| sdR7 | 13~35 | GLCHR05 (−) 4314803..4314825 |
GAGATATGATGATTGGGAGCGAC | 23 nt | − | − | ||||||
| GlsR14 | 69 nt (73 nt) | − | N/D | + | 3′-end | − | − | − | − | − | − | − |
| GlsR15 | 87 nt (61 nt) | − | N/D | + | 3′-end | − | − | − | − | − | − | − |
| GlsR18 | 109 nt (101 nt) |
− | + | + | 3′-end | sdR8 | 65~90 | GLCHR01 (+) 149540..149565 |
GTGGGGAGCGGATCCCGTCCATCCTC | 26 nt | − | − |
| sdR9 | 62~87 | GLCHR01 (+) 149537..149562 |
TAGGTGGGGAGCGGATCCCGTCCATC | 26 nt | − | |||||||
| GlsR24 | 125 nt (116 nt) |
+ | + | + | 3′-end | − | − | − | − | − | − | − |
a
The sequences and the lengths of Giardia snoRNAs used for probing Northern blot are based on Yang et al., 2005. After primer extension and 3′-RACE, the revised sequences of Giardia snoRNAs listed here were further determined (Figure S3). The numbers in brackets were the revised length of each snoRNA in the present study.
b
N/D: Not Determined.
c
The numbers showed the start and the end positions of each small RNA in the snoRNA. The snoRNA sequences designated here were by the previously reported sequences (Yang et al., 2005).