Table 1.
Identification and prediction of miRNAs in N. attenuata
|
Nat-MIR family members |
MFE |
miRNA |
Length (nt) |
GC content |
Hit in miRBase |
E-value |
|---|---|---|---|---|---|---|
| (%) | ||||||
| Nat-miR156a |
−55.1 |
ugacagaagagagugagcaca |
21 |
47.6 |
bna-miR156 |
0.001 |
| Nat-miR156b |
−76.5 |
ugacagaagagagugagcaca |
21 |
47.6 |
bna-miR156 |
0.001 |
| Nat-miR157 |
−43.9 |
uugacagaagauagagagcac |
21 |
42.9 |
ath-miR157 |
0.001 |
| Nat-miR159a |
−62.3 |
uuuggauugaagggagcucua |
21 |
42.9 |
ath-miR159 |
0.001 |
| Nat-miR159b |
−90.6 |
uuuggauugaagggagcucua |
21 |
42.9 |
ath-miR159 |
0.001 |
| Nat-miR159c |
−104.3 |
uuuggauugaagggagcucua |
21 |
42.9 |
ath-miR159 |
0.001 |
| Nat-miR160a |
−61.6 |
ugccuggcucccuguaugcca |
21 |
61.9 |
ath-miR160 |
0.001 |
| Nat-miR160b |
−63.3 |
ugccuggcucccuguaugcca |
21 |
61.9 |
ath-miR160 |
0.001 |
| Nat-miR162 |
−43.9 |
uggaggcagcgguucaucgauc |
22 |
54.5 |
csi-miR162 |
0.0001 |
| Nat-miR164 |
−74.2 |
uggagaagcagggcacgugca |
21 |
61.9 |
ath-miR164 |
0.001 |
| Nat-miR166a |
−59.8 |
ucggaccaggcuucauucccc |
21 |
61.9 |
ath-miR166 |
0.001 |
| Nat-miR166b |
−51 |
ucggaccaggcuucauucccc |
21 |
61.9 |
ath-miR166 |
0.001 |
| Nat-miR166c |
−71.8 |
ucggaccaggcuucauucccc |
21 |
61.9 |
ath-miR166 |
0.001 |
| Nat-miR167a |
−42 |
ugaagcugccagcaugaucua |
21 |
47.6 |
ath-miR167 |
0.001 |
| Nat-miR167b |
−47 |
ugaagcugccagcaugaucua |
21 |
47.6 |
ath-miR167 |
0.001 |
| Nat-miR168 |
−78.3 |
cccgccuugcaucaacugaau |
21 |
52.4 |
aly-miR168 |
0.001 |
| Nat-miR169a |
−86.1 |
cagccaaggaugacuugccga |
21 |
57.1 |
ath-miR169 |
0.001 |
| Nat-miR169b |
−70.5 |
uagccaaggaugacuugccugc |
22 |
50.0 |
bna-miR169 |
0.001 |
| Nat-miR171a |
−70.1 |
ugauugagccgcgucaauauc |
21 |
47.1 |
vvi-miR171 |
0.001 |
| Nat-miR171b |
−61.4 |
ugauugagccgcgucaauauc |
21 |
47.1 |
vvi-miR171 |
0.001 |
| Nat-miR171c |
−44.9 |
ugauugagccgcgucaauauc |
21 |
47.1 |
vvi-miR171 |
0.001 |
| Nat-miR171d |
−60.4 |
ugauugagccgcgucaauauc |
21 |
47.1 |
vvi-miR171 |
0.001 |
| Nat-miR172a |
−53.4 |
ugagaaucuugaugaugcugcau |
23 |
39.1 |
vvi-miR172 |
0.001 |
| Nat-miR172b |
−49.5 |
ugagaaucuugaugaugcugcau |
23 |
39.1 |
vvi-miR172 |
0.001 |
| Nat-miR172c |
−61.7 |
ugagaaucuugaugaugcugcau |
23 |
39.1 |
vvi-miR172 |
0.001 |
| Nat-miR172d |
−35.2 |
ugagaaucuugaugaugcugcau |
23 |
39.1 |
vvi-miR172 |
0.001 |
| Nat-miR319a |
−97.5 |
uuggacugaagggagcucccu |
21 |
57.1 |
ath-miR319 |
0.001 |
| Nat-miR319b |
−89.7 |
uuggacugaagggagcucccu |
21 |
57.1 |
ath-miR319 |
0.001 |
| Nat-miR319c |
−95.4 |
uuggacugaagggagcucccu |
21 |
57.1 |
ath-miR319 |
0.001 |
| Nat-miR390a |
−67.6 |
aagcucaggagggauagcacc |
21 |
57.1 |
gma-miR390 |
0.001 |
| Nat-miR390b |
−58.1 |
aagcucaggagggauagcacc |
21 |
57.1 |
gma-miR390 |
0.001 |
| Nat-miR393a |
−41.7 |
uccaaagggaucgcauugaucc |
21 |
45.5 |
ath-miR393 |
0.0004 |
| Nat-miR393b |
−54.4 |
uccaaagggaucgcauugaucc |
21 |
45.5 |
ath-miR393 |
0.0004 |
| Nat-miR394a |
−41.7 |
uuggcauucuguccaccuccau |
22 |
50.0 |
vvi-miR394 |
0.0004 |
| Nat-miR394b |
−82.3 |
uuggcauucuguccaccuccau |
22 |
50.0 |
vvi-miR394 |
0.0004 |
| Nat-miR396 |
−56.4 |
uuccacagcuuucuugaacug |
22 |
42.9 |
ath-miR396 |
0.001 |
| Nat-miR397 |
−49.9 |
ucauugagugcagcguugaug |
22 |
47.6 |
ath-miR397 |
0.001 |
| Nat-miR398 |
−69.1 |
uguguucucaggucaccccuu |
21 |
52.4 |
ath-miR398 |
0.001 |
| Nat-miR399 |
- |
ugccaaagaagauuugccccgu |
21 |
52.4 |
ptc-miR399 |
0.001 |
| Nat-miR403 |
−38.2 |
uuagauucacgcacaaacucg |
21 |
42.9 |
ath-miR403 |
0.001 |
| Nat-miR408 |
−47.6 |
augcacugccucuucccuggc |
21 |
61.9 |
ath-miR408 |
0.001 |
| Nat-miR413 |
- |
cuaguuucucuuguucugcuu |
21 |
38.1 |
ath-miR413 |
0.015 |
| Nat-miR414 |
- |
uccucuucaucaucaucuuc |
21 |
40.0 |
ath-miR414 |
0.074 |
| Nat-miR477 |
−54.8 |
acucucccucaagggcuucug |
21 |
57.1 |
aqc-miR477 |
0.001 |
| Nat-miR478 |
−33.3 |
ugacaugucuuauauuuuuag |
20 |
23.8 |
ptc-miR478 |
0.005 |
| Nat-miR482 |
−53.1 |
uuuccaauuccacccauuccua |
21 |
40.9 |
sly-miR482 |
0.0004 |
| Nat-miR828 |
−46.7 |
ucuugcucaaaugaguauucca |
21 |
36.4 |
vvi-miR828 |
0.0004 |
| Nat-miR845a |
- |
ugcucugauaccaaauugaug |
22 |
38.1 |
ath-miR845 |
0.003 |
| Nat-miR845b |
- |
uggcucugauaccaauugau |
22 |
40.0 |
vvi-miR845 |
0.004 |
| Nat-miR1128 |
−85.4 |
uacuacucccuccguuucaa |
20 |
45.0 |
ssp-miR1128 |
0.081 |
| Nat-miR1133 |
−88.1 |
cauauacucccuccgucccugaaa |
21 |
50.0 |
tae-miR1133 |
0.017 |
| Nat-miR1446 |
−48.7 |
uucugaacucucucccucaa |
20 |
45.0 |
ptc-miR1446 |
0.003 |
| Nat-miR1863a |
- |
gcucugauaccauguuaacu |
24 |
40.0 |
osa-miR1863b |
0.008 |
| Nat-miR1863b |
- |
gacucugauaccauguuaaaauag |
20 |
28.0 |
osa-miR1863 |
0.02 |
| Nat-miR1919 |
−87.1 |
aggcgagtcatctgtgacagg |
21 |
57.1 |
sly-miR1919 |
0.029 |
| Nat-miR2911 |
−67.3 |
ggccgggggacggacuggga |
20 |
80.0 |
peu-miR2911 |
0.014 |
| Nat-miR5281a |
−51.9 |
cauauaaauugaaacggagggag |
23 |
39.1 |
mtr-miR5281b |
0.13 |
| Nat-miR5281b |
−69.9 |
cauauaaauugaaacggagggag |
23 |
39.1 |
mtr-miR5281b |
0.13 |
| Nat-miR5281c | −34.2 | cauauaaauugaaacggagggag | 23 | 39.1 | mtr-miR5281b | 0.13 |