Table 1.
Box C/D snoRNA genes in E. histolytica
| snoRNA genes |
Len. |
Seq. |
Modification | Antisense element | Scaffold | Start | End | Location |
|---|---|---|---|---|---|---|---|---|
| (nt) | (%) | |||||||
| **Me-Eh-SSU-G1296 |
78 |
92% |
SSU-G1296 |
12nt(5') 100% |
DS571223 |
24176 |
24254 |
IR |
| |
|
|
SSU-G1298 |
10nt(5’) 100% |
|
|
|
|
| |
|
|
SSU-G1195 |
10nt(5’) 100% |
|
|
|
|
| Me-Eh-SSU-U1024 |
80 |
96% |
SSU-U1024 |
14nt(5') 95% |
DS571261 |
44605 |
44684 |
IR ● |
| |
|
|
SSU-U1822 |
11nt(5’) 98% |
|
|
|
|
| **Me-Eh-SSU-A83 |
78 |
100% |
SSU-A83 |
16nt(5') 100% |
DS571196 |
58225 |
58327 |
IR |
| |
|
|
SSU-U87 |
12nt(5’) 100% |
|
|
|
|
| Me-Eh-SSU-G41 |
68 |
93% |
SSU-G41 |
11nt(5’) 100% |
DS571147 |
177417 |
177350 |
IR |
| Me-Eh-SSU-A431 |
68 |
94% |
SSU-A431 |
13nt(5') 100% |
DS571331 |
10236 |
10303 |
IR |
| Me-Eh-SSU-U871 |
80 |
96% |
SSU-U871 |
20nt(5’) 95% |
DS571673 |
2402 |
2481 |
NA |
| *Me-Eh-SSU-G1535 |
82 |
93% |
SSU-G1535 |
12nt(5') 100% |
DS571215 |
31121 |
31040 |
IR |
| |
|
|
LSU-G2053 |
9nt(5') 100% |
|
|
|
|
| Me-Eh-SSU-A27 |
66 |
100% |
SSU-A27 |
11nt(5') 100% |
DS571226 |
26372 |
26307 |
IR |
| Me-Eh-SSU-A1830 |
83 |
88% |
SSU-A1830 |
11nt(5') 100% |
DS571152 |
29351 |
29433 |
EHI_049420 (+) |
| Me-Eh-SSU-A836 |
103 |
-- |
SSU-A836 |
13nt(5’) |
DS571152 |
99242 |
99140 |
IR |
| Me-Eh-SSU-G1152 |
60 |
91% |
SSU-G1152 |
12nt(3') 100% |
DS571335 |
19522 |
19581 |
IR |
| Me-Eh-SSU-G628 |
97 |
-- |
SSU-G628 |
10nt(5’) |
DS571451 |
15436 |
15532 |
IR |
| |
|
|
|
|
DS571177 |
52928 |
52831 |
|
| Me-Eh-SSU-A1183 |
82 |
-- |
SSU-A1183 |
10nt(5’) |
DS571164 |
22795 |
22876 |
IR |
| |
|
|
SSU-G1836 |
13nt(5’) |
|
|
|
|
| |
|
|
SSU-A1485 |
9nt(5’) |
|
|
|
|
| |
|
|
LSU-A520 |
12nt(3’) |
|
|
|
|
| |
|
|
LSU-U1210 |
12nt(5’) |
|
|
|
|
| |
|
|
LSU-A145 |
10nt(3’) |
|
|
|
|
| Me-Eh-SSU-A790 |
68 |
94% |
SSU-A790 |
10nt(5’) 100% |
DS571171 |
51701 |
51634 |
IR |
| |
|
|
SSU-A1496 |
11nt(5’) 100% |
|
|
|
|
| |
|
|
LSU-A801 |
11nt(5’) 100% |
|
|
|
|
| |
|
|
LSU-A1834 |
10nt(5’) 100% |
|
|
|
|
| |
|
|
LSU-A2555 |
11nt(5’) 100% |
|
|
|
|
| Me-Eh-SSU-C1805 |
63 |
96% |
SSU-C1805 |
10nt(5') 100% |
DS571145 |
496851 |
496789 |
IR |
| Me-Eh-LSU-A928a |
69 |
97% |
LSU-A928 |
11nt(5') 100% |
DS571323 |
13072 |
13140 |
IR |
| Me-Eh-LSU-A928b |
66 |
98% |
LSU-A782 |
11nt(5') 100% |
DS571163 |
50734 |
50669 |
IR |
| |
|
|
LSU-A928 |
9nt(5’) 100% |
|
|
|
|
| |
|
|
LSU-A1034 |
9nt(5’) 100% |
|
|
|
|
| Me-Eh-LSU-U1868 |
101 |
92% |
LSU-U1868 |
13nt(5’) 92.3% |
DS571175 |
28933 |
28833 |
IR |
| Me-Eh-LSU-U3580a |
103 |
-- |
LSU-U3580 |
19nt(5’) |
DS571304 |
677 |
575 |
IR |
| Me-Eh-LSU-U3580b |
105 |
-- |
LSU-U3580 |
19nt(5’) |
DS571305 |
36390 |
36494 |
IR |
| Me-Eh-LSU-A785 |
62 |
96% |
LSU-A785 |
13nt(5') 100% |
DS571416 |
15678 |
15739 |
IR |
| Me-Eh-LSU-G2958 |
70 |
97% |
LSU-G2958 |
13nt(5') 100% |
DS571205 |
22350 |
22419 |
IR |
| *Me-Eh-LSU-A3089 |
71 |
92% |
LSU-A3089 |
11nt(5’) 100% |
DS571180 |
41005 |
40935 |
IR |
| *Me-Eh-LSU-C2414 |
69 |
97% |
LSU-C2414 |
11nt(5') 100% |
DS571473 |
957 |
1025 |
IR ● |
| Me-Eh-LSU-G926 |
59 |
98% |
LSU-G926 |
13nt(3') 100% |
DS571150 |
13447 |
13389 |
IR |
| Me-Eh-LSU-U1018 |
69 |
-- |
LSU-U1018 |
11nt(5’) |
DS571215 |
62034 |
62102 |
IR |
| |
|
|
LSU-U2783 |
14nt(5’) |
DS571316 |
3067 |
2999 |
|
| Me-Eh-LSU-G1028 |
61 |
87% |
LSU-G1028 |
14nt(3’) 100% |
DS571174 |
92482 |
92422 |
IR |
| Me-Eh-LSU-U1176a |
109 |
94% |
LSU-U1176 |
14nt(5') 100% |
DS571307 |
17712 |
17820 |
IR ▲ |
| Me-Eh-LSU-U1176b |
109 |
94% |
LSU-U1176 |
14nt(5') 100% |
DS571419 |
10643 |
10535 |
IR |
| Me-Eh-LSU-U1176c |
109 |
93% |
LSU-U1176 |
14nt(5') 100% |
DS571792 |
3710 |
3820 |
IR |
| Me-Eh-LSU-A2333 |
128 |
93% |
LSU-A2333 |
12nt(3') 100% |
DS571208 |
15564 |
15691 |
IR ● |
| **Me-Eh-LSU-A228 |
72 |
97% |
LSU-A228 |
13nt(5') 100% |
DS571397 |
17920 |
17991 |
EHI_003940 |
| Intron of gene | ||||||||
| 40 S ribosomal protein S4, putative | ||||||||
| **Me-Eh-5.8 S-U84 |
62 |
86% |
5.8 S-U84 |
18nt(3’) 91% |
DS571194 |
27534 |
27595 |
3’UTR |
| *Me-Eh-5.8 S-A92 | 115 | 85% | 5.8 S-A92 | 11nt(5’) 94% | DS571180 | 76405 | 76291 | EHI_118830 (−) ■ |
** snoRNAs validated by RT-PCR and Northern, * validated only by RT-PCR.
Note: “Len.” denotes length of the snoRNA genes, “Seq.” is sequence identity of corresponding snoRNA genes in E. dispar, “Antisense element” denotes length of antisense element in E. histolytica and its sequence identity with E. dispar. “IR”, intergenic region, “NA”, no annotation. snoRNA located close to ribosomal protein genes ●, downstream to rRNA methyltransferase gene ▲, close to C/D box snoRNP (fibrillarin) ■. (+) and (−) represents snoRNA in sense and antisense orientation with respect to host gene.