General Data
RNA Type
tRNA
SOTerm
None
Original Source
LC530717.1
Secondary Structure
((((((((..((((.....)))).(((((.......)))))....(((((.......)))))))))))))...
Sequence (UNICHARACTER ENCODING)
GGUAAAUAUѢ L P Q P P ?
Sequence (SHORT NAMES ENCODING)
GGUAAAUAUpm1A pm2G pY pQ pY pY pm5C
Sequence (MODOMICS CODE ENCODING)
GGUAAAUAU2000001551A 2000002551G 2000009551U 2000042551G 2000009551U 2000009551U 2000005551C
Consensus Secondary Structure
.(((((((..((((......[....)))).(((((.......)))))........................(((((..]....))))))))))))....
Alignment with Modification
GGUAAAUAUѢLUUUAACCA------AAACAPCAGAUUQPGAAPCUGACAA?--------------------AGAGGCUUACGACCCCUUAUUUACCCCA
Score Table
Table containing the score explanation. Score identify the level of experimental reliability and
evidence so as exaplained in the 2023 release manuscript. Class 1 should be considered
as highlyrelevant. Class 2 evidences are considered as Solid, namely large errors are unlikely and minor errors
should not undermine the meaning of data. Class 3 is considered as speculative and errors are expected.
Class 4 is considered as questionable. Class 5 evidence means that
verification and data are still to be collected. Class 6 data cannot be estimated.
Method Classification
Score
Multiple direct experimental evidence
1
Direct experimental evidence
2
Inferred based on indirect experimental evidence
3
Predicted computationally
4
Evidence not yet annotated (Unknown)
5
Irrelevant
6
RNA-2D Representation
RNA Secondary Structure
backbone:1-2 backbone:2-3 basepair:4-73 backbone:3-4 basepair:5-72 backbone:4-5 basepair:6-71 backbone:5-6 basepair:7-70 backbone:6-7 basepair:8-69 backbone:7-8 basepair:9-68 backbone:8-9 basepair:10-67 backbone:9-10 basepair:11-66 backbone:10-11 basepair:12-28 backbone:11-12 basepair:13-27 backbone:12-13 basepair:14-26 backbone:13-14 basepair:15-25 backbone:14-15 basepair:16-24 backbone:15-16 backbone:16-17 backbone:17-18 backbone:18-19 backbone:19-20 backbone:20-21 backbone:21-22 backbone:22-23 basepair:24-16 backbone:23-24 basepair:25-15 backbone:24-25 basepair:26-14 backbone:25-26 basepair:27-13 backbone:26-27 basepair:28-12 backbone:27-28 backbone:28-29 backbone:29-30 backbone:30-31 backbone:31-32 basepair:33-49 backbone:32-33 basepair:34-48 backbone:33-34 basepair:35-47 backbone:34-35 basepair:36-46 backbone:35-36 basepair:37-45 backbone:36-37 backbone:37-38 backbone:38-39 backbone:39-40 backbone:40-41 backbone:41-42 backbone:42-43 backbone:43-44 basepair:45-37 backbone:44-45 basepair:46-36 backbone:45-46 basepair:47-35 backbone:46-47 basepair:48-34 backbone:47-48 basepair:49-33 backbone:48-49 backbone:49-50 basepair:51-63 backbone:50-51 basepair:52-62 backbone:51-52 basepair:53-61 backbone:52-53 basepair:54-60 backbone:53-54 backbone:54-55 backbone:55-56 backbone:56-57 backbone:57-58 backbone:58-59 basepair:60-54 backbone:59-60 basepair:61-53 backbone:60-61 basepair:62-52 backbone:61-62 basepair:63-51 backbone:62-63 backbone:63-64 backbone:64-65 basepair:66-11 backbone:65-66 basepair:67-10 backbone:66-67 basepair:68-9 backbone:67-68 basepair:69-8 backbone:68-69 basepair:70-7 backbone:69-70 basepair:71-6 backbone:70-71 basepair:72-5 backbone:71-72 basepair:73-4 backbone:72-73 empty:1 Aempty:1 empty:2 Cempty:2 empty:3 Cempty:3 empty:4 Cempty:4 empty:5 Cempty:5 empty:6 Aempty:6 empty:7 Uempty:7 empty:8 Uempty:8 empty:9 Uempty:9 empty:10 Aempty:10 empty:11 Uempty:11 empty:12 Uempty:12 empty:13 Cempty:13 empty:14 Cempty:14 empty:15 Cempty:15 empty:16 Cempty:16 empty:17 Aempty:17 empty:18 Gempty:18 empty:19 Cempty:19 empty:20 Aempty:20 empty:21 Uempty:21 empty:22 Uempty:22 empty:23 Cempty:23 empty:24 Gempty:24 empty:25 Gempty:25 empty:26 Aempty:26 empty:27 Gempty:27 empty:28 Aempty:28 empty:29 ?empty:29 empty:30 Aempty:30 empty:31 Aempty:31 empty:32 Cempty:32 empty:33 Aempty:33 empty:34 Gempty:34 empty:35 Uempty:35 empty:36 Cempty:36 empty:37 Pempty:37 empty:38 Aempty:38 empty:39 Aempty:39 empty:40 Gempty:40 empty:41 Pempty:41 empty:42 Qempty:42 empty:43 Uempty:43 empty:44 Uempty:44 empty:45 Aempty:45 empty:46 Gempty:46 empty:47 Aempty:47 empty:48 Cempty:48 empty:49 Pempty:49 empty:50 Aempty:50 empty:51 Cempty:51 empty:52 Aempty:52 empty:53 Aempty:53 empty:54 Aempty:54 empty:55 Aempty:55 empty:56 Cempty:56 empty:57 Cempty:57 empty:58 Aempty:58 empty:59 Aempty:59 empty:60 Uempty:60 empty:61 Uempty:61 empty:62 Uempty:62 empty:63 Lempty:63 empty:64 Ѣempty:64 empty:65 Uempty:65 empty:66 Aempty:66 empty:67 Uempty:67 empty:68 Aempty:68 empty:69 Aempty:69 empty:70 Aempty:70 empty:71 Uempty:71 empty:72 Gempty:72 empty:73 Gempty:73
RNA Consensus Secondary Structure
backbone:1-2 backbone:2-3 backbone:3-4 basepair:5-98 backbone:4-5 basepair:6-97 backbone:5-6 basepair:7-96 backbone:6-7 basepair:8-95 backbone:7-8 basepair:9-94 backbone:8-9 basepair:10-93 backbone:9-10 basepair:11-92 backbone:10-11 basepair:12-28 backbone:11-12 basepair:13-27 backbone:12-13 basepair:14-26 backbone:13-14 basepair:15-25 backbone:14-15 basepair:16-24 backbone:15-16 backbone:16-17 backbone:17-18 backbone:18-19 backbone:19-20 backbone:20-21 backbone:21-22 backbone:22-23 basepair:24-16 backbone:23-24 basepair:25-15 backbone:24-25 basepair:26-14 backbone:25-26 basepair:27-13 backbone:26-27 basepair:28-12 backbone:27-28 backbone:28-29 backbone:29-30 backbone:30-31 backbone:31-32 backbone:32-33 backbone:33-34 backbone:34-35 backbone:35-36 backbone:36-37 backbone:37-38 backbone:38-39 backbone:39-40 backbone:40-41 backbone:41-42 backbone:42-43 backbone:43-44 backbone:44-45 backbone:45-46 backbone:46-47 backbone:47-48 backbone:48-49 backbone:49-50 backbone:50-51 backbone:51-52 basepair:53-69 backbone:52-53 basepair:54-68 backbone:53-54 basepair:55-67 backbone:54-55 basepair:56-66 backbone:55-56 basepair:57-65 backbone:56-57 backbone:57-58 backbone:58-59 backbone:59-60 backbone:60-61 backbone:61-62 backbone:62-63 backbone:63-64 basepair:65-57 backbone:64-65 basepair:66-56 backbone:65-66 basepair:67-55 backbone:66-67 basepair:68-54 backbone:67-68 basepair:69-53 backbone:68-69 backbone:69-70 basepair:71-89 backbone:70-71 basepair:72-88 backbone:71-72 basepair:73-87 backbone:72-73 basepair:74-86 backbone:73-74 backbone:74-75 backbone:75-76 backbone:76-77 backbone:77-78 backbone:78-79 backbone:79-80 backbone:80-81 backbone:81-82 backbone:82-83 backbone:83-84 backbone:84-85 basepair:86-74 backbone:85-86 basepair:87-73 backbone:86-87 basepair:88-72 backbone:87-88 basepair:89-71 backbone:88-89 backbone:89-90 backbone:90-91 basepair:92-11 backbone:91-92 basepair:93-10 backbone:92-93 basepair:94-9 backbone:93-94 basepair:95-8 backbone:94-95 basepair:96-7 backbone:95-96 basepair:97-6 backbone:96-97 basepair:98-5 backbone:97-98 backbone:98-99 pseudoknot:21-79 empty:1 Aempty:1 empty:2 Cempty:2 empty:3 Cempty:3 empty:4 Cempty:4 empty:5 Cempty:5 empty:6 Aempty:6 empty:7 Uempty:7 empty:8 Uempty:8 empty:9 Uempty:9 empty:10 Aempty:10 empty:11 Uempty:11 empty:12 Uempty:12 empty:13 Cempty:13 empty:14 Cempty:14 empty:15 Cempty:15 empty:16 Cempty:16 empty:17 Aempty:17 empty:18 Gempty:18 empty:19 Cempty:19 empty:20 Aempty:20 empty:21 Uempty:21 empty:22 Uempty:22 empty:23 Cempty:23 empty:24 Gempty:24 empty:25 Gempty:25 empty:26 Aempty:26 empty:27 Gempty:27 empty:28 Aempty:28 empty:29 -empty:29 empty:30 -empty:30 empty:31 -empty:31 empty:32 -empty:32 empty:33 -empty:33 empty:34 -empty:34 empty:35 -empty:35 empty:36 -empty:36 empty:37 -empty:37 empty:38 -empty:38 empty:39 -empty:39 empty:40 -empty:40 empty:41 -empty:41 empty:42 -empty:42 empty:43 -empty:43 empty:44 -empty:44 empty:45 -empty:45 empty:46 -empty:46 empty:47 -empty:47 empty:48 -empty:48 empty:49 ?empty:49 empty:50 Aempty:50 empty:51 Aempty:51 empty:52 Cempty:52 empty:53 Aempty:53 empty:54 Gempty:54 empty:55 Uempty:55 empty:56 Cempty:56 empty:57 Pempty:57 empty:58 Aempty:58 empty:59 Aempty:59 empty:60 Gempty:60 empty:61 Pempty:61 empty:62 Qempty:62 empty:63 Uempty:63 empty:64 Uempty:64 empty:65 Aempty:65 empty:66 Gempty:66 empty:67 Aempty:67 empty:68 Cempty:68 empty:69 Pempty:69 empty:70 Aempty:70 empty:71 Cempty:71 empty:72 Aempty:72 empty:73 Aempty:73 empty:74 Aempty:74 empty:75 -empty:75 empty:76 -empty:76 empty:77 -empty:77 empty:78 -empty:78 empty:79 -empty:79 empty:80 -empty:80 empty:81 Aempty:81 empty:82 Cempty:82 empty:83 Cempty:83 empty:84 Aempty:84 empty:85 Aempty:85 empty:86 Uempty:86 empty:87 Uempty:87 empty:88 Uempty:88 empty:89 Lempty:89 empty:90 Ѣempty:90 empty:91 Uempty:91 empty:92 Aempty:92 empty:93 Uempty:93 empty:94 Aempty:94 empty:95 Aempty:95 empty:96 Aempty:96 empty:97 Uempty:97 empty:98 Gempty:98 empty:99 Gempty:99
Comments:
Heteroplasmy in mitochondria refers to the coexistence of distinct forms of mitochondrial DNA within a single cell or individual. In the specific context of mitochondrial tRNA sequencing, both adenine (A) and uracil (U) were detected at position 48 in the tRNA sequence. This observation is attributed to mitochondrial heteroplasmy, indicating that the cell's mitochondrial population contains a mix of tRNA molecules with either A or U at this position. This could have implications for mitochondrial function and warrants further investigation.
Modification Positions
Table containing the original modifications present in the MODOMICS sequences.
Edit locations not originally present in the RNA sequences are marked by their source.
Their scores are in third row.
Position in the alignment
9
10
27
34
35
39
45B
Position in the sequence
10
11
25
32
33
37
45
Modification positions
m1A
m2G
Y
Q
Y
Y
m5C
Source
32859890
32859890
32859890
32859890
32859890
32859890
32859890
Modification Annotation
Table containing the data present in the literature relating to the modification positions present
in the RNA sequences. Some of the modified residuals may differ from the modifications originally
present in MODOMICS. It follows the same format as the previous table. The table reports the scores
that have been associated to the modified nucleotides so to have an estimation of the reliability
of their presence.
Position in the alignment
9
10
27
34
35
39
45B
Position in the sequence
10
11
25
32
33
37
45
Source: 32859890
m1A
m2G
Y
Q
Y
Y
m5C
Level of Experimental Reliability
2
2
2
2
2
2
2
Level of Experimental Evidence
2
2
2
2
2
2
2