Modomics - A Database of RNA Modifications

General Data

RNA Type rRNA
SOTerm S0:0001000
Original Source X03235
Sequence (UNICHARACTER ENCODING) AUUCCGGUUGAUCCUGCCGGACCCGACCGCUAUCGGGGUAGGGAUAAGCCAUGGGAGUCUUACACUCCCGGGUAAGGGAGUGUGGCGGACGGCUGAGUAACACGUGGCUAACCUACCCUCGGGACGGGGAUAACCCCGGGAAACUGGGGAUAAUCCCCGAUAGGGAAGGAGUCCUGGAAUGGUUCCUUCCCUAAAGGGCUAUAGGCUAUUUCCCGUUUGUAGCCGCCCGAGGAUGGGGCUACGGCCCAUCAGGCUGUCGGUGGGGUAAAGGCCCACCGAACCUAUAACGGGUAGGGGCCGUGGAAGCGGGAGCCUCCAGUUGGGCACUGAGACAAGGGCCCAGGCCCUACGGGGCGCACCAGGCGCGAAACGUCCCCAAUGCGCGAAAGCGUGAGGGCGCUACCCCGAGUGCCUCCGCAAGGAGGCUUUUCCCCGCUCUAAAAAGGCGGGGGAAUAAGCGGGGGGCAAGUCUʆGUGUCAGCCGCCGCGGUAAUHCCAGCUCCGCGAGUGGUCGGGGUGAUUACUGGGCCUAAAGCGCCUGUAGCCGGCCCACCAAGUCGCCCCUUAAAGUCCCCGGCUCAACCGGGGAACUGGGGGCGAUACUGGUGGGCUAGGGGGCGGGAGAGGCGGGGGGUHCUCCCGGAGUAGGGGCGAAAUCCUUAGAUACCGGGAGGACCACCAGUGGCGGAAGCGCCCCGCUAGAACGCGCCCGACGGUGAGAGGCGAAAGCCGGGGCAGCAAACGGGANUAGAUACCCCGGUAGUCCCGGCUGUAAACGAUGCGGGCUAGGUGUCGAGUAGGCUUAGAGCCUACUCGGUGCCGCAGGGAAGCCGUUAAGCCCGCCGCCUGGGGAGUACʆGUCGCAAGACUGAAACUNAAAGGAAUUGGCGGGGGAGCACCACAAGGGGUGGAACCUGCGGCUCAAUUʆGAGNCAACGCCUGGAAUCUUACCGGGGGAGACCGCAGUAUGACGGCCAGGCUAACGACCUUGCCUGACUCGCGGAGAGGAGGUGCAUGGCCʆUCGCCAGCUCGUGUUGUGAAAUGUCCGGUUAAGUCCGʆCAACGAGCGAGACCCCCACCCCUAGUUGGUAUUCUGGACUCCGGUCCAGAACCACACUAGGGGGACUGCCGGCGUAAGCCGGAGGAAGGAGGGGGCCACGGCAGGUCAGCAUGCCCCGAAACUCCCGGGCCGCACGCGGGUUACAAUGGCAGGGACAACGGGAUGCUACCUCGAAAGGGGGAGCCAAUCCUUAAACCCUGCCGCAGUUGGGAUCGAGGGCUGAAACCCGCCCUCGUGAACGAGGAAUCCCUAGUAACCGCGGGUCAACAACCCGCGGUGAAUACGNCCCUGCUCCUUGCACACACCGѴCѴGUCʆCUCCACCCGAGCGCGAAAGGGGUGAGGUCCCUUGCGAUAAGUGGGGGAUCGAACUCCUUUCCCGCGAGGGGGGAGAAGUCGUAHCAAGGUAGCCGUAGGGGHAѴѴUGCGGCUGGAUѴACCUC
Sequence (SHORT NAMES ENCODING) AUUCCGGUUGAUCCUGCCGGACCCGACCGCUAUCGGGGUAGGGAUAAGCCAUGGGAGUCUUACACUCCCGGGUAAGGGAGUGUGGCGGACGGCUGAGUAACACGUGGCUAACCUACCCUCGGGACGGGGAUAACCCCGGGAAACUGGGGAUAAUCCCCGAUAGGGAAGGAGUCCUGGAAUGGUUCCUUCCCUAAAGGGCUAUAGGCUAUUUCCCGUUUGUAGCCGCCCGAGGAUGGGGCUACGGCCCAUCAGGCUGUCGGUGGGGUAAAGGCCCACCGAACCUAUAACGGGUAGGGGCCGUGGAAGCGGGAGCCUCCAGUUGGGCACUGAGACAAGGGCCCAGGCCCUACGGGGCGCACCAGGCGCGAAACGUCCCCAAUGCGCGAAAGCGUGAGGGCGCUACCCCGAGUGCCUCCGCAAGGAGGCUUUUCCCCGCUCUAAAAAGGCGGGGGAAUAAGCGGGGGGCAAGUCUxGGUGUCAGCCGCCGCGGUAAUxACCAGCUCCGCGAGUGGUCGGGGUGAUUACUGGGCCUAAAGCGCCUGUAGCCGGCCCACCAAGUCGCCCCUUAAAGUCCCCGGCUCAACCGGGGAACUGGGGGCGAUACUGGUGGGCUAGGGGGCGGGAGAGGCGGGGGGUxACUCCCGGAGUAGGGGCGAAAUCCUUAGAUACCGGGAGGACCACCAGUGGCGGAAGCGCCCCGCUAGAACGCGCCCGACGGUGAGAGGCGAAAGCCGGGGCAGCAAACGGGAxUUAGAUACCCCGGUAGUCCCGGCUGUAAACGAUGCGGGCUAGGUGUCGAGUAGGCUUAGAGCCUACUCGGUGCCGCAGGGAAGCCGUUAAGCCCGCCGCCUGGGGAGUACxGGUCGCAAGACUGAAACUxUAAAGGAAUUGGCGGGGGAGCACCACAAGGGGUGGAACCUGCGGCUCAAUUxGGAGxUCAACGCCUGGAAUCUUACCGGGGGAGACCGCAGUAUGACGGCCAGGCUAACGACCUUGCCUGACUCGCGGAGAGGAGGUGCAUGGCCxGUCGCCAGCUCGUGUUGUGAAAUGUCCGGUUAAGUCCGxGCAACGAGCGAGACCCCCACCCCUAGUUGGUAUUCUGGACUCCGGUCCAGAACCACACUAGGGGGACUGCCGGCGUAAGCCGGAGGAAGGAGGGGGCCACGGCAGGUCAGCAUGCCCCGAAACUCCCGGGCCGCACGCGGGUUACAAUGGCAGGGACAACGGGAUGCUACCUCGAAAGGGGGAGCCAAUCCUUAAACCCUGCCGCAGUUGGGAUCGAGGGCUGAAACCCGCCCUCGUGAACGAGGAAUCCCUAGUAACCGCGGGUCAACAACCCGCGGUGAAUACGxUCCCUGCUCCUUGCACACACCGxCCxCGUCxGCUCCACCCGAGCGCGAAAGGGGUGAGGUCCCUUGCGAUAAGUGGGGGAUCGAACUCCUUUCCCGCGAGGGGGGAGAAGUCGUAxACAAGGUAGCCGUAGGGGxAAxCxCUGCGGCUGGAUxCACCUC
Sequence (MODOMICS CODE ENCODING) AUUCCGGUUGAUCCUGCCGGACCCGACCGCUAUCGGGGUAGGGAUAAGCCAUGGGAGUCUUACACUCCCGGGUAAGGGAGUGUGGCGGACGGCUGAGUAACACGUGGCUAACCUACCCUCGGGACGGGGAUAACCCCGGGAAACUGGGGAUAAUCCCCGAUAGGGAAGGAGUCCUGGAAUGGUUCCUUCCCUAAAGGGCUAUAGGCUAUUUCCCGUUUGUAGCCGCCCGAGGAUGGGGCUACGGCCCAUCAGGCUGUCGGUGGGGUAAAGGCCCACCGAACCUAUAACGGGUAGGGGCCGUGGAAGCGGGAGCCUCCAGUUGGGCACUGAGACAAGGGCCCAGGCCCUACGGGGCGCACCAGGCGCGAAACGUCCCCAAUGCGCGAAAGCGUGAGGGCGCUACCCCGAGUGCCUCCGCAAGGAGGCUUUUCCCCGCUCUAAAAAGGCGGGGGAAUAAGCGGGGGGCAAGUCU2000000999GGUGUCAGCCGCCGCGGUAAU2000000999ACCAGCUCCGCGAGUGGUCGGGGUGAUUACUGGGCCUAAAGCGCCUGUAGCCGGCCCACCAAGUCGCCCCUUAAAGUCCCCGGCUCAACCGGGGAACUGGGGGCGAUACUGGUGGGCUAGGGGGCGGGAGAGGCGGGGGGU2000000999ACUCCCGGAGUAGGGGCGAAAUCCUUAGAUACCGGGAGGACCACCAGUGGCGGAAGCGCCCCGCUAGAACGCGCCCGACGGUGAGAGGCGAAAGCCGGGGCAGCAAACGGGA2000000999UUAGAUACCCCGGUAGUCCCGGCUGUAAACGAUGCGGGCUAGGUGUCGAGUAGGCUUAGAGCCUACUCGGUGCCGCAGGGAAGCCGUUAAGCCCGCCGCCUGGGGAGUAC2000000999GGUCGCAAGACUGAAACU2000000999UAAAGGAAUUGGCGGGGGAGCACCACAAGGGGUGGAACCUGCGGCUCAAUU2000000999GGAG2000000999UCAACGCCUGGAAUCUUACCGGGGGAGACCGCAGUAUGACGGCCAGGCUAACGACCUUGCCUGACUCGCGGAGAGGAGGUGCAUGGCC2000000999GUCGCCAGCUCGUGUUGUGAAAUGUCCGGUUAAGUCCG2000000999GCAACGAGCGAGACCCCCACCCCUAGUUGGUAUUCUGGACUCCGGUCCAGAACCACACUAGGGGGACUGCCGGCGUAAGCCGGAGGAAGGAGGGGGCCACGGCAGGUCAGCAUGCCCCGAAACUCCCGGGCCGCACGCGGGUUACAAUGGCAGGGACAACGGGAUGCUACCUCGAAAGGGGGAGCCAAUCCUUAAACCCUGCCGCAGUUGGGAUCGAGGGCUGAAACCCGCCCUCGUGAACGAGGAAUCCCUAGUAACCGCGGGUCAACAACCCGCGGUGAAUACG2000000999UCCCUGCUCCUUGCACACACCG2000000999CC2000000999CGUC2000000999GCUCCACCCGAGCGCGAAAGGGGUGAGGUCCCUUGCGAUAAGUGGGGGAUCGAACUCCUUUCCCGCGAGGGGGGAGAAGUCGUA2000000999ACAAGGUAGCCGUAGGGG2000000999AA2000000999C2000000999CUGCGGCUGGAU2000000999CACCUC

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

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 452 473 615 727 837 855 906 910 1000 1038 1327 1349 1351 1355 1432 1450 1452 1453 1465
Position in the sequence 473 494 635 747 857 875 926 930 1018 1056 1342 1364 1366 1370 1454 1472 1474 1475 1487
Modification positions xG xA xA xU xG xU xG xU xG xG xU xC xC xG xA xA xC xC xC
Level of Experimental Evidence 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5
Level of Experimental Reliability 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5
Source MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS MODOMICS