Modomics - A Database of RNA Modifications

General Data

RNA Type tRNA
SOTerm SO:0000256
Original Source None
Sequence (UNICHARACTER ENCODING) UCCCCUGUAGCUBAAUDGGCAGAGCAUUCGGCUGUU6ACCGGAGG7UUACUGGUUCGAGUCCAGUCGGGGGAG
Sequence (SHORT NAMES ENCODING) UCCCCUGUAGCUpCmAAUpDGGCAGAGCAUUCGGCUGUUpt6AACCGGAGGpm7GUUACUGGUUCGAGUCCAGUCGGGGGAG
Sequence (MODOMICS CODE ENCODING) UCCCCUGUAGCU2000090551CAAU2000008551UGGCAGAGCAUUCGGCUGUU2000062551AACCGGAGG2000007551GUUACUGGUUCGAGUCCAGUCGGGGGAG
Consensus Secondary Structure .(((((((..((((......[....)))).(((((.......)))))........................(((((..]....))))))))))))....
Alignment with Modification -UCCCCUGUAGCUBAAUD-GGC--AGAGCAUUCGGCUGUU6ACCGGAGG7UU-------------------ACUGGUUCGAGUCCAGUCGGGGGAG---

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 Consensus Secondary Structure

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 13 17 37 45A
Position in the sequence 13 17 37 46
Modification positions Cm D t6A m7G
Level of Experimental Evidence 5 5 5 5
Level of Experimental Reliability 5 5 5 5
Source MODOMICS MODOMICS MODOMICS MODOMICS