Modomics - A Database of RNA Modifications

General Data

RNA Type mRNA
Original Source Sci-ModoM
Transcript ID: ENST00000546455
Gene ID: ENSG00000179715
Gene Name: PCED1B
Sequence (UNICHARACTER ENCODING) GGAGUUUCAAGCAGCCGCGGCGGCAGCAGCAGCCCUGGACGCAGCAGCCAAGCUCUUCGCUGGCUCCCGGGGGCUCUCCCGGGUUCCUCUCAUUGCAGGCUGAAGGUAAUGAGAGGCCCUAAGAUCCCAGAGGAUGCCAUAAGAGGAAAAGUCAGGGGAGUGUUGAAGACUCUGCCUCCUACAAAUAUCCGUGAACAUACCACACCAGCAAGAACAAUAAGAGCCAAGGGUCUGAAUUGUUUAAUCAAAGGAAGAGUCAAAAUAAGCUACACCCAGAUUACUGAGAAAGGUGAAAUGAAAACAAGCUCAAAACCAAAUUCCAGGAAGAUGCUGUCUUUGUAUUGACUUACCAUUUCAUGUUUUCACACAUGUCAAAGUCUUGAAGCUUCGGUCAUUAGUCUUCCGCUUCCUAAAGCAAGAAACUAAAUGCUGACUUGUGUCGUUUGCCCCAGAUGCCACCGGAAAUGUCAUCUUCUCCCCAGACGCUGGCUUGCAAGCACAGCAGCACCCAGAGGCUAACCUAUUUCCCCUAUAGCCCAAGCUCUGAGAUCUCCCGUCUGGUCACAAUGAUCUACAGGAGAGGAAGAAAGCUAUCUAGGGACGAGAUCUAGAAUCAACUGAGAGAGAUGCUUAAAAAUCACCAGUUACUUUAAUGACCAUCCGCAGAGCCAUCCUGUGCAAAGGAAGGAGCUAGGCUGUGCGCCCUGGGCGUCAUGAUCCUUCUGCGGGCCUCCGAAGUGCGGCAGCUGCUUCACAAUAAGUUCGUGGUCAUCCUGGGGGЖCUCUGUGCAUAGGGCAGUAUACAAGGЖCCUGGUGCUUCUGCUGCAGAAGGACCGCCUGCUCACUCCCGGGCAGCUUAGAGCAAGGGGGGAGCUGAACUUCGAACAAGAUGAGCUGGUGGACGGAGGCCAGCGGGGCCACAUGCACAACGGCCUUAACUACCGUGAGGUCCGCGAGUUCCGCUCCGACCACCAUCUGGUACGUUUUUACUUCCUCACCCGCGUGUACUCCGAUUACCUCCAGACCAUCUUGAAAGAGCUGCAGUCGGGCGAGCACGCCCCCGACCUGGUCAUCAUGAAUUCCUGCCUCUGGGACAUCUCCAGGUAUGGUCCGAACUCCUGGAGAAGCUACCUGGAGAACCUGGAGAACCUGUUCCAGUGCCUGGGCCAGGUGCUGCCCGAGUCUUGCCUCCUGGUGUGGAACACGGCCAUGCCUGUGGGCGAGGAAGUCACCGGGGGUUUUCUUCCGCCCAAGCUCCGGCGGCAGAAGGCCACCUUCCUGAAAAACGAAGUGGUCAAAGCCAACUUCCACAGCGCCACCGAGGCACGUAAACAUAACUUCGAUGUЖCUGGЖCUUGCAUUUCCACUUCCGCCACGCGAGGGAGAACCUGCACUGGGACGGGGUGCACUGGAAUGGЖCGUGUGCACCGCUGCCUCUCCCAGCUGCUGCUGGCCCACGUGGCCGACGCCUGGGGUGUGGAGCUGCCCCACCGCCACCCCGUGGGCGAGUGGAUCAAGAAGAAAAAACCUGGCCCGAGAGUCGAAGGGCCGCCCCAGGCCAACAGAAAUCACCCGGCCUUACCUCUGUCCCCACCCUUACCUUCCCCCACAUACCGCCCCCUGCUUGGGUUCCCACCCCAGCGCUUGCCGCUGCUCCCGCUCCUGUCCCCACAGCCUCCUCCUCCCAUUCUCCAUCACCAGGGAAUGCCCCGGUUCCCACAGGGUCCCCCAGAUGCCUGUUUUUCCUCAGACCAUACUUUCCAGUCGGAUCAAUUCUAUUGCCAUUCAGAUGUCCCCUCAUCAGCCCAUGCAGGUUUCUUCGUCGAAGACAAUUUUAUGGUUGGUCCUCAGCUGCCUAUGCCCUUCUUCCCCACACCCCGUUAUCAGCGGCCUGCCCCAGUGGUACAUAGGGGUUUUGGCAGGUAUCGUCCCCGUGGCCCCUAUACGCCCUGGGGACAGCGGCCUCGACCUUCAAAGAGAAGGGCCCCAGCCAAUCCUGAGCCAAGGCCUCAAUAGACGGЖCCUAGGCCUUAUUUCCUCUUUAUGAACAUGGAUUGGЖCAGAUCUGACACUUCCUUUCCAUUGCUUGGCCUGAЖCAGЖCUGACCUUGUUAЖCUUAAGCCUGGAGUCCAUGCCUCGUCUUCCUUUUGUUCAUUGCUGUUACCAAGAAAGCCAAGGAAGAGCAGCCUGACUCAUUCUUCUUGGCUGCAGCCUCUUCCCCACUUCCUGGGAGUGACCCAGCGUUAUUCCUGCCUCCUCACUCCUAUUCUCUUUGCCUUUGUGUAAAAAUAAAAUGGAAAUAAACAAGUUGCACAGAA
Sequence (SHORT NAMES ENCODING) GGAGUUUCAAGCAGCCGCGGCGGCAGCAGCAGCCCUGGACGCAGCAGCCAAGCUCUUCGCUGGCUCCCGGGGGCUCUCCCGGGUUCCUCUCAUUGCAGGCUGAAGGUAAUGAGAGGCCCUAAGAUCCCAGAGGAUGCCAUAAGAGGAAAAGUCAGGGGAGUGUUGAAGACUCUGCCUCCUACAAAUAUCCGUGAACAUACCACACCAGCAAGAACAAUAAGAGCCAAGGGUCUGAAUUGUUUAAUCAAAGGAAGAGUCAAAAUAAGCUACACCCAGAUUACUGAGAAAGGUGAAAUGAAAACAAGCUCAAAACCAAAUUCCAGGAAGAUGCUGUCUUUGUAUUGACUUACCAUUUCAUGUUUUCACACAUGUCAAAGUCUUGAAGCUUCGGUCAUUAGUCUUCCGCUUCCUAAAGCAAGAAACUAAAUGCUGACUUGUGUCGUUUGCCCCAGAUGCCACCGGAAAUGUCAUCUUCUCCCCAGACGCUGGCUUGCAAGCACAGCAGCACCCAGAGGCUAACCUAUUUCCCCUAUAGCCCAAGCUCUGAGAUCUCCCGUCUGGUCACAAUGAUCUACAGGAGAGGAAGAAAGCUAUCUAGGGACGAGAUCUAGAAUCAACUGAGAGAGAUGCUUAAAAAUCACCAGUUACUUUAAUGACCAUCCGCAGAGCCAUCCUGUGCAAAGGAAGGAGCUAGGCUGUGCGCCCUGGGCGUCAUGAUCCUUCUGCGGGCCUCCGAAGUGCGGCAGCUGCUUCACAAUAAGUUCGUGGUCAUCCUGGGGGm6ACUCUGUGCAUAGGGCAGUAUACAAGGm6ACCUGGUGCUUCUGCUGCAGAAGGACCGCCUGCUCACUCCCGGGCAGCUUAGAGCAAGGGGGGAGCUGAACUUCGAACAAGAUGAGCUGGUGGACGGAGGCCAGCGGGGCCACAUGCACAACGGCCUUAACUACCGUGAGGUCCGCGAGUUCCGCUCCGACCACCAUCUGGUACGUUUUUACUUCCUCACCCGCGUGUACUCCGAUUACCUCCAGACCAUCUUGAAAGAGCUGCAGUCGGGCGAGCACGCCCCCGACCUGGUCAUCAUGAAUUCCUGCCUCUGGGACAUCUCCAGGUAUGGUCCGAACUCCUGGAGAAGCUACCUGGAGAACCUGGAGAACCUGUUCCAGUGCCUGGGCCAGGUGCUGCCCGAGUCUUGCCUCCUGGUGUGGAACACGGCCAUGCCUGUGGGCGAGGAAGUCACCGGGGGUUUUCUUCCGCCCAAGCUCCGGCGGCAGAAGGCCACCUUCCUGAAAAACGAAGUGGUCAAAGCCAACUUCCACAGCGCCACCGAGGCACGUAAACAUAACUUCGAUGUm6ACUGGm6ACUUGCAUUUCCACUUCCGCCACGCGAGGGAGAACCUGCACUGGGACGGGGUGCACUGGAAUGGm6ACGUGUGCACCGCUGCCUCUCCCAGCUGCUGCUGGCCCACGUGGCCGACGCCUGGGGUGUGGAGCUGCCCCACCGCCACCCCGUGGGCGAGUGGAUCAAGAAGAAAAAACCUGGCCCGAGAGUCGAAGGGCCGCCCCAGGCCAACAGAAAUCACCCGGCCUUACCUCUGUCCCCACCCUUACCUUCCCCCACAUACCGCCCCCUGCUUGGGUUCCCACCCCAGCGCUUGCCGCUGCUCCCGCUCCUGUCCCCACAGCCUCCUCCUCCCAUUCUCCAUCACCAGGGAAUGCCCCGGUUCCCACAGGGUCCCCCAGAUGCCUGUUUUUCCUCAGACCAUACUUUCCAGUCGGAUCAAUUCUAUUGCCAUUCAGAUGUCCCCUCAUCAGCCCAUGCAGGUUUCUUCGUCGAAGACAAUUUUAUGGUUGGUCCUCAGCUGCCUAUGCCCUUCUUCCCCACACCCCGUUAUCAGCGGCCUGCCCCAGUGGUACAUAGGGGUUUUGGCAGGUAUCGUCCCCGUGGCCCCUAUACGCCCUGGGGACAGCGGCCUCGACCUUCAAAGAGAAGGGCCCCAGCCAAUCCUGAGCCAAGGCCUCAAUAGACGGm6ACCUAGGCCUUAUUUCCUCUUUAUGAACAUGGAUUGGm6ACAGAUCUGACACUUCCUUUCCAUUGCUUGGCCUGAm6ACAGm6ACUGACCUUGUUAm6ACUUAAGCCUGGAGUCCAUGCCUCGUCUUCCUUUUGUUCAUUGCUGUUACCAAGAAAGCCAAGGAAGAGCAGCCUGACUCAUUCUUCUUGGCUGCAGCCUCUUCCCCACUUCCUGGGAGUGACCCAGCGUUAUUCCUGCCUCCUCACUCCUAUUCUCUUUGCCUUUGUGUAAAAAUAAAAUGGAAAUAAACAAGUUGCACAGAA
Sequence (MODOMICS CODE ENCODING) GGAGUUUCAAGCAGCCGCGGCGGCAGCAGCAGCCCUGGACGCAGCAGCCAAGCUCUUCGCUGGCUCCCGGGGGCUCUCCCGGGUUCCUCUCAUUGCAGGCUGAAGGUAAUGAGAGGCCCUAAGAUCCCAGAGGAUGCCAUAAGAGGAAAAGUCAGGGGAGUGUUGAAGACUCUGCCUCCUACAAAUAUCCGUGAACAUACCACACCAGCAAGAACAAUAAGAGCCAAGGGUCUGAAUUGUUUAAUCAAAGGAAGAGUCAAAAUAAGCUACACCCAGAUUACUGAGAAAGGUGAAAUGAAAACAAGCUCAAAACCAAAUUCCAGGAAGAUGCUGUCUUUGUAUUGACUUACCAUUUCAUGUUUUCACACAUGUCAAAGUCUUGAAGCUUCGGUCAUUAGUCUUCCGCUUCCUAAAGCAAGAAACUAAAUGCUGACUUGUGUCGUUUGCCCCAGAUGCCACCGGAAAUGUCAUCUUCUCCCCAGACGCUGGCUUGCAAGCACAGCAGCACCCAGAGGCUAACCUAUUUCCCCUAUAGCCCAAGCUCUGAGAUCUCCCGUCUGGUCACAAUGAUCUACAGGAGAGGAAGAAAGCUAUCUAGGGACGAGAUCUAGAAUCAACUGAGAGAGAUGCUUAAAAAUCACCAGUUACUUUAAUGACCAUCCGCAGAGCCAUCCUGUGCAAAGGAAGGAGCUAGGCUGUGCGCCCUGGGCGUCAUGAUCCUUCUGCGGGCCUCCGAAGUGCGGCAGCUGCUUCACAAUAAGUUCGUGGUCAUCCUGGGGG2000000006ACUCUGUGCAUAGGGCAGUAUACAAGG2000000006ACCUGGUGCUUCUGCUGCAGAAGGACCGCCUGCUCACUCCCGGGCAGCUUAGAGCAAGGGGGGAGCUGAACUUCGAACAAGAUGAGCUGGUGGACGGAGGCCAGCGGGGCCACAUGCACAACGGCCUUAACUACCGUGAGGUCCGCGAGUUCCGCUCCGACCACCAUCUGGUACGUUUUUACUUCCUCACCCGCGUGUACUCCGAUUACCUCCAGACCAUCUUGAAAGAGCUGCAGUCGGGCGAGCACGCCCCCGACCUGGUCAUCAUGAAUUCCUGCCUCUGGGACAUCUCCAGGUAUGGUCCGAACUCCUGGAGAAGCUACCUGGAGAACCUGGAGAACCUGUUCCAGUGCCUGGGCCAGGUGCUGCCCGAGUCUUGCCUCCUGGUGUGGAACACGGCCAUGCCUGUGGGCGAGGAAGUCACCGGGGGUUUUCUUCCGCCCAAGCUCCGGCGGCAGAAGGCCACCUUCCUGAAAAACGAAGUGGUCAAAGCCAACUUCCACAGCGCCACCGAGGCACGUAAACAUAACUUCGAUGU2000000006ACUGG2000000006ACUUGCAUUUCCACUUCCGCCACGCGAGGGAGAACCUGCACUGGGACGGGGUGCACUGGAAUGG2000000006ACGUGUGCACCGCUGCCUCUCCCAGCUGCUGCUGGCCCACGUGGCCGACGCCUGGGGUGUGGAGCUGCCCCACCGCCACCCCGUGGGCGAGUGGAUCAAGAAGAAAAAACCUGGCCCGAGAGUCGAAGGGCCGCCCCAGGCCAACAGAAAUCACCCGGCCUUACCUCUGUCCCCACCCUUACCUUCCCCCACAUACCGCCCCCUGCUUGGGUUCCCACCCCAGCGCUUGCCGCUGCUCCCGCUCCUGUCCCCACAGCCUCCUCCUCCCAUUCUCCAUCACCAGGGAAUGCCCCGGUUCCCACAGGGUCCCCCAGAUGCCUGUUUUUCCUCAGACCAUACUUUCCAGUCGGAUCAAUUCUAUUGCCAUUCAGAUGUCCCCUCAUCAGCCCAUGCAGGUUUCUUCGUCGAAGACAAUUUUAUGGUUGGUCCUCAGCUGCCUAUGCCCUUCUUCCCCACACCCCGUUAUCAGCGGCCUGCCCCAGUGGUACAUAGGGGUUUUGGCAGGUAUCGUCCCCGUGGCCCCUAUACGCCCUGGGGACAGCGGCCUCGACCUUCAAAGAGAAGGGCCCCAGCCAAUCCUGAGCCAAGGCCUCAAUAGACGG2000000006ACCUAGGCCUUAUUUCCUCUUUAUGAACAUGGAUUGG2000000006ACAGAUCUGACACUUCCUUUCCAUUGCUUGGCCUGA2000000006ACAG2000000006ACUGACCUUGUUA2000000006ACUUAAGCCUGGAGUCCAUGCCUCGUCUUCCUUUUGUUCAUUGCUGUUACCAAGAAAGCCAAGGAAGAGCAGCCUGACUCAUUCUUCUUGGCUGCAGCCUCUUCCCCACUUCCUGGGAGUGACCCAGCGUUAUUCCUGCCUCCUCACUCCUAUUCUCUUUGCCUUUGUGUAAAAAUAAAAUGGAAAUAAACAAGUUGCACAGAA

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 Sequence 781 808 1346 1351 1415 2017 2054 2090 2094 2107
Modification Positions m6A m6A m6A m6A m6A m6A m6A m6A m6A m6A
Genomic Coordinates 12:47235131:+ 12:47235158:+ 12:47235696:+ 12:47235701:+ 12:47235765:+ 12:47236367:+ 12:47236404:+ 12:47236440:+ 12:47236444:+ 12:47236457:+
Level of Experimental Evidence 3 3 3 3 3 3 3 3 3 3
Level of Experimental Reliability 3 3 3 3 3 3 3 3 3 3
Source Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM
EUFIDs 5FhTyQVy2tKW
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
KRfQJWH4K5KH
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
5FhTyQVy2tKW
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
KRfQJWH4K5KH
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
bXBqJigD9oV3
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
5FhTyQVy2tKW
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
KRfQJWH4K5KH
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
5FhTyQVy2tKW
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
KRfQJWH4K5KH
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
6AyXsheySjfx
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
nGifePrmgHfe
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
bXBqJigD9oV3
f6YSioLdAWpr
6AyXsheySjfx
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
nGifePrmgHfe
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
bXBqJigD9oV3
6AyXsheySjfx
6UuHp6YApVKv
Ap2q43bQLNek
gZuvgwMuBfgh
QmcpiJ88DBDn
QpiKdbVikVz2
VL7zkHvkfkoB
bXBqJigD9oV3
f6YSioLdAWpr
5FhTyQVy2tKW
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
KRfQJWH4K5KH
nGifePrmgHfe
QmcpiJ88DBDn
QpiKdbVikVz2
V5PvfiKsgFMd
VL7zkHvkfkoB
WdHxkJGRmFxn
bXBqJigD9oV3
f6YSioLdAWpr
6AyXsheySjfx
bXBqJigD9oV3
f6YSioLdAWpr