Modomics - A Database of RNA Modifications

General Data

RNA Type mRNA
Original Source Sci-ModoM
Transcript ID: ENST00000591470
Gene ID: ENSG00000105607
Gene Name: GCDH
Sequence (UNICHARACTER ENCODING) ЖGUUGCACUGUAGCCUCGGCAGUGAACCGGGAGGUACUACCAGGUAAGGAAGGUGCGGUAGCCCCAGCCGUGGGUGAGAGGAGCUCCGCUCUGACACCCCCGCUCCUGUAGGUCGCCGUCGUUGCUCCGCUCGCUCUGAGAGAGCAUGGCCCUGAGAGGCGUCUCCGUGCGGCUGCUGAGCCGCGGACCCGGCCUGCACGUCCUUCGCACGUGGGUCUCGUCGGCGGCGCAGACCGAGAAAGGCGGGAGAACACAGAGCCAACUGGCUAAGUCCUCGCGUCCCGAGUUUGACUGGCAGGACCCGCUGGUGCUGGAGGAGCAGCUGACCACAGAUGAGAUCCUCAUCAGGGACACCUUCCGCACCUACUGCCAGGAGAGACUCAUGCCUCGCAPCCUGUUGGCCAAUCGCAACGAAGUUUUUCAUCGGGAGAUCAUUUCGGAGAUGGGGGAGUUGGGUGUGCUGGGCCCCACCAUCAAAGGAUAUGGCUGUGCUGGGGUUUCGUCUGUGGCCUAUGGGCUCCUGGCCCGAGAGCUGGAGCGGGUGGACAGUGGCUACAGGUCGGCGAUGAGUGUCCAGUCCUCCCUCGUCAUGCACCCUAUCUAUGCCUAUGGCAGCGAGGAACAGCGGCAGAAGUACCUGCCCCAGCUGGCCAAGGGGGAGCUCCUGGGCUGCUU?GGGCUCACAGAGCCCAACAGCGGAAGUGACCCCAGCAGCAUGGAGACCAGAGCCCACUACAACUCAPCCAACAAGAGCUACACCCUCAAUGGGACCAAGACCUGGAUCACGAЖCUCGCCUAUGGCCGAUCUGUUUGUAGUGUGGGCUCGGUGUGAAGAUGGCUGCAUUCGGGGCUUCCUGCUGGAGAAGGGGAUGCGGGGUCUCUCGGCCCCCAGGAUCCAGGGCAAGUUCUCGCUGCGGGCCUCAGCCACAGGCAUGAUCAUCAUGGACGGUGUGGAGGUGCCAGAGGAGAAUGUGCUCCCUGGUGCAPCCAGCCUGGGGGGUCCCUUCGGCUGCCUGAACAACGCCCGGUACGGCAUCGCGUGGGGCGUGCUUGGAGCUUCGGAGUUCUGCUUGCACACAGCCCGGCAGUACGCCCUCGACAGGAUGCAGUUUGGUGUCCCACUGGCCAGGAACCAGCUGAUUCAGAAGAAGCUGGCAGACAUGCUCACUGAGAUUACCCUGGGCCUUCACGCCUGCCUGCAGCUCGGCCGCUUGAAGGACCAGGACAAGGCUGCCCCCGAGAUGGUUUCUCUGCUGAAGAGGAAUAACUGUGGGAAAGCCCUGGACAUCGCCCGCCAGGCCCGAGACAUGCUGGGGGGGAAUGGGAUUUCUGACGAGUAUCACGUGAUCCGGCACGCCAUGAACCUGGAGGCCGUGAACACCUACGAAGGUACACAUGACAUUCACGCCCUGAUCCUUGGGAGAGCUAUCACGGGAAUCCAGGCGUUCACGGCCAGCAAGUGAGCCGCUCCAUCAGGGGCCCGAAACUCUCAAGCCCCUUUCUGGAGAGAUGCCUGGCUGGЖCCGUAGGAGCGCUGUGCUCUGAGCUUAGAAAGGGAGGUGGCGGAUGGAGUGGGAAGUGAGAGЖCACUGAUUUUUAAAUAUCAAAAUUUCCCUUCUGAAGUCGUUCAGAUGUGUUCCUUAAAAAGAAGAUGGAAUUCUCUGUAGAGCGUCUCAAUCCACUUUUAACCAUGGAUGAGAGCAGЖCUCCAUUUACCCUGAAAUAGCAGCUUCUCUUGAGAGGAGAGUGACAUGGAAGCAACUCCGUCUGCUGCAGCUGACCCCCUCACACUGAGUUCACAGUGCGCCCPCCCUCCCPCCCAUCUGGGGGUAGUGCCUUAUGCUGGGUGUUGGAGCAGAGUGAGGGAGAGG
Sequence (SHORT NAMES ENCODING) m6AGUUGCACUGUAGCCUCGGCAGUGAACCGGGAGGUACUACCAGGUAAGGAAGGUGCGGUAGCCCCAGCCGUGGGUGAGAGGAGCUCCGCUCUGACACCCCCGCUCCUGUAGGUCGCCGUCGUUGCUCCGCUCGCUCUGAGAGAGCAUGGCCCUGAGAGGCGUCUCCGUGCGGCUGCUGAGCCGCGGACCCGGCCUGCACGUCCUUCGCACGUGGGUCUCGUCGGCGGCGCAGACCGAGAAAGGCGGGAGAACACAGAGCCAACUGGCUAAGUCCUCGCGUCCCGAGUUUGACUGGCAGGACCCGCUGGUGCUGGAGGAGCAGCUGACCACAGAUGAGAUCCUCAUCAGGGACACCUUCCGCACCUACUGCCAGGAGAGACUCAUGCCUCGCAYCCUGUUGGCCAAUCGCAACGAAGUUUUUCAUCGGGAGAUCAUUUCGGAGAUGGGGGAGUUGGGUGUGCUGGGCCCCACCAUCAAAGGAUAUGGCUGUGCUGGGGUUUCGUCUGUGGCCUAUGGGCUCCUGGCCCGAGAGCUGGAGCGGGUGGACAGUGGCUACAGGUCGGCGAUGAGUGUCCAGUCCUCCCUCGUCAUGCACCCUAUCUAUGCCUAUGGCAGCGAGGAACAGCGGCAGAAGUACCUGCCCCAGCUGGCCAAGGGGGAGCUCCUGGGCUGCUUm5CGGGCUCACAGAGCCCAACAGCGGAAGUGACCCCAGCAGCAUGGAGACCAGAGCCCACUACAACUCAYCCAACAAGAGCUACACCCUCAAUGGGACCAAGACCUGGAUCACGAm6ACUCGCCUAUGGCCGAUCUGUUUGUAGUGUGGGCUCGGUGUGAAGAUGGCUGCAUUCGGGGCUUCCUGCUGGAGAAGGGGAUGCGGGGUCUCUCGGCCCCCAGGAUCCAGGGCAAGUUCUCGCUGCGGGCCUCAGCCACAGGCAUGAUCAUCAUGGACGGUGUGGAGGUGCCAGAGGAGAAUGUGCUCCCUGGUGCAYCCAGCCUGGGGGGUCCCUUCGGCUGCCUGAACAACGCCCGGUACGGCAUCGCGUGGGGCGUGCUUGGAGCUUCGGAGUUCUGCUUGCACACAGCCCGGCAGUACGCCCUCGACAGGAUGCAGUUUGGUGUCCCACUGGCCAGGAACCAGCUGAUUCAGAAGAAGCUGGCAGACAUGCUCACUGAGAUUACCCUGGGCCUUCACGCCUGCCUGCAGCUCGGCCGCUUGAAGGACCAGGACAAGGCUGCCCCCGAGAUGGUUUCUCUGCUGAAGAGGAAUAACUGUGGGAAAGCCCUGGACAUCGCCCGCCAGGCCCGAGACAUGCUGGGGGGGAAUGGGAUUUCUGACGAGUAUCACGUGAUCCGGCACGCCAUGAACCUGGAGGCCGUGAACACCUACGAAGGUACACAUGACAUUCACGCCCUGAUCCUUGGGAGAGCUAUCACGGGAAUCCAGGCGUUCACGGCCAGCAAGUGAGCCGCUCCAUCAGGGGCCCGAAACUCUCAAGCCCCUUUCUGGAGAGAUGCCUGGCUGGm6ACCGUAGGAGCGCUGUGCUCUGAGCUUAGAAAGGGAGGUGGCGGAUGGAGUGGGAAGUGAGAGm6ACACUGAUUUUUAAAUAUCAAAAUUUCCCUUCUGAAGUCGUUCAGAUGUGUUCCUUAAAAAGAAGAUGGAAUUCUCUGUAGAGCGUCUCAAUCCACUUUUAACCAUGGAUGAGAGCAGm6ACUCCAUUUACCCUGAAAUAGCAGCUUCUCUUGAGAGGAGAGUGACAUGGAAGCAACUCCGUCUGCUGCAGCUGACCCCCUCACACUGAGUUCACAGUGCGCCCYCCCUCCCYCCCAUCUGGGGGUAGUGCCUUAUGCUGGGUGUUGGAGCAGAGUGAGGGAGAGG
Sequence (MODOMICS CODE ENCODING) 2000000006AGUUGCACUGUAGCCUCGGCAGUGAACCGGGAGGUACUACCAGGUAAGGAAGGUGCGGUAGCCCCAGCCGUGGGUGAGAGGAGCUCCGCUCUGACACCCCCGCUCCUGUAGGUCGCCGUCGUUGCUCCGCUCGCUCUGAGAGAGCAUGGCCCUGAGAGGCGUCUCCGUGCGGCUGCUGAGCCGCGGACCCGGCCUGCACGUCCUUCGCACGUGGGUCUCGUCGGCGGCGCAGACCGAGAAAGGCGGGAGAACACAGAGCCAACUGGCUAAGUCCUCGCGUCCCGAGUUUGACUGGCAGGACCCGCUGGUGCUGGAGGAGCAGCUGACCACAGAUGAGAUCCUCAUCAGGGACACCUUCCGCACCUACUGCCAGGAGAGACUCAUGCCUCGCA2000000009UCCUGUUGGCCAAUCGCAACGAAGUUUUUCAUCGGGAGAUCAUUUCGGAGAUGGGGGAGUUGGGUGUGCUGGGCCCCACCAUCAAAGGAUAUGGCUGUGCUGGGGUUUCGUCUGUGGCCUAUGGGCUCCUGGCCCGAGAGCUGGAGCGGGUGGACAGUGGCUACAGGUCGGCGAUGAGUGUCCAGUCCUCCCUCGUCAUGCACCCUAUCUAUGCCUAUGGCAGCGAGGAACAGCGGCAGAAGUACCUGCCCCAGCUGGCCAAGGGGGAGCUCCUGGGCUGCUU2000000005CGGGCUCACAGAGCCCAACAGCGGAAGUGACCCCAGCAGCAUGGAGACCAGAGCCCACUACAACUCA2000000009UCCAACAAGAGCUACACCCUCAAUGGGACCAAGACCUGGAUCACGA2000000006ACUCGCCUAUGGCCGAUCUGUUUGUAGUGUGGGCUCGGUGUGAAGAUGGCUGCAUUCGGGGCUUCCUGCUGGAGAAGGGGAUGCGGGGUCUCUCGGCCCCCAGGAUCCAGGGCAAGUUCUCGCUGCGGGCCUCAGCCACAGGCAUGAUCAUCAUGGACGGUGUGGAGGUGCCAGAGGAGAAUGUGCUCCCUGGUGCA2000000009UCCAGCCUGGGGGGUCCCUUCGGCUGCCUGAACAACGCCCGGUACGGCAUCGCGUGGGGCGUGCUUGGAGCUUCGGAGUUCUGCUUGCACACAGCCCGGCAGUACGCCCUCGACAGGAUGCAGUUUGGUGUCCCACUGGCCAGGAACCAGCUGAUUCAGAAGAAGCUGGCAGACAUGCUCACUGAGAUUACCCUGGGCCUUCACGCCUGCCUGCAGCUCGGCCGCUUGAAGGACCAGGACAAGGCUGCCCCCGAGAUGGUUUCUCUGCUGAAGAGGAAUAACUGUGGGAAAGCCCUGGACAUCGCCCGCCAGGCCCGAGACAUGCUGGGGGGGAAUGGGAUUUCUGACGAGUAUCACGUGAUCCGGCACGCCAUGAACCUGGAGGCCGUGAACACCUACGAAGGUACACAUGACAUUCACGCCCUGAUCCUUGGGAGAGCUAUCACGGGAAUCCAGGCGUUCACGGCCAGCAAGUGAGCCGCUCCAUCAGGGGCCCGAAACUCUCAAGCCCCUUUCUGGAGAGAUGCCUGGCUGG2000000006ACCGUAGGAGCGCUGUGCUCUGAGCUUAGAAAGGGAGGUGGCGGAUGGAGUGGGAAGUGAGAG2000000006ACACUGAUUUUUAAAUAUCAAAAUUUCCCUUCUGAAGUCGUUCAGAUGUGUUCCUUAAAAAGAAGAUGGAAUUCUCUGUAGAGCGUCUCAAUCCACUUUUAACCAUGGAUGAGAGCAG2000000006ACUCCAUUUACCCUGAAAUAGCAGCUUCUCUUGAGAGGAGAGUGACAUGGAAGCAACUCCGUCUGCUGCAGCUGACCCCCUCACACUGAGUUCACAGUGCGCCC2000000009UCCCUCCC2000000009UCCCAUCUGGGGGUAGUGCCUUAUGCUGGGUGUUGGAGCAGAGUGAGGGAGAGG

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 1 393 676 743 789 986 1521 1584 1702 1806 1814
Modification Positions m6A Y m5C Y m6A Y m6A m6A m6A Y Y
Genomic Coordinates 19:12891160:+ 19:12891951:+ 19:12896017:+ 19:12896084:+ 19:12896213:+ 19:12896410:+ 19:12899600:+ 19:12899663:+ 19:12899781:+ 19:12899885:+ 19:12899893:+
Level of Experimental Evidence 3 3 3 3 3 3 3 3 3 3 3
Level of Experimental Reliability 3 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 Sci-ModoM
EUFIDs 5FhTyQVy2tKW
5Nnepx5V7yHo
6UuHp6YApVKv
aHkqKEJkRYyb
jNkxUQNx8GRd
KRfQJWH4K5KH
msuJfBpJvM5H
nGifePrmgHfe
QmcpiJ88DBDn
V5PvfiKsgFMd
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
BtsJQJ3DteUq
dknfVe6BK8aP
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
4RW3xrzJ5VQa
Er3yHVFp6tX8
JBTYPMm6qNsy
KyXZuxKVckYS
4Hod8ruppnD2
5tjPWDS39J3i
9De2LACts9mj
BnpqjwVeTStU
bvmqLAbo2zqf
mNhhJTdKpjtR
BtsJQJ3DteUq
dknfVe6BK8aP
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
dknfVe6BK8aP
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
dknfVe6BK8aP
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
3TeAZFYFxgvp
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
msuJfBpJvM5H
nGifePrmgHfe
NjZ8bGGJsNSR
Q36pf44ZRvxu
QmcpiJ88DBDn
QpiKdbVikVz2
UN3tNpbCPHYf
V5PvfiKsgFMd
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
ArijeGVTwYBw
Lny8GcCeVGc9
BtsJQJ3DteUq
dknfVe6BK8aP
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
JkWoGWVwjNda
a7o5Kmjr4Tdp
Yfn77uLS5tv8
jNkxUQNx8GRd
VL7zkHvkfkoB
WdHxkJGRmFxn
aJksAshEgQ8U
Lny8GcCeVGc9
BtsJQJ3DteUq
dknfVe6BK8aP
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
JkWoGWVwjNda
a7o5Kmjr4Tdp
Yfn77uLS5tv8
3TeAZFYFxgvp
6AyXsheySjfx
6UuHp6YApVKv
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
msuJfBpJvM5H
nGifePrmgHfe
NjZ8bGGJsNSR
Q36pf44ZRvxu
QmcpiJ88DBDn
QpiKdbVikVz2
UN3tNpbCPHYf
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
BsCW7emuRX7M
Lny8GcCeVGc9
BtsJQJ3DteUq
dknfVe6BK8aP
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
JkWoGWVwjNda
Yfn77uLS5tv8
BtsJQJ3DteUq
dknfVe6BK8aP
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
JkWoGWVwjNda
Yfn77uLS5tv8
BtsJQJ3DteUq
dknfVe6BK8aP
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
JkWoGWVwjNda
a7o5Kmjr4Tdp
Yfn77uLS5tv8