Modomics - A Database of RNA Modifications

General Data

RNA Type mRNA
Original Source Sci-ModoM
Transcript ID: ENST00000441461
Gene ID: ENSG00000213639
Gene Name: PPP1CB
Sequence (UNICHARACTER ENCODING) GCGCGGAGAGCUGCGUGACGCGGCGGCGCGCAAGGGACGUGCGGAGUGAGUGGCGCUGCGGGUGGGGCCGUCGGCGGCGCUGGUGAGAGAACGCCGAGCCGUCGCCGCAGCCUCCGCCGCCGAGAAGCCCUUGUUCCCGCUGCUGGGAAGGAGAGUCUGUGCCGACAAGAUGGCGGACGGGGAGCUGAACGUGGACAGCCUCAUCACCCGGCUGCUGGAGGUACGAGGAUGUCGUCCAGGAAAGAUUGUGCAGAUGACUGAAGCAGAAGUUCGAGGCUUAUGUAUCAAGUCUCGGGAGAUCUUUCUCAGCCAGCCUAUUCUUUUGGAAUUGGAAGCACCGCUGAAAAUUUGUGGAGAUAUUCAUGGACAAUAUACЖGAUUUACUGAGAUUAUUUGAAUAUGGAGGUUUCCCACCAGAAGCCAACUAUCUUUUCUUAGGAGAUUAUGUGGACAGAGGAAAGCAGUCUUUGGAAACCAUUUGUUUGCUAUUGGCUUAUAAAAUCAAAUAUCCAGAGAACUUCUUUCUCUUAAGAGGAAACCAUGAGUGUGCUAGCAUCAAUCGCAUUUAUGGAUUCUAUGAUGAAUGCAAACGAAGAUUUAAUAUUAAAUUGUGGAAGACCUUCACUGAUUGUUUUAACUGUCUGCCUAUAGCAGCCAUUGUGGAUGAGAAGAUCUUCUGUUGUCAUGGAGGAUUGUCACCAGACCUGCAAUCUAUGGAGCAGAUUCGGAGAAUUAUGAGACCUACUGAUGUCCCUGAUACAGGUUUGCUCUGUGAUUUGCUAUGGUCUGAUCCAGAUAAGGAUGUGCAAGGCUGGGGAGAAAAUGAUCGUGGUGUUUCCUPUACUUUUGGAGCUGAUGUAGUCAGUAAAUUUCUGAAUCGUCAUGAUUUAGAUUUGAUUUGUCGAGCUCAUCAGGUGGUGGAAGAUGGAUAUGAAUUUUUUGCUAAACGACAGUUGGUAACCUUAUUUUCAGCCCCAAAUUACUGUGGCGAGUUUGAUAAUGCUGGUGGAAUGAUGAGUGUGGAUGAAACUUUGAUGUGUUCAUUUCAGAUAUUGAAACCAUCUGAAAAGAAAGCUAAAUACCAGUAUGGUGGACUGAAUUCUGGACGUCCUGUCACUCCACCUCGAЖCAGCUAAUCCGCCGAAGAAAAGGUGAAGAAAGGAAUUCUGUAAAGAAACCAUCAGAUUUGUUAAGGЖCAUACUUCAUAAUAUAUAAGUGUGCACUGUAAAACCAUCCAGCCAUUUGACACCCUPUAUGAUGUCACACCUPUAЖCUUAAGGAGACGGGUAAAGGAUCUUAAAUUUUUUUCUAAUAGAAAGAUGUGCUACACUGUAUUGUAAUAAGUAUACUCUGUUAUAGUCAACAAAGUUAAAUCCAAAUUCAAAAUUAUCCAUUAAAGUUACAUCUUCAUGUAUCACAAUUUUUAAAGUUGAAAAGCAUCCCAGUUAAACUAGAUGUGAUAGUUAAACCAGAUGAAAGCAUGAUGAUCCAUCUGUGUAAUGUGGUUUUAGUGUUGCUUGGUUGUUUAAUUAUUUUGAGCUUGUUUUGUUUUUGUUUGUUUUCACUAGAAUAAUGGCAAAUACUUCUAAUUUUUUUCCCUAAACAUUUUUAAAAGUGAAAUAUGGGAAGAGCUPUACЖGACAUUCACCAACUAUUAUUUUCCCUUGUUUAUCUACUUAGAUAUCUGUUUAAUCUUACUAAGAAAACUUUCGCCUCAUUACAUUAAAAAGGAAUUUUAGAGAUUGAUUGUUUUAAAAAAAAAUACGCACAUUGUCCAAUCCAGUGAUUUUAAUCAUACAGUUUGACUGGGCAAACUPUACAGCUGAUAGUGAAUAUUUUGCUPUAUACAGGAAUUGACACUGAUUUGGAUUUGUGCACUCUAAUUUUUAЖCUUAUUGAUGCUCUAUUGUGCAGUAGCAUUUCAUUUAAGAUAAGGCUCAUAUAGUAUUACCCAACUAGUUGGUAAUGUGAUUAUGUGGUACCUUGGCUPUAGGUUUUCAUUCGCACGGAACACCUUUUGGCAUGCUUAЖCUUCCUGGJAЖCACCUUCACCUGCAUUGGUUUUCUUU
Sequence (SHORT NAMES ENCODING) GCGCGGAGAGCUGCGUGACGCGGCGGCGCGCAAGGGACGUGCGGAGUGAGUGGCGCUGCGGGUGGGGCCGUCGGCGGCGCUGGUGAGAGAACGCCGAGCCGUCGCCGCAGCCUCCGCCGCCGAGAAGCCCUUGUUCCCGCUGCUGGGAAGGAGAGUCUGUGCCGACAAGAUGGCGGACGGGGAGCUGAACGUGGACAGCCUCAUCACCCGGCUGCUGGAGGUACGAGGAUGUCGUCCAGGAAAGAUUGUGCAGAUGACUGAAGCAGAAGUUCGAGGCUUAUGUAUCAAGUCUCGGGAGAUCUUUCUCAGCCAGCCUAUUCUUUUGGAAUUGGAAGCACCGCUGAAAAUUUGUGGAGAUAUUCAUGGACAAUAUACm6AGAUUUACUGAGAUUAUUUGAAUAUGGAGGUUUCCCACCAGAAGCCAACUAUCUUUUCUUAGGAGAUUAUGUGGACAGAGGAAAGCAGUCUUUGGAAACCAUUUGUUUGCUAUUGGCUUAUAAAAUCAAAUAUCCAGAGAACUUCUUUCUCUUAAGAGGAAACCAUGAGUGUGCUAGCAUCAAUCGCAUUUAUGGAUUCUAUGAUGAAUGCAAACGAAGAUUUAAUAUUAAAUUGUGGAAGACCUUCACUGAUUGUUUUAACUGUCUGCCUAUAGCAGCCAUUGUGGAUGAGAAGAUCUUCUGUUGUCAUGGAGGAUUGUCACCAGACCUGCAAUCUAUGGAGCAGAUUCGGAGAAUUAUGAGACCUACUGAUGUCCCUGAUACAGGUUUGCUCUGUGAUUUGCUAUGGUCUGAUCCAGAUAAGGAUGUGCAAGGCUGGGGAGAAAAUGAUCGUGGUGUUUCCUYUACUUUUGGAGCUGAUGUAGUCAGUAAAUUUCUGAAUCGUCAUGAUUUAGAUUUGAUUUGUCGAGCUCAUCAGGUGGUGGAAGAUGGAUAUGAAUUUUUUGCUAAACGACAGUUGGUAACCUUAUUUUCAGCCCCAAAUUACUGUGGCGAGUUUGAUAAUGCUGGUGGAAUGAUGAGUGUGGAUGAAACUUUGAUGUGUUCAUUUCAGAUAUUGAAACCAUCUGAAAAGAAAGCUAAAUACCAGUAUGGUGGACUGAAUUCUGGACGUCCUGUCACUCCACCUCGAm6ACAGCUAAUCCGCCGAAGAAAAGGUGAAGAAAGGAAUUCUGUAAAGAAACCAUCAGAUUUGUUAAGGm6ACAUACUUCAUAAUAUAUAAGUGUGCACUGUAAAACCAUCCAGCCAUUUGACACCCUYUAUGAUGUCACACCUYUAm6ACUUAAGGAGACGGGUAAAGGAUCUUAAAUUUUUUUCUAAUAGAAAGAUGUGCUACACUGUAUUGUAAUAAGUAUACUCUGUUAUAGUCAACAAAGUUAAAUCCAAAUUCAAAAUUAUCCAUUAAAGUUACAUCUUCAUGUAUCACAAUUUUUAAAGUUGAAAAGCAUCCCAGUUAAACUAGAUGUGAUAGUUAAACCAGAUGAAAGCAUGAUGAUCCAUCUGUGUAAUGUGGUUUUAGUGUUGCUUGGUUGUUUAAUUAUUUUGAGCUUGUUUUGUUUUUGUUUGUUUUCACUAGAAUAAUGGCAAAUACUUCUAAUUUUUUUCCCUAAACAUUUUUAAAAGUGAAAUAUGGGAAGAGCUYUACm6AGACAUUCACCAACUAUUAUUUUCCCUUGUUUAUCUACUUAGAUAUCUGUUUAAUCUUACUAAGAAAACUUUCGCCUCAUUACAUUAAAAAGGAAUUUUAGAGAUUGAUUGUUUUAAAAAAAAAUACGCACAUUGUCCAAUCCAGUGAUUUUAAUCAUACAGUUUGACUGGGCAAACUYUACAGCUGAUAGUGAAUAUUUUGCUYUAUACAGGAAUUGACACUGAUUUGGAUUUGUGCACUCUAAUUUUUAm6ACUUAUUGAUGCUCUAUUGUGCAGUAGCAUUUCAUUUAAGAUAAGGCUCAUAUAGUAUUACCCAACUAGUUGGUAAUGUGAUUAUGUGGUACCUUGGCUYUAGGUUUUCAUUCGCACGGAACACCUUUUGGCAUGCUUAm6ACUUCCUGGUmAm6ACACCUUCACCUGCAUUGGUUUUCUUU
Sequence (MODOMICS CODE ENCODING) GCGCGGAGAGCUGCGUGACGCGGCGGCGCGCAAGGGACGUGCGGAGUGAGUGGCGCUGCGGGUGGGGCCGUCGGCGGCGCUGGUGAGAGAACGCCGAGCCGUCGCCGCAGCCUCCGCCGCCGAGAAGCCCUUGUUCCCGCUGCUGGGAAGGAGAGUCUGUGCCGACAAGAUGGCGGACGGGGAGCUGAACGUGGACAGCCUCAUCACCCGGCUGCUGGAGGUACGAGGAUGUCGUCCAGGAAAGAUUGUGCAGAUGACUGAAGCAGAAGUUCGAGGCUUAUGUAUCAAGUCUCGGGAGAUCUUUCUCAGCCAGCCUAUUCUUUUGGAAUUGGAAGCACCGCUGAAAAUUUGUGGAGAUAUUCAUGGACAAUAUAC2000000006AGAUUUACUGAGAUUAUUUGAAUAUGGAGGUUUCCCACCAGAAGCCAACUAUCUUUUCUUAGGAGAUUAUGUGGACAGAGGAAAGCAGUCUUUGGAAACCAUUUGUUUGCUAUUGGCUUAUAAAAUCAAAUAUCCAGAGAACUUCUUUCUCUUAAGAGGAAACCAUGAGUGUGCUAGCAUCAAUCGCAUUUAUGGAUUCUAUGAUGAAUGCAAACGAAGAUUUAAUAUUAAAUUGUGGAAGACCUUCACUGAUUGUUUUAACUGUCUGCCUAUAGCAGCCAUUGUGGAUGAGAAGAUCUUCUGUUGUCAUGGAGGAUUGUCACCAGACCUGCAAUCUAUGGAGCAGAUUCGGAGAAUUAUGAGACCUACUGAUGUCCCUGAUACAGGUUUGCUCUGUGAUUUGCUAUGGUCUGAUCCAGAUAAGGAUGUGCAAGGCUGGGGAGAAAAUGAUCGUGGUGUUUCCU2000000009UUACUUUUGGAGCUGAUGUAGUCAGUAAAUUUCUGAAUCGUCAUGAUUUAGAUUUGAUUUGUCGAGCUCAUCAGGUGGUGGAAGAUGGAUAUGAAUUUUUUGCUAAACGACAGUUGGUAACCUUAUUUUCAGCCCCAAAUUACUGUGGCGAGUUUGAUAAUGCUGGUGGAAUGAUGAGUGUGGAUGAAACUUUGAUGUGUUCAUUUCAGAUAUUGAAACCAUCUGAAAAGAAAGCUAAAUACCAGUAUGGUGGACUGAAUUCUGGACGUCCUGUCACUCCACCUCGA2000000006ACAGCUAAUCCGCCGAAGAAAAGGUGAAGAAAGGAAUUCUGUAAAGAAACCAUCAGAUUUGUUAAGG2000000006ACAUACUUCAUAAUAUAUAAGUGUGCACUGUAAAACCAUCCAGCCAUUUGACACCCU2000000009UUAUGAUGUCACACCU2000000009UUA2000000006ACUUAAGGAGACGGGUAAAGGAUCUUAAAUUUUUUUCUAAUAGAAAGAUGUGCUACACUGUAUUGUAAUAAGUAUACUCUGUUAUAGUCAACAAAGUUAAAUCCAAAUUCAAAAUUAUCCAUUAAAGUUACAUCUUCAUGUAUCACAAUUUUUAAAGUUGAAAAGCAUCCCAGUUAAACUAGAUGUGAUAGUUAAACCAGAUGAAAGCAUGAUGAUCCAUCUGUGUAAUGUGGUUUUAGUGUUGCUUGGUUGUUUAAUUAUUUUGAGCUUGUUUUGUUUUUGUUUGUUUUCACUAGAAUAAUGGCAAAUACUUCUAAUUUUUUUCCCUAAACAUUUUUAAAAGUGAAAUAUGGGAAGAGCU2000000009UUAC2000000006AGACAUUCACCAACUAUUAUUUUCCCUUGUUUAUCUACUUAGAUAUCUGUUUAAUCUUACUAAGAAAACUUUCGCCUCAUUACAUUAAAAAGGAAUUUUAGAGAUUGAUUGUUUUAAAAAAAAAUACGCACAUUGUCCAAUCCAGUGAUUUUAAUCAUACAGUUUGACUGGGCAAACU2000000009UUACAGCUGAUAGUGAAUAUUUUGCU2000000009UUAUACAGGAAUUGACACUGAUUUGGAUUUGUGCACUCUAAUUUUUA2000000006ACUUAUUGAUGCUCUAUUGUGCAGUAGCAUUUCAUUUAAGAUAAGGCUCAUAUAGUAUUACCCAACUAGUUGGUAAUGUGAUUAUGUGGUACCUUGGCU2000000009UUAGGUUUUCAUUCGCACGGAACACCUUUUGGCAUGCUUA2000000006ACUUCCUGG2000000090UA2000000006ACACCUUCACCUGCAUUGGUUUUCUUU

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 376 840 1127 1194 1251 1267 1270 1631 1635 1813 1839 1886 1985 2025 2025 2034 2036
Modification Positions m6A Y m6A m6A Y Y m6A Y m6A Y Y m6A Y Am m6A Um m6A
Genomic Coordinates 2:28778831:+ 2:28788736:+ 2:28799277:+ 2:28799344:+ 2:28799401:+ 2:28799417:+ 2:28799420:+ 2:28799781:+ 2:28799785:+ 2:28799963:+ 2:28799989:+ 2:28800036:+ 2:28800135:+ None 2:28800175:+ 2:28800184:+ 2:28800186:+
Level of Experimental Evidence 3 3 3 3 3 3 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 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 Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM Sci-ModoM
EUFIDs 3kRDPWwiRCgi
L6w2k2VEv4EY
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
WiQcrNTGZHPT
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
3TeAZFYFxgvp
4HMi5ykupT9V
5aTkEfEpX8Xm
6AyXsheySjfx
6UuHp6YApVKv
Ap2q43bQLNek
jNkxUQNx8GRd
msuJfBpJvM5H
NjZ8bGGJsNSR
Q36pf44ZRvxu
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
aJksAshEgQ8U
D6ncpa2PPWj3
8cMbzB4aD5Se
93arJtwJmuS9
BkoLW2CBToyL
KTLz8piFYdwC
BsCW7emuRX7M
KENzb7mwdBd9
KjeH7Nsffuas
Lny8GcCeVGc9
LZJKems7W2wi
PF5iqBNSbHaa
UKen6WEino9G
XUkp6ghERQML
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
Yfn77uLS5tv8
3kRDPWwiRCgi
L6w2k2VEv4EY
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
f6YSioLdAWpr
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
f6YSioLdAWpr
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
f6YSioLdAWpr
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
f6YSioLdAWpr
S9vNeQQYrhac
Yfn77uLS5tv8
jaSvBXBkn3xs
YkSG92k4EHDM
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
f6YSioLdAWpr
S9vNeQQYrhac
Yfn77uLS5tv8