Modomics - A Database of RNA Modifications

General Data

RNA Type mRNA
Original Source Sci-ModoM
Transcript ID: ENST00000418458
Gene ID: ENSG00000163938
Gene Name: GNL3
Sequence (UNICHARACTER ENCODING) ЖGUUCACACGUGGCGCCAGCGGAGGCAGGUUGAUGUGUUUGUGCUUCCUUCUACAGCCAAUAUGAAAAGGCCUAAGUUAAAGAAAGCAAGUAAACGCAUGЖCCUGCCAPAAGCGGUAUAAAAUCCAAAAAAAGGUUCGAGAACAUCAUCGAAAAUUAAGAAAGGAGGCUAAAAAGCGGGGUCACAAGAAGCCUAGGAAAGACCCAGGAGUUCCAAЖCAGUGCUCCCUPUAAGGAGGCUCUUCUUAGGGAAGCUGAGCUAAGGAAЖCAGAGGCUUGAAGAACUAAAЖCAGCAGCAGAAACUUGACAGGCAGAAGGAACUAGAAAAGAAAAGAAAACUUGAAACUAAUCCUGAUAUUAAGCCAUCAAAUGUGGAACCUAUGGAAAAGGAGUUUGGGCUUUGCAAAACUGAGAACAAAGCCAAGUCGGGCAAЖCAGAAUUCAAAGAAGCUGUACUGCCAAGAACUUAAAAAGGUGAUUGAAGCCUCCGAUGUUGUCCUAGAGGUGUUGGAUGCCAGAGAUCCUCUUGGUUGCAGAUGUCCUCAGGUAGAAGAGGCCAUUGUCCAGAGUGGACAGAAAAAGCUGGUACUUAUAUUAAAUAAAUCAGAUCUGGUACCAAAGGAGAAUUUGGAGAGCUGGCUAAAUUAUUUGAAGAAAGAAUUGCCAACAGUGGUGUUCAGAGCCUCAACAAAACCAAAGGAUAAAGGGAAGAUAACCAAGCGUGUGAAGGCAAAGAAGAAUGCUGCUCCAUUCAGAAGUGAAGUCUGCUUUGGGAAAGAGGGCCUUUGGAAACUUCUUGGAGGUUUUCAGGAAACUUGCAGCAAAGCCAUUCGGGUUGGAGUAAUUGGUUUCCCAAAUGUGGGGAAAAGCAGCAUUAUCAAUAGCUUAAAACAAGAACAGAUGUGUAAUGUUGGUGUAUCCAUGGGGCUUACЖAGGAGCAUGCAAGUUGUCCCCUUGGACAAACAGAUCACAAUCAUAGAUAGUCCGAGCUUCAUCGUAUCUCCACUUAAUUCCUCCUCUGCGCUUGCUCUGCGAAGUCCAGCAAGUAUUGAAGUAGUAAAACCGAUGGAGGCUGCCAGUGCCAPCCUUUCCCAGGCUGAUGCUCGACAGGUAGUACUGAAAUAUACUGUCCCAGGCUACAGGAAUUCUCUGGAAUUUUUUACUGUGCUUGCUCAGAGAAGAGGUAUGCACCAAAAAGGUGGAAUCCCAAAUGUUGAAGGUGCUGCCAAACUGCUGUGGUCUGAGUGGACAGGUGCCUCAUUAGCUUACUAUUGCCAUCCCCCUACAUCUUGGACUCCUCCUCCAUAUUUUAAUGAGAGUAUUGUGGUAGACAUGAAAAGCGGCUUCAAUCUGGAAGAACUGGAAAAGAACAAUGCACAGAGCAPAAGAGCCAUCAAGGGCCCUCAUUUGGCCAAUAGCAUCCUUUUCCAGUCUUCCGGUCUGACAAAUGGAAUAAUAGAAGAAAAGGACAUACЖUGAAGAAUUGCCAAAACGGAAAGAAAGGAAGCAGGAGGAGAGGGAGGAUGACAAAGACAGUGACCAGGAAACUGUUGAUGAAGAAGUUGAUGAAAACAGCUCAGGCAUGUUUGCUGCAGAAGAGACAGGGGAGGCACUGUCUGAGGAGACUACAGCAGGUGAЖCAGUCUACAAGGUCUUUUAUCUUGGAUAAAAUCAUUGAAGAGGAUGAUGCUUAUGACUUCAGUACЖGAUUAUGUGUAЖCAGAACAAUGGCUUUUUAUGAUUUUUUUUUUAЖCAUUUUAAGCAGЖCUGCUAAACUGUUCUCUGUAUAAGUUAUGGUAUGCAUGAGCUGUGUAAAUUUUGUGAAUAUGUAUUAUAUUAAAACCAGGCAACUUGGAAUCCCUAAAUUCUGUAAAAAGACAAUUCAUCUCAUUGUGAGUGGAAGUAGUUAUCUGGAAUAAAAAAAGAAGAUACCUAUUGAAAAA
Sequence (SHORT NAMES ENCODING) m6AGUUCACACGUGGCGCCAGCGGAGGCAGGUUGAUGUGUUUGUGCUUCCUUCUACAGCCAAUAUGAAAAGGCCUAAGUUAAAGAAAGCAAGUAAACGCAUGm6ACCUGCCAYAAGCGGUAUAAAAUCCAAAAAAAGGUUCGAGAACAUCAUCGAAAAUUAAGAAAGGAGGCUAAAAAGCGGGGUCACAAGAAGCCUAGGAAAGACCCAGGAGUUCCAAm6ACAGUGCUCCCUYUAAGGAGGCUCUUCUUAGGGAAGCUGAGCUAAGGAAm6ACAGAGGCUUGAAGAACUAAAm6ACAGCAGCAGAAACUUGACAGGCAGAAGGAACUAGAAAAGAAAAGAAAACUUGAAACUAAUCCUGAUAUUAAGCCAUCAAAUGUGGAACCUAUGGAAAAGGAGUUUGGGCUUUGCAAAACUGAGAACAAAGCCAAGUCGGGCAAm6ACAGAAUUCAAAGAAGCUGUACUGCCAAGAACUUAAAAAGGUGAUUGAAGCCUCCGAUGUUGUCCUAGAGGUGUUGGAUGCCAGAGAUCCUCUUGGUUGCAGAUGUCCUCAGGUAGAAGAGGCCAUUGUCCAGAGUGGACAGAAAAAGCUGGUACUUAUAUUAAAUAAAUCAGAUCUGGUACCAAAGGAGAAUUUGGAGAGCUGGCUAAAUUAUUUGAAGAAAGAAUUGCCAACAGUGGUGUUCAGAGCCUCAACAAAACCAAAGGAUAAAGGGAAGAUAACCAAGCGUGUGAAGGCAAAGAAGAAUGCUGCUCCAUUCAGAAGUGAAGUCUGCUUUGGGAAAGAGGGCCUUUGGAAACUUCUUGGAGGUUUUCAGGAAACUUGCAGCAAAGCCAUUCGGGUUGGAGUAAUUGGUUUCCCAAAUGUGGGGAAAAGCAGCAUUAUCAAUAGCUUAAAACAAGAACAGAUGUGUAAUGUUGGUGUAUCCAUGGGGCUUACm6AAGGAGCAUGCAAGUUGUCCCCUUGGACAAACAGAUCACAAUCAUAGAUAGUCCGAGCUUCAUCGUAUCUCCACUUAAUUCCUCCUCUGCGCUUGCUCUGCGAAGUCCAGCAAGUAUUGAAGUAGUAAAACCGAUGGAGGCUGCCAGUGCCAYCCUUUCCCAGGCUGAUGCUCGACAGGUAGUACUGAAAUAUACUGUCCCAGGCUACAGGAAUUCUCUGGAAUUUUUUACUGUGCUUGCUCAGAGAAGAGGUAUGCACCAAAAAGGUGGAAUCCCAAAUGUUGAAGGUGCUGCCAAACUGCUGUGGUCUGAGUGGACAGGUGCCUCAUUAGCUUACUAUUGCCAUCCCCCUACAUCUUGGACUCCUCCUCCAUAUUUUAAUGAGAGUAUUGUGGUAGACAUGAAAAGCGGCUUCAAUCUGGAAGAACUGGAAAAGAACAAUGCACAGAGCAYAAGAGCCAUCAAGGGCCCUCAUUUGGCCAAUAGCAUCCUUUUCCAGUCUUCCGGUCUGACAAAUGGAAUAAUAGAAGAAAAGGACAUACm6AUGAAGAAUUGCCAAAACGGAAAGAAAGGAAGCAGGAGGAGAGGGAGGAUGACAAAGACAGUGACCAGGAAACUGUUGAUGAAGAAGUUGAUGAAAACAGCUCAGGCAUGUUUGCUGCAGAAGAGACAGGGGAGGCACUGUCUGAGGAGACUACAGCAGGUGAm6ACAGUCUACAAGGUCUUUUAUCUUGGAUAAAAUCAUUGAAGAGGAUGAUGCUUAUGACUUCAGUACm6AGAUUAUGUGUAm6ACAGAACAAUGGCUUUUUAUGAUUUUUUUUUUAm6ACAUUUUAAGCAGm6ACUGCUAAACUGUUCUCUGUAUAAGUUAUGGUAUGCAUGAGCUGUGUAAAUUUUGUGAAUAUGUAUUAUAUUAAAACCAGGCAACUUGGAAUCCCUAAAUUCUGUAAAAAGACAAUUCAUCUCAUUGUGAGUGGAAGUAGUUAUCUGGAAUAAAAAAAGAAGAUACCUAUUGAAAAA
Sequence (MODOMICS CODE ENCODING) 2000000006AGUUCACACGUGGCGCCAGCGGAGGCAGGUUGAUGUGUUUGUGCUUCCUUCUACAGCCAAUAUGAAAAGGCCUAAGUUAAAGAAAGCAAGUAAACGCAUG2000000006ACCUGCCA2000000009UAAGCGGUAUAAAAUCCAAAAAAAGGUUCGAGAACAUCAUCGAAAAUUAAGAAAGGAGGCUAAAAAGCGGGGUCACAAGAAGCCUAGGAAAGACCCAGGAGUUCCAA2000000006ACAGUGCUCCCU2000000009UUAAGGAGGCUCUUCUUAGGGAAGCUGAGCUAAGGAA2000000006ACAGAGGCUUGAAGAACUAAA2000000006ACAGCAGCAGAAACUUGACAGGCAGAAGGAACUAGAAAAGAAAAGAAAACUUGAAACUAAUCCUGAUAUUAAGCCAUCAAAUGUGGAACCUAUGGAAAAGGAGUUUGGGCUUUGCAAAACUGAGAACAAAGCCAAGUCGGGCAA2000000006ACAGAAUUCAAAGAAGCUGUACUGCCAAGAACUUAAAAAGGUGAUUGAAGCCUCCGAUGUUGUCCUAGAGGUGUUGGAUGCCAGAGAUCCUCUUGGUUGCAGAUGUCCUCAGGUAGAAGAGGCCAUUGUCCAGAGUGGACAGAAAAAGCUGGUACUUAUAUUAAAUAAAUCAGAUCUGGUACCAAAGGAGAAUUUGGAGAGCUGGCUAAAUUAUUUGAAGAAAGAAUUGCCAACAGUGGUGUUCAGAGCCUCAACAAAACCAAAGGAUAAAGGGAAGAUAACCAAGCGUGUGAAGGCAAAGAAGAAUGCUGCUCCAUUCAGAAGUGAAGUCUGCUUUGGGAAAGAGGGCCUUUGGAAACUUCUUGGAGGUUUUCAGGAAACUUGCAGCAAAGCCAUUCGGGUUGGAGUAAUUGGUUUCCCAAAUGUGGGGAAAAGCAGCAUUAUCAAUAGCUUAAAACAAGAACAGAUGUGUAAUGUUGGUGUAUCCAUGGGGCUUAC2000000006AAGGAGCAUGCAAGUUGUCCCCUUGGACAAACAGAUCACAAUCAUAGAUAGUCCGAGCUUCAUCGUAUCUCCACUUAAUUCCUCCUCUGCGCUUGCUCUGCGAAGUCCAGCAAGUAUUGAAGUAGUAAAACCGAUGGAGGCUGCCAGUGCCA2000000009UCCUUUCCCAGGCUGAUGCUCGACAGGUAGUACUGAAAUAUACUGUCCCAGGCUACAGGAAUUCUCUGGAAUUUUUUACUGUGCUUGCUCAGAGAAGAGGUAUGCACCAAAAAGGUGGAAUCCCAAAUGUUGAAGGUGCUGCCAAACUGCUGUGGUCUGAGUGGACAGGUGCCUCAUUAGCUUACUAUUGCCAUCCCCCUACAUCUUGGACUCCUCCUCCAUAUUUUAAUGAGAGUAUUGUGGUAGACAUGAAAAGCGGCUUCAAUCUGGAAGAACUGGAAAAGAACAAUGCACAGAGCA2000000009UAAGAGCCAUCAAGGGCCCUCAUUUGGCCAAUAGCAUCCUUUUCCAGUCUUCCGGUCUGACAAAUGGAAUAAUAGAAGAAAAGGACAUAC2000000006AUGAAGAAUUGCCAAAACGGAAAGAAAGGAAGCAGGAGGAGAGGGAGGAUGACAAAGACAGUGACCAGGAAACUGUUGAUGAAGAAGUUGAUGAAAACAGCUCAGGCAUGUUUGCUGCAGAAGAGACAGGGGAGGCACUGUCUGAGGAGACUACAGCAGGUGA2000000006ACAGUCUACAAGGUCUUUUAUCUUGGAUAAAAUCAUUGAAGAGGAUGAUGCUUAUGACUUCAGUAC2000000006AGAUUAUGUGUA2000000006ACAGAACAAUGGCUUUUUAUGAUUUUUUUUUUA2000000006ACAUUUUAAGCAG2000000006ACUGCUAAACUGUUCUCUGUAUAAGUUAUGGUAUGCAUGAGCUGUGUAAAUUUUGUGAAUAUGUAUUAUAUUAAAACCAGGCAACUUGGAAUCCCUAAAUUCUGUAAAAAGACAAUUCAUCUCAUUGUGAGUGGAAGUAGUUAUCUGGAAUAAAAAAAGAAGAUACCUAUUGAAAAA

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 1 101 109 216 228 265 286 430 928 1080 1380 1470 1633 1699 1711 1744 1757
Modification Positions m6A m6A Y m6A Y m6A m6A m6A m6A Y Y m6A m6A m6A m6A m6A m6A
Genomic Coordinates 3:52686032:+ 3:52686795:+ 3:52686803:+ 3:52687328:+ 3:52687340:+ 3:52687377:+ 3:52687516:+ 3:52688153:+ 3:52691627:+ 3:52693021:+ 3:52693539:+ 3:52693716:+ 3:52694197:+ 3:52694263:+ 3:52694275:+ 3:52694308:+ 3:52694321:+
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 3TeAZFYFxgvp
4HMi5ykupT9V
5aTkEfEpX8Xm
5FhTyQVy2tKW
5Nnepx5V7yHo
6AyXsheySjfx
6UuHp6YApVKv
aHkqKEJkRYyb
aivdrAsbdKEU
Ap2q43bQLNek
gZuvgwMuBfgh
jNkxUQNx8GRd
msuJfBpJvM5H
NjZ8bGGJsNSR
Q36pf44ZRvxu
QmcpiJ88DBDn
UN3tNpbCPHYf
VL7zkHvkfkoB
VyCX26p5UBRL
WdHxkJGRmFxn
KjeH7Nsffuas
Lny8GcCeVGc9
UKen6WEino9G
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
eGNFqdoGxzRm
f6YSioLdAWpr
Mk6ShCGm6RBJ
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
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dknfVe6BK8aP
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Mk6ShCGm6RBJ
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
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Mk6ShCGm6RBJ
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bXBqJigD9oV3
dknfVe6BK8aP
eGNFqdoGxzRm
f6YSioLdAWpr
Mk6ShCGm6RBJ
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
Yfn77uLS5tv8
BtsJQJ3DteUq
bXBqJigD9oV3
dknfVe6BK8aP
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Mk6ShCGm6RBJ
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XWZVGdLC6gGJ
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S9vNeQQYrhac
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3kRDPWwiRCgi
L6w2k2VEv4EY
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CxQaH6qDB9bC
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JkWoGWVwjNda
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CxQaH6qDB9bC
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f6YSioLdAWpr
Mk6ShCGm6RBJ
oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
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JkWoGWVwjNda
a7o5Kmjr4Tdp
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3kRDPWwiRCgi
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CxQaH6qDB9bC
dknfVe6BK8aP
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a7o5Kmjr4Tdp
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3kRDPWwiRCgi
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dknfVe6BK8aP
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iezFbUdmY3A6
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a7o5Kmjr4Tdp
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oZ9Kp5NX8Hv5
XWZVGdLC6gGJ
iezFbUdmY3A6
S9vNeQQYrhac
JkWoGWVwjNda
a7o5Kmjr4Tdp
Yfn77uLS5tv8
8cMbzB4aD5Se
ArijeGVTwYBw
nfCHyrYzE6fB
BtsJQJ3DteUq
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CxQaH6qDB9bC
dknfVe6BK8aP
eGNFqdoGxzRm
f6YSioLdAWpr
kx7BHU7ZycYE
Mk6ShCGm6RBJ
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XWZVGdLC6gGJ
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