General Data

RNA Type	mRNA
Original Source	Sci-ModoM
Transcript ID:	ENST00000558157
Gene ID:	ENSG00000140455
Gene Name:	USP3
Sequence (UNICHARACTER ENCODING)	GAGCGCCCGGCUAGAAGCGACACCAGACGGAGCCUCCGGAGUUCCPCCGCCCCCACCUCGCCGGGUCCUGGAGCCGCAGUCCUCCCAGCUGCCCUCCUCGUGGCCAUGGAGUGUCCACACCUGAGCUCCAGCGUCUGCAUUGCUCCGGACUCAGCCAAGUUCCCCAACGGCUCCCCGUCGUCCUGGUGCUGCAGCGCCUUCAAAUGUUUAUCUGGUGUGACUGUAUUAUGCCCUCAGAGAGUACUGUAUGUUGCCCAGGCUGGCCUCGAACUCUAGGCUCAAGUGAUUCUUCUGCCUCAGCCUCCCAAGUAGCUGGGACUACAGAUGCAAUCACCACCACACUUGGCAGUGUGCCGGUCCAACAAAAGCCCUUGGGUCUGUUUGACUUGUUCAAGUGUCCACUGUGGAAGGUAUGUGAAUGGCCAUGCAAAAAAACAUUAUGAAGAUGCACAAGUACCUPUAACCAACCAUAAGAAAUCAGAAAAGCAAGAUAAAGUUCAGCACACAGUAUGUAUGGAUUGCAGUAGCUACAGUACAUACUGUUAUCGCUGUGAUGAUUUUGUGGUUAAUGACACCAAGCUGGGACUGGUACAGAAAGUCAGAGAACACUUACAGAACUUGGAAAACUCAGCUUUCACAGCUGACAGGCAUAAGAAAAGAAAACUUUUGGAAAACUCAACACUAAACAGCAAGUUAUUAAAAGUAAAUGGAAGCACCACUGCCAUUUGUGCCACAGGCCUUCGGAAUUUGGGGAACACAUGUUUCAUGAAUGCCAPCCUUCAGUCACUCAGUAACAUUGAGCAGUUUUGCUGUUAUUUCAAAGAACUGCCCGCCGUGGAGUUAAGGAAUGGGAAAACAGCAGGAAGGCGGACAUACCACACCAGGAGCCAAGGGGAUAACAAUGUGUCUUUGGUAGAAGAGUUUAGAAAGACACUCUGUGCUPUAUGGCAAGGCAGCCAGACUGCAUUUAGCCCAGAGUCCUUAUUUUAUGUUGUUUGGAAGAUUAUGCCAAACUPUAGGGGCUAUCAACAGCAGGACGCCCAUGAAUUCAUGCGCUACCUUUUGGACCACCUACACUUGGAACUUCAGGGCGGUUUCAACGGUGUUUCCCGCUCAGCAAUUCUGCAGGAGAAUUCUACUCUGUCUGCAAGUAACAAGUGUUGCAUAAAUGGAGCAUCUACUGUUGUCACGGCUAUAUUCGGAGGCAUUCUCCAAAAUGAGGUUAЖCUGCCUCAUAUGUGGGACAGAAUCUAGAAAGUUUGAUCCAUUCCUAGACCUUUCAUUAGAUAUUCCAAGUCAGUPCAGAAGUAAGCGCUCUAAGAAUCAAGAAAAUGGACCAGUUUGUUCGUUACGAGAUUGUCUUCGCAGUUUUACCGACUUAGAAGAACUUGAUGAGACAGAGUUAUAUAUGUGCCAUAAAUGCAAAAAGAAACAAAAGUCCACAAAAAAGUUUUGGAUUCAAAAACUACCCAAGGUGCUAUGCUUACAUUUGAAAAGAUUUCAUUGGACAGCAUAUUUAAGAAAUAAAGUUGAUACAUACGUAGAAUUUCCACUGAGAGGCCUAGACAUGAAAUGCUACUUACUAGAGCCUGAGAЖCAGUGGCCCGGAGAGCUGCCUGUAUGACCUCGCCGCUGUGGUGGUGCACCAUGGUUCCGGGGUUGGUUCUGGACAUUACACAGCAUACGCAACUCACGAAGGCCGCUGGUUCCACUUCAAUGACAGUACUGUAЖCACUGACUGACGAGGAGACUGUGGUGAAGGCGAAGGCCUACAPCCUUUUCUACGUGGAACACCAGGCCAAAGCUGGAUCGGAUAAЖCUPUAAUACCPCCUCCAAAUCAUCAUUCACCAACCAUACCAGAGAAACAUUUCCAGUUUUCCACAAAUACUUGAUACAAGAUUUAAUUUCAUUAUGCЖCUUUUCAAUUUCCUAUUUUGGAUUUAGUUUUGUCAAUGGUAGUGACUUACUGAACAUGGGCACCAACUAAUUUUGUUGUUGUUCUACCAGAAAACCUCAGCAGAUGUUUUGAUUUGCUGCUPUAGUUGUAAUAAUUCAAUUUUUAUAGGUAGUUGUAAGAACUUAGUCUUAUUUGACUUUUUUAUUUUAUGUUAAUGUUUUCAGUUCUCACUUUGAGGCACAUUUACAUCAAUGCUUUUGUUCCUCUCACAUGCUGAAAGCAAGAUGUGUUCCUUAUUGUGAAGAGCGACACAACUGCCUGCUGCCUUUCCACAGCUAUAAUGGЖCAUCAGGUUGACUCUAAAUCAAGGAUCAUGUGUGCACAAUACUUGUGGCCCACAAAAUUUCACAAUGЖCUGCUGAGGAAUCAUUCUUUUUGCCUGUAAAAUAUAACAAAGGGCAUCAUUAAGUAGACCAGGUAAUUACUGCUUGUCUCUCAAGGCUGCUGUCUPUAUCAGCACUAЖCUAAAUAAAUUUGUUGGUUCAGUUG
Sequence (SHORT NAMES ENCODING)	GAGCGCCCGGCUAGAAGCGACACCAGACGGAGCCUCCGGAGUUCCYCCGCCCCCACCUCGCCGGGUCCUGGAGCCGCAGUCCUCCCAGCUGCCCUCCUCGUGGCCAUGGAGUGUCCACACCUGAGCUCCAGCGUCUGCAUUGCUCCGGACUCAGCCAAGUUCCCCAACGGCUCCCCGUCGUCCUGGUGCUGCAGCGCCUUCAAAUGUUUAUCUGGUGUGACUGUAUUAUGCCCUCAGAGAGUACUGUAUGUUGCCCAGGCUGGCCUCGAACUCUAGGCUCAAGUGAUUCUUCUGCCUCAGCCUCCCAAGUAGCUGGGACUACAGAUGCAAUCACCACCACACUUGGCAGUGUGCCGGUCCAACAAAAGCCCUUGGGUCUGUUUGACUUGUUCAAGUGUCCACUGUGGAAGGUAUGUGAAUGGCCAUGCAAAAAAACAUUAUGAAGAUGCACAAGUACCUYUAACCAACCAUAAGAAAUCAGAAAAGCAAGAUAAAGUUCAGCACACAGUAUGUAUGGAUUGCAGUAGCUACAGUACAUACUGUUAUCGCUGUGAUGAUUUUGUGGUUAAUGACACCAAGCUGGGACUGGUACAGAAAGUCAGAGAACACUUACAGAACUUGGAAAACUCAGCUUUCACAGCUGACAGGCAUAAGAAAAGAAAACUUUUGGAAAACUCAACACUAAACAGCAAGUUAUUAAAAGUAAAUGGAAGCACCACUGCCAUUUGUGCCACAGGCCUUCGGAAUUUGGGGAACACAUGUUUCAUGAAUGCCAYCCUUCAGUCACUCAGUAACAUUGAGCAGUUUUGCUGUUAUUUCAAAGAACUGCCCGCCGUGGAGUUAAGGAAUGGGAAAACAGCAGGAAGGCGGACAUACCACACCAGGAGCCAAGGGGAUAACAAUGUGUCUUUGGUAGAAGAGUUUAGAAAGACACUCUGUGCUYUAUGGCAAGGCAGCCAGACUGCAUUUAGCCCAGAGUCCUUAUUUUAUGUUGUUUGGAAGAUUAUGCCAAACUYUAGGGGCUAUCAACAGCAGGACGCCCAUGAAUUCAUGCGCUACCUUUUGGACCACCUACACUUGGAACUUCAGGGCGGUUUCAACGGUGUUUCCCGCUCAGCAAUUCUGCAGGAGAAUUCUACUCUGUCUGCAAGUAACAAGUGUUGCAUAAAUGGAGCAUCUACUGUUGUCACGGCUAUAUUCGGAGGCAUUCUCCAAAAUGAGGUUAm6ACUGCCUCAUAUGUGGGACAGAAUCUAGAAAGUUUGAUCCAUUCCUAGACCUUUCAUUAGAUAUUCCAAGUCAGUYCAGAAGUAAGCGCUCUAAGAAUCAAGAAAAUGGACCAGUUUGUUCGUUACGAGAUUGUCUUCGCAGUUUUACCGACUUAGAAGAACUUGAUGAGACAGAGUUAUAUAUGUGCCAUAAAUGCAAAAAGAAACAAAAGUCCACAAAAAAGUUUUGGAUUCAAAAACUACCCAAGGUGCUAUGCUUACAUUUGAAAAGAUUUCAUUGGACAGCAUAUUUAAGAAAUAAAGUUGAUACAUACGUAGAAUUUCCACUGAGAGGCCUAGACAUGAAAUGCUACUUACUAGAGCCUGAGAm6ACAGUGGCCCGGAGAGCUGCCUGUAUGACCUCGCCGCUGUGGUGGUGCACCAUGGUUCCGGGGUUGGUUCUGGACAUUACACAGCAUACGCAACUCACGAAGGCCGCUGGUUCCACUUCAAUGACAGUACUGUAm6ACACUGACUGACGAGGAGACUGUGGUGAAGGCGAAGGCCUACAYCCUUUUCUACGUGGAACACCAGGCCAAAGCUGGAUCGGAUAAm6ACUYUAAUACCYCCUCCAAAUCAUCAUUCACCAACCAUACCAGAGAAACAUUUCCAGUUUUCCACAAAUACUUGAUACAAGAUUUAAUUUCAUUAUGCm6ACUUUUCAAUUUCCUAUUUUGGAUUUAGUUUUGUCAAUGGUAGUGACUUACUGAACAUGGGCACCAACUAAUUUUGUUGUUGUUCUACCAGAAAACCUCAGCAGAUGUUUUGAUUUGCUGCUYUAGUUGUAAUAAUUCAAUUUUUAUAGGUAGUUGUAAGAACUUAGUCUUAUUUGACUUUUUUAUUUUAUGUUAAUGUUUUCAGUUCUCACUUUGAGGCACAUUUACAUCAAUGCUUUUGUUCCUCUCACAUGCUGAAAGCAAGAUGUGUUCCUUAUUGUGAAGAGCGACACAACUGCCUGCUGCCUUUCCACAGCUAUAAUGGm6ACAUCAGGUUGACUCUAAAUCAAGGAUCAUGUGUGCACAAUACUUGUGGCCCACAAAAUUUCACAAUGm6ACUGCUGAGGAAUCAUUCUUUUUGCCUGUAAAAUAUAACAAAGGGCAUCAUUAAGUAGACCAGGUAAUUACUGCUUGUCUCUCAAGGCUGCUGUCUYUAUCAGCACUAm6ACUAAAUAAAUUUGUUGGUUCAGUUG
Sequence (MODOMICS CODE ENCODING)	GAGCGCCCGGCUAGAAGCGACACCAGACGGAGCCUCCGGAGUUCC2000000009UCCGCCCCCACCUCGCCGGGUCCUGGAGCCGCAGUCCUCCCAGCUGCCCUCCUCGUGGCCAUGGAGUGUCCACACCUGAGCUCCAGCGUCUGCAUUGCUCCGGACUCAGCCAAGUUCCCCAACGGCUCCCCGUCGUCCUGGUGCUGCAGCGCCUUCAAAUGUUUAUCUGGUGUGACUGUAUUAUGCCCUCAGAGAGUACUGUAUGUUGCCCAGGCUGGCCUCGAACUCUAGGCUCAAGUGAUUCUUCUGCCUCAGCCUCCCAAGUAGCUGGGACUACAGAUGCAAUCACCACCACACUUGGCAGUGUGCCGGUCCAACAAAAGCCCUUGGGUCUGUUUGACUUGUUCAAGUGUCCACUGUGGAAGGUAUGUGAAUGGCCAUGCAAAAAAACAUUAUGAAGAUGCACAAGUACCU2000000009UUAACCAACCAUAAGAAAUCAGAAAAGCAAGAUAAAGUUCAGCACACAGUAUGUAUGGAUUGCAGUAGCUACAGUACAUACUGUUAUCGCUGUGAUGAUUUUGUGGUUAAUGACACCAAGCUGGGACUGGUACAGAAAGUCAGAGAACACUUACAGAACUUGGAAAACUCAGCUUUCACAGCUGACAGGCAUAAGAAAAGAAAACUUUUGGAAAACUCAACACUAAACAGCAAGUUAUUAAAAGUAAAUGGAAGCACCACUGCCAUUUGUGCCACAGGCCUUCGGAAUUUGGGGAACACAUGUUUCAUGAAUGCCA2000000009UCCUUCAGUCACUCAGUAACAUUGAGCAGUUUUGCUGUUAUUUCAAAGAACUGCCCGCCGUGGAGUUAAGGAAUGGGAAAACAGCAGGAAGGCGGACAUACCACACCAGGAGCCAAGGGGAUAACAAUGUGUCUUUGGUAGAAGAGUUUAGAAAGACACUCUGUGCU2000000009UUAUGGCAAGGCAGCCAGACUGCAUUUAGCCCAGAGUCCUUAUUUUAUGUUGUUUGGAAGAUUAUGCCAAACU2000000009UUAGGGGCUAUCAACAGCAGGACGCCCAUGAAUUCAUGCGCUACCUUUUGGACCACCUACACUUGGAACUUCAGGGCGGUUUCAACGGUGUUUCCCGCUCAGCAAUUCUGCAGGAGAAUUCUACUCUGUCUGCAAGUAACAAGUGUUGCAUAAAUGGAGCAUCUACUGUUGUCACGGCUAUAUUCGGAGGCAUUCUCCAAAAUGAGGUUA2000000006ACUGCCUCAUAUGUGGGACAGAAUCUAGAAAGUUUGAUCCAUUCCUAGACCUUUCAUUAGAUAUUCCAAGUCAGU2000000009UCAGAAGUAAGCGCUCUAAGAAUCAAGAAAAUGGACCAGUUUGUUCGUUACGAGAUUGUCUUCGCAGUUUUACCGACUUAGAAGAACUUGAUGAGACAGAGUUAUAUAUGUGCCAUAAAUGCAAAAAGAAACAAAAGUCCACAAAAAAGUUUUGGAUUCAAAAACUACCCAAGGUGCUAUGCUUACAUUUGAAAAGAUUUCAUUGGACAGCAUAUUUAAGAAAUAAAGUUGAUACAUACGUAGAAUUUCCACUGAGAGGCCUAGACAUGAAAUGCUACUUACUAGAGCCUGAGA2000000006ACAGUGGCCCGGAGAGCUGCCUGUAUGACCUCGCCGCUGUGGUGGUGCACCAUGGUUCCGGGGUUGGUUCUGGACAUUACACAGCAUACGCAACUCACGAAGGCCGCUGGUUCCACUUCAAUGACAGUACUGUA2000000006ACACUGACUGACGAGGAGACUGUGGUGAAGGCGAAGGCCUACA2000000009UCCUUUUCUACGUGGAACACCAGGCCAAAGCUGGAUCGGAUAA2000000006ACU2000000009UUAAUACC2000000009UCCUCCAAAUCAUCAUUCACCAACCAUACCAGAGAAACAUUUCCAGUUUUCCACAAAUACUUGAUACAAGAUUUAAUUUCAUUAUGC2000000006ACUUUUCAAUUUCCUAUUUUGGAUUUAGUUUUGUCAAUGGUAGUGACUUACUGAACAUGGGCACCAACUAAUUUUGUUGUUGUUCUACCAGAAAACCUCAGCAGAUGUUUUGAUUUGCUGCU2000000009UUAGUUGUAAUAAUUCAAUUUUUAUAGGUAGUUGUAAGAACUUAGUCUUAUUUGACUUUUUUAUUUUAUGUUAAUGUUUUCAGUUCUCACUUUGAGGCACAUUUACAUCAAUGCUUUUGUUCCUCUCACAUGCUGAAAGCAAGAUGUGUUCCUUAUUGUGAAGAGCGACACAACUGCCUGCUGCCUUUCCACAGCUAUAAUGG2000000006ACAUCAGGUUGACUCUAAAUCAAGGAUCAUGUGUGCACAAUACUUGUGGCCCACAAAAUUUCACAAUG2000000006ACUGCUGAGGAAUCAUUCUUUUUGCCUGUAAAAUAUAACAAAGGGCAUCAUUAAGUAGACCAGGUAAUUACUGCUUGUCUCUCAAGGCUGCUGUCU2000000009UUAUCAGCACUA2000000006ACUAAAUAAAUUUGUUGGUUCAGUUG

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	46	460	776	943	1016	1226	1301	1595	1729	1772	1815	1818	1826	1913	2035	2238	2306	2402	2414
Modification Positions	Y	Y	Y	Y	Y	m6A	Um	m6A	m6A	Y	m6A	Y	Y	m6A	Y	m6A	m6A	Y	m6A
Genomic Coordinates	15:63504680:+	15:63537074:+	15:63558173:+	15:63562932:+	15:63563005:+	15:63574105:+	15:63574350:+	15:63588951:+	15:63590734:+	15:63590777:+	15:63590820:+	15:63590823:+	15:63590831:+	15:63590918:+	15:63591040:+	15:63591243:+	15:63591311:+	15:63591407:+	15:63591419:+
Level of Experimental Evidence	3	3	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	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	Sci-ModoM	Sci-ModoM
EUFIDs	BtsJQJ3DteUq bXBqJigD9oV3 f6YSioLdAWpr	BtsJQJ3DteUq bXBqJigD9oV3 f6YSioLdAWpr	BtsJQJ3DteUq bXBqJigD9oV3 f6YSioLdAWpr	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Yfn77uLS5tv8	jaSvBXBkn3xs YkSG92k4EHDM	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr	3TeAZFYFxgvp 6AyXsheySjfx 6UuHp6YApVKv aivdrAsbdKEU Ap2q43bQLNek gZuvgwMuBfgh jNkxUQNx8GRd msuJfBpJvM5H NjZ8bGGJsNSR Q36pf44ZRvxu QmcpiJ88DBDn QpiKdbVikVz2 UN3tNpbCPHYf VL7zkHvkfkoB VyCX26p5UBRL WdHxkJGRmFxn ArijeGVTwYBw Lny8GcCeVGc9 LZJKems7W2wi UKen6WEino9G BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr	4HMi5ykupT9V BsCW7emuRX7M KENzb7mwdBd9 KjeH7Nsffuas Lny8GcCeVGc9 LZJKems7W2wi UKen6WEino9G XUkp6ghERQML	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Mk6ShCGm6RBJ XWZVGdLC6gGJ iezFbUdmY3A6 Yfn77uLS5tv8	3TeAZFYFxgvp 4HMi5ykupT9V 6AyXsheySjfx 6UuHp6YApVKv aivdrAsbdKEU Ap2q43bQLNek gZuvgwMuBfgh jNkxUQNx8GRd msuJfBpJvM5H nGifePrmgHfe NjZ8bGGJsNSR Q36pf44ZRvxu QmcpiJ88DBDn QpiKdbVikVz2 UN3tNpbCPHYf V5PvfiKsgFMd VL7zkHvkfkoB VyCX26p5UBRL WdHxkJGRmFxn 93arJtwJmuS9 BkoLW2CBToyL nfCHyrYzE6fB BsCW7emuRX7M KENzb7mwdBd9 KjeH7Nsffuas Lny8GcCeVGc9 LZJKems7W2wi PF5iqBNSbHaa UKen6WEino9G XUkp6ghERQML BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr iezFbUdmY3A6 Yfn77uLS5tv8	3TeAZFYFxgvp 4HMi5ykupT9V 5aTkEfEpX8Xm 6AyXsheySjfx 6UuHp6YApVKv aivdrAsbdKEU Ap2q43bQLNek gZuvgwMuBfgh jNkxUQNx8GRd msuJfBpJvM5H NjZ8bGGJsNSR Q36pf44ZRvxu QmcpiJ88DBDn QpiKdbVikVz2 UN3tNpbCPHYf VL7zkHvkfkoB VyCX26p5UBRL WdHxkJGRmFxn 93arJtwJmuS9 ArijeGVTwYBw BkoLW2CBToyL KTLz8piFYdwC nfCHyrYzE6fB WiQcrNTGZHPT BsCW7emuRX7M KjeH7Nsffuas Lny8GcCeVGc9 LZJKems7W2wi UKen6WEino9G XUkp6ghERQML BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Mk6ShCGm6RBJ oZ9Kp5NX8Hv5 XWZVGdLC6gGJ iezFbUdmY3A6 S9vNeQQYrhac JkWoGWVwjNda a7o5Kmjr4Tdp Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Mk6ShCGm6RBJ oZ9Kp5NX8Hv5 XWZVGdLC6gGJ iezFbUdmY3A6 S9vNeQQYrhac JkWoGWVwjNda a7o5Kmjr4Tdp Yfn77uLS5tv8	BtsJQJ3DteUq bXBqJigD9oV3 dknfVe6BK8aP f6YSioLdAWpr Mk6ShCGm6RBJ XWZVGdLC6gGJ iezFbUdmY3A6 S9vNeQQYrhac JkWoGWVwjNda Yfn77uLS5tv8