Rw3G024530

tRNA m(4)X modification enzyme TRM13 homolog

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
Physical Location & Seq
Reverse (-)
31546737 .. 31550433
3697 bp
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UTR
Exon/CDS
Intron
Rw3G024530.1

Sequence Viewer

Length: 1425 bp
ATGGAAAACCGCTGCAAGTTTTGGCTCCCTAAAAAGAAGAGATTTTGTGCCAATGTTCCCCTCACTGAATCAGTGTTCTGTGGCAACCACACACCCAGGTCCGACAGCCAGTGGATTCCATGCCCAATAGACCCTTCTCACTCTGTGCTTGAAGAAAATCTTGAAGGACATGTTAGGAGATGCCCATTGCTCAAACAAGTGGAGTCTCTGACTCACCAGCCCTTTTACCAAAAGGGTATCAATGCTGGCAAAGAAGAAGACCAACAAGAAATAGAAACAGCCTGTAGTACTAGATTGGAGGATTCGGCATTGGCTGATGACCCCAAGTCGGAGGCTTTCGGTTACATTCTTTCAGAGATGAAGAGGACTGTTTATAGTATGTCTGTGCCTGATTTCTATAAATTAATCGAAAAAATTGAGTCTGTTCATAAGTCCATATGCAAGGATATTCAGGAGTCGTATAAGGTACCGGAAGCTTGCGGAATGTGGATCAAAAGAGAGGTAGACAGAAAATTGCCATTTCAAGAGAAACATGTTATGCAGCAGGTGTCGATTCTTGGAAACATGGAAGACGTTGGGTTAATAAAGAGTTCCATAGCAAAGGAGAGGGCTGACTGTGATGATAGCAATGGTTTCCCTGTGAGGGATGACTGTGATTATAGCAATGGTGTCCCTGCGGTGGTTGAGTTTGGAGCGGGGAGAGGATACTTGACACAAATGCTGGCAGATTGTTATGGCATTAAAAGGGTCTTTTTGGTTGAAAGGAAGTCATACAAGCTGAAGGCTGATCGATCCTTGCGACAGAAAGAGAGCTTGATACTGCAACGTTTGAGAATTGACATTGAGGATTTAAACCTGAATGCCGTTGAGTCATTGCGGGAAGGTCCTTTCATTTCTATCGGTAAACATCTTTGTGGGCCTGCAACAGATTTGACTCTGAGATGTTGCCTTGGGGAACAATCCAATCAAAGTAATTGTGGAGGGTGCGTTAACCCGAACCTAAGAGGTCTAGCTATTGCCACATGTTGCCATCATCTTTGCCAATGGAAGCACTACATAAATAAGAAGTATCTATTAGAGTTGGGGATCACAAAAGAGGAATTCCATGTCATTATATGGTTTACTAGTTGGGCAGTGGATGCTGATCATGGCACAGATCTTCCTGACGTTACTGATTGCGGATTCTATCTTGAATCCATCGGAAAGAAGCAATCCCACGGAGATAATGGAGTTGAAGACGTTGTGAGAAATATGAAAGCAGTTGAAAGGGCTGCGTTAGGGTTCATGTGCAAGCAGATTATAGACATGGGTAGGTTAATGTGGATGAAGGAACATGGATTGGAAGCGCAGTTTGTCAAATACGTACCATCTAGTGTCTCCCCTGAAAACCACTTACTAATTGCTAGAAGCACCATTCTTTCTTGA

Protein Analysis

474

Amino Acids

53.73

Weight (kDa)

6.23

Isoelectric Point (pI)

50.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-TRM13_CCCH PF11722 3 - 30 4.4e-12 CCCH zinc finger in TRM13 protein
zf-U11-48K PF05253 38 - 62 8.8e-08 U11-48K-like CHHC zinc finger
TRM13 PF05206 180 - 468 3.2e-82 Methyltransferase TRM13
Methyltransf_32 PF13679 221 - 331 1.1e-07 Methyltransferase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 535
Acc36I ACCTGC 1 cut(s) 535
Acc65I GGTACC 1 cut(s) 466
AccB1I GGYRCC 1 cut(s) 466
AccBSI CCGCTC 1 cut(s) 695
AccI GTMKAC 1 cut(s) 504
AciI CCGC 6 cut(s) 10, 480, 677, 695, 877, 1179
AclI AACGTT 1 cut(s) 826
AclWI GGATC 3 cut(s) 497, 786, 1094
AcsI RAATTY 1 cut(s) 1100
AcuI CTGAAG 1 cut(s) 800
AdeI CACNNNGTG 1 cut(s) 145
AfaI GTAC 3 cut(s) 289, 468, 1365
AfiI CCNNNNNNNGG 3 cut(s) 328, 643, 679
AflIII ACRYGT 3 cut(s) 169, 532, 1022
AgsI TTSAA 7 cut(s) 152, 164, 524, 761, 1193, 1235, 1265
AhdI GACNNNNNGTC 1 cut(s) 325
AhlI ACTAGT 1 cut(s) 1124
AjnI CCWGG 1 cut(s) 95
AjuI GAANNNNNNNTTGG 2 cut(s) 118, 150
AluBI AGCT 4 cut(s) 476, 778, 813, 1013
AluI AGCT 4 cut(s) 476, 778, 813, 1013
Alw26I GTCTC 2 cut(s) 210, 1381
AlwI GGATC 3 cut(s) 497, 786, 1094
AoxI GGCC 1 cut(s) 917
ApeKI GCWGC 3 cut(s) 12, 541, 1271
ApoI RAATTY 1 cut(s) 1100
AseI ATTAAT 1 cut(s) 404
Asp718I GGTACC 1 cut(s) 466
AspLEI GCGC 1 cut(s) 1348
AspS9I GGNCC 3 cut(s) 99, 884, 917
AsuHPI GGTGA 1 cut(s) 206
AvaII GGWCC 2 cut(s) 99, 884
BanI GGYRCC 1 cut(s) 466
BbsI GAAGAC 3 cut(s) 264, 576, 1242
BbvI GCAGC 2 cut(s) 553, 1258
BccI CCATC 3 cut(s) 1038, 1205, 1375
BceAI ACGGC 1 cut(s) 848
BciT130I CCWGG 1 cut(s) 97
BciVI GTATCC 1 cut(s) 698
BclI TGATCA 1 cut(s) 1144
BcoDI GTCTC 2 cut(s) 210, 1381
BcuI ACTAGT 1 cut(s) 1124
BfaI CTAG 5 cut(s) 291, 1010, 1125, 1371, 1404
BfmI CTRYAG 1 cut(s) 283
BfuAI ACCTGC 1 cut(s) 535
BfuI GTATCC 1 cut(s) 698
BglII AGATCT 1 cut(s) 1156
BisI GCNGC 3 cut(s) 13, 542, 1272
BlsI GCNGC 3 cut(s) 14, 543, 1273
BmcAI AGTACT 1 cut(s) 289
Bme1390I CCNGG 1 cut(s) 97
Bme18I GGWCC 2 cut(s) 99, 884
BmeRI GACNNNNNGTC 1 cut(s) 325
BmgT120I GGNCC 3 cut(s) 99, 884, 917
BmiI GGNNCC 2 cut(s) 26, 468
BmrFI CCNGG 1 cut(s) 97
BmsI GCATC 2 cut(s) 170, 1129
BpiI GAAGAC 3 cut(s) 264, 576, 1242
Bsa29I ATCGAT 1 cut(s) 790
BsaAI YACGTR 1 cut(s) 1363
BsaBI GATNNNNATC 1 cut(s) 1143
BsaJI CCNNGG 3 cut(s) 95, 949, 1216
BsaWI WCCGGW 1 cut(s) 469
BsaXI ACNNNNNCTCC 2 cut(s) 972, 1002
Bsc4I CCNNNNNNNGG 3 cut(s) 328, 643, 679
Bse1I ACTGG 1 cut(s) 109
Bse3DI GCAATG 4 cut(s) 185, 634, 670, 872
Bse8I GATNNNNATC 1 cut(s) 1143
BseBI CCWGG 1 cut(s) 97
BseCI ATCGAT 1 cut(s) 790
BseDI CCNNGG 3 cut(s) 95, 949, 1216
BseGI GGATG 3 cut(s) 652, 1144, 1329
BseJI GATNNNNATC 1 cut(s) 1143
BseLI CCNNNNNNNGG 3 cut(s) 328, 643, 679
BseMI GCAATG 4 cut(s) 185, 634, 670, 872
BseMII CTCAG 1 cut(s) 929
BseNI ACTGG 1 cut(s) 109
BseXI GCAGC 2 cut(s) 553, 1258
BshFI GGCC 1 cut(s) 919
BshNI GGYRCC 1 cut(s) 466
BshVI ATCGAT 1 cut(s) 790
BsiSI CCGG 1 cut(s) 470
BslFI GGGAC 1 cut(s) 656
BslI CCNNNNNNNGG 3 cut(s) 328, 643, 679
BsmAI GTCTC 2 cut(s) 210, 1381
BsmFI GGGAC 1 cut(s) 656
BsmI GAATGC 1 cut(s) 865
BsnI GGCC 1 cut(s) 919
Bsp143I GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
BspACI CCGC 6 cut(s) 10, 480, 677, 695, 877, 1179
BspANI GGCC 1 cut(s) 919
BspCNI CTCAG 1 cut(s) 930
BspDI ATCGAT 1 cut(s) 790
BspLI GGNNCC 2 cut(s) 26, 468
BspMI ACCTGC 1 cut(s) 535
BspPI GGATC 3 cut(s) 497, 786, 1094
BspT107I GGYRCC 1 cut(s) 466
BsrBI CCGCTC 1 cut(s) 695
BsrDI GCAATG 4 cut(s) 185, 634, 670, 872
BsrI ACTGG 1 cut(s) 109
BssECI CCNNGG 3 cut(s) 95, 949, 1216
BssMI GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
BssT1I CCWWGG 1 cut(s) 949
Bst2UI CCWGG 1 cut(s) 97
Bst4CI ACNGT 3 cut(s) 370, 617, 653
Bst6I CTCTTC 2 cut(s) 32, 356
BstAPI GCANNNNNTGC 1 cut(s) 1139
BstBAI YACGTR 1 cut(s) 1363
BstC8I GCNNGC 5 cut(s) 247, 478, 723, 921, 1292
BstDEI CTNAG 2 cut(s) 938, 1001
BstDSI CCRYGG 1 cut(s) 1216
BstF5I GGATG 3 cut(s) 652, 1144, 1329
BstHHI GCGC 1 cut(s) 1348
BstKTI GATC 6 cut(s) 492, 790, 794, 1089, 1147, 1159
BstMAI GTCTC 2 cut(s) 210, 1381
BstMBI GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
BstMWI GCNNNNNNNGC 1 cut(s) 1139
BstNI CCWGG 1 cut(s) 97
BstNSI RCATGY 3 cut(s) 173, 536, 1026
BstSCI CCNGG 1 cut(s) 95
BstSFI CTRYAG 1 cut(s) 283
BstSNI TACGTA 1 cut(s) 1363
BstV1I GCAGC 2 cut(s) 553, 1258
BstV2I GAAGAC 3 cut(s) 264, 576, 1242
BstX2I RGATCY 1 cut(s) 1156
BstYI RGATCY 1 cut(s) 1156
Bsu15I ATCGAT 1 cut(s) 790
BsuI GTATCC 1 cut(s) 698
BsuRI GGCC 1 cut(s) 919
BsuTUI ATCGAT 1 cut(s) 790
BtgI CCRYGG 1 cut(s) 1216
BtsCI GGATG 3 cut(s) 652, 1144, 1329
BtsI GCAGTG 1 cut(s) 1140
BtsIMutI CAGTG 4 cut(s) 63, 78, 116, 1140
BveI ACCTGC 1 cut(s) 535
Cac8I GCNNGC 5 cut(s) 247, 478, 723, 921, 1292
CfoI GCGC 1 cut(s) 1348
Cfr13I GGNCC 3 cut(s) 99, 884, 917
ClaI ATCGAT 1 cut(s) 790
Csp6I GTAC 3 cut(s) 288, 467, 1364
CviQI GTAC 3 cut(s) 288, 467, 1364
DdeI CTNAG 2 cut(s) 938, 1001
DpnI GATC 6 cut(s) 491, 789, 793, 1088, 1146, 1158
DpnII GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
DraI TTTAAA 1 cut(s) 852
DraIII CACNNNGTG 1 cut(s) 145
DriI GACNNNNNGTC 1 cut(s) 325
Eam1104I CTCTTC 2 cut(s) 32, 356
Eam1105I GACNNNNNGTC 1 cut(s) 325
EarI CTCTTC 2 cut(s) 32, 356
Eco105I TACGTA 1 cut(s) 1363
Eco130I CCWWGG 1 cut(s) 949
Eco47I GGWCC 2 cut(s) 99, 884
Eco57I CTGAAG 1 cut(s) 800
EcoO109I RGGNCCY 1 cut(s) 884
EcoRI GAATTC 1 cut(s) 1100
EcoRII CCWGG 1 cut(s) 95
EcoT14I CCWWGG 1 cut(s) 949
ErhI CCWWGG 1 cut(s) 949
FalI AAGNNNNNCTT 2 cut(s) 144, 176
FaqI GGGAC 1 cut(s) 656
FauI CCCGC 2 cut(s) 688, 870
FauNDI CATATG 1 cut(s) 437
FbaI TGATCA 1 cut(s) 1144
FblI GTMKAC 1 cut(s) 504
Fnu4HI GCNGC 3 cut(s) 13, 542, 1272
FokI GGATG 3 cut(s) 659, 1151, 1336
Fsp4HI GCNGC 3 cut(s) 13, 542, 1272
FspBI CTAG 5 cut(s) 291, 1010, 1125, 1371, 1404
GlaI GCGC 1 cut(s) 1347
GluI GCNGC 3 cut(s) 13, 542, 1272
HaeIII GGCC 1 cut(s) 919
HapII CCGG 1 cut(s) 470
HhaI GCGC 1 cut(s) 1348
Hin6I GCGC 1 cut(s) 1346
HinP1I GCGC 1 cut(s) 1346
HincII GTYRAC 1 cut(s) 991
HindII GTYRAC 1 cut(s) 991
HindIII AAGCTT 1 cut(s) 474
HpaI GTTAAC 1 cut(s) 991
HpaII CCGG 1 cut(s) 470
HphI GGTGA 1 cut(s) 206
Hpy166II GTNNAC 4 cut(s) 505, 905, 991, 1122
Hpy188I TCNGA 6 cut(s) 103, 210, 331, 355, 939, 1202
Hpy188III TCNNGA 6 cut(s) 161, 452, 524, 1163, 1190, 1422
Hpy8I GTNNAC 4 cut(s) 505, 905, 991, 1122
HpyAV CCTTC 5 cut(s) 144, 158, 775, 875, 1321
HpyCH4III ACNGT 3 cut(s) 370, 617, 653
HpyCH4IV ACGT 5 cut(s) 573, 826, 1167, 1239, 1362
HpyCH4V TGCA 6 cut(s) 15, 441, 541, 823, 923, 1290
HpyF10VI GCNNNNNNNGC 1 cut(s) 1139
HpyF3I CTNAG 2 cut(s) 938, 1001
HpySE526I ACGT 5 cut(s) 573, 826, 1167, 1239, 1362
HspAI GCGC 1 cut(s) 1346
KpnI GGTACC 1 cut(s) 470
Ksp22I TGATCA 1 cut(s) 1144
KspAI GTTAAC 1 cut(s) 991
Kzo9I GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
LmnI GCTCC 2 cut(s) 30, 692
Lsp1109I GCAGC 2 cut(s) 553, 1258
LweI GCATC 2 cut(s) 170, 1129
MaeI CTAG 5 cut(s) 291, 1010, 1125, 1371, 1404
MaeII ACGT 5 cut(s) 573, 826, 1167, 1239, 1362
MaeIII GTNAC 2 cut(s) 341, 1168
MalI GATC 6 cut(s) 491, 789, 793, 1088, 1146, 1158
MbiI CCGCTC 1 cut(s) 695
MboI GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
MboII GAAGA 8 cut(s) 49, 164, 266, 269, 373, 581, 1151, 1247
MflI RGATCY 1 cut(s) 1156
MluCI AATT 7 cut(s) 401, 414, 512, 834, 973, 1100, 1398
MlyI GAGTC 6 cut(s) 205, 212, 428, 464, 878, 928
MmeI TCCRAC 2 cut(s) 126, 309
MseI TTAA 6 cut(s) 404, 581, 741, 851, 990, 1316
MslI CAYNNNNRTG 1 cut(s) 912
MspA1I CMGCKG 1 cut(s) 12
MspI CCGG 1 cut(s) 470
MspR9I CCNGG 1 cut(s) 97
Mva1269I GAATGC 1 cut(s) 865
MvaI CCWGG 1 cut(s) 97
MwoI GCNNNNNNNGC 1 cut(s) 1139
NdeI CATATG 1 cut(s) 437
NdeII GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
NlaIV GGNNCC 2 cut(s) 26, 468
NspI RCATGY 3 cut(s) 173, 536, 1026
PaqCI CACCTGC 1 cut(s) 535
PciI ACATGT 3 cut(s) 169, 532, 1022
PcsI WCGNNNNNNNCGW 1 cut(s) 796
PctI GAATGC 1 cut(s) 865
PfeI GAWTC 6 cut(s) 68, 115, 302, 553, 1182, 1193
PkrI GCNGC 3 cut(s) 14, 543, 1273
PleI GAGTC 6 cut(s) 205, 211, 427, 463, 877, 928
PpsI GAGTC 6 cut(s) 205, 211, 427, 463, 877, 928
Ppu21I YACGTR 1 cut(s) 1363
PpuMI RGGWCCY 1 cut(s) 884
PscI ACATGT 3 cut(s) 169, 532, 1022
PshBI ATTAAT 1 cut(s) 404
Psp1406I AACGTT 1 cut(s) 826
Psp5II RGGWCCY 1 cut(s) 884
Psp6I CCWGG 1 cut(s) 95
PspGI CCWGG 1 cut(s) 95
PspN4I GGNNCC 2 cut(s) 26, 468
PspPI GGNCC 3 cut(s) 99, 884, 917
PspPPI RGGWCCY 1 cut(s) 884
PsuI RGATCY 1 cut(s) 1156
RsaI GTAC 3 cut(s) 289, 468, 1365
RsaNI GTAC 3 cut(s) 288, 467, 1364
RseI CAYNNNNRTG 1 cut(s) 912
SaqAI TTAA 6 cut(s) 404, 581, 741, 851, 990, 1316
SatI GCNGC 3 cut(s) 13, 542, 1272
Sau3AI GATC 6 cut(s) 489, 787, 791, 1086, 1144, 1156
Sau96I GGNCC 3 cut(s) 99, 884, 917
ScaI AGTACT 1 cut(s) 289
SchI GAGTC 6 cut(s) 205, 212, 428, 464, 878, 928
ScrFI CCNGG 1 cut(s) 97
SfaNI GCATC 2 cut(s) 170, 1129
SfcI CTRYAG 1 cut(s) 283
SinI GGWCC 2 cut(s) 99, 884
SmiMI CAYNNNNRTG 1 cut(s) 912
SnaBI TACGTA 1 cut(s) 1363
SpeI ACTAGT 1 cut(s) 1124
Sse9I AATT 7 cut(s) 401, 414, 512, 834, 973, 1100, 1398
SsiI CCGC 6 cut(s) 10, 480, 677, 695, 877, 1179
SspMI CTAG 5 cut(s) 291, 1010, 1125, 1371, 1404
StyD4I CCNGG 1 cut(s) 95
StyI CCWWGG 1 cut(s) 949
TaaI ACNGT 3 cut(s) 370, 617, 653
TaiI ACGT 5 cut(s) 576, 829, 1170, 1242, 1365
TaqI TCGA 3 cut(s) 408, 551, 790
TasI AATT 7 cut(s) 401, 414, 512, 834, 973, 1100, 1398
TatI WGTACW 1 cut(s) 287
TfiI GAWTC 6 cut(s) 68, 115, 302, 553, 1182, 1193
Tru1I TTAA 6 cut(s) 404, 581, 741, 851, 990, 1316
Tru9I TTAA 6 cut(s) 404, 581, 741, 851, 990, 1316
TscAI CASTG 4 cut(s) 70, 78, 116, 1140
TseI GCWGC 3 cut(s) 12, 541, 1271
TspDTI ATGAA 6 cut(s) 374, 416, 880, 1268, 1273, 1340
TspGWI ACGGA 1 cut(s) 1233
TspRI CASTG 4 cut(s) 70, 78, 116, 1140
VpaK11BI GGWCC 2 cut(s) 99, 884
VspI ATTAAT 1 cut(s) 404
XapI RAATTY 1 cut(s) 1100
XceI RCATGY 3 cut(s) 173, 536, 1026
XcmI CCANNNNNNNNNTGG 1 cut(s) 1223
XmiI GTMKAC 1 cut(s) 504
XspI CTAG 5 cut(s) 291, 1010, 1125, 1371, 1404
ZrmI AGTACT 1 cut(s) 289
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.