Rorug02G0113500

Putative RNA methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0003646
Physical Location & Seq
Forward (+)
9712670 .. 9715861
3192 bp
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UTR
Exon/CDS
Intron
Rorug02G0113500.1

Sequence Viewer

Length: 1443 bp
ATGACCGTCGCCACCGCAGCCTCAACCCAAACCAAGAAGCTCATGAAGCTCGGCCTCTCTCTTTTCCGATGGGGCTTCAACTCCTCCAAATGCAAAACAGCGGCGAAGATGGCGGTGGCGAGAATAAAGCTGCTGAGGAACAAGAGGCAGGTGGTGGTGAAGCAGATGAGGCGTGACATTGCTTCTCTGCTTCAGAAAGGTGAAGACGCCACTGCTCGTATCCGGGTTGAACATGTGATTAGAGAACAGAATGTTTTGGCTGCCAATGAGTTCATTGAGCTGTTCTGTGAGTTAATCGTGTCTAGACTTCAAATCATCGCTAAGCAAAGGGAGTGCCCGGCTGATCTCAAAGAAGGGATTGCTAGCTTAATCTTTGCAACACCAAGGTGCTCTGAGATTCCGGAACTGGTGGCACTAAGGAATATCTTTGAGAAGAAATATGGAAGAGATTTCGTAGCTGCAGCTACTGATTTGCGACCTGGATGTGGTGTGAATCGCATTCTCATTGACAAGCTGTCTGTTAGAACCCCTACGGGTGAAGTAAAGCTGAAAATCATGAAGGAAATAGCGAAGGAATACCAGGTTGATTGGGATACAACAGAATCTGAACAAGAACTTCTCAAACCTCCAGAAGAGACTCTAGATGGACCGCGTACTTTTGTTAGTGCTACCAGCTTGCCTGTGACAACCCAATCTTTTGAGTCTAACAAGTCAGAAACCAGGCTTTCTTCCAGTTCGTTGCGCAGAACAAGTGGTGGTGGACAGAGGGAAACCAGTTCTACGCGCAGAATGAGTGATGGTGGAGAAAGGGAAACTAGTTCCTTTCGCAGAACAAGCGGTGGTGGAGAAAGAGAAACCAGAACAAGTGGTGGTGGAGAAAGGGGACATTTGCAATTTGCAGACTCGGCATCAGCTGCCGCAGCAGCTGCAAAATCTGCCAGTGATGCAATGGCGGCTGCACAAGTGGCTGCATTTCTGGCCAACAAAGACTCCAATCGGGCATCTGCTAATGAATTTAAAACCCTTTCGAGCAATTCCACCGGCCAACAAGGACCAGATAGTCCAGCTCTTGACTCTTATGACATGGATCATCAATATGAAGCTGAGGGAAAAACACACTGGGCGGAGAGTTTGGACAGGTCATATTCTTCAAACAATGACGTTAACCATGGAGGAGAGGGGAAGAATTTTGTCTATAGACGATACAGCTACAATGCTGCACCATCAGAAAATTCAGGTATCAAGTTTGATGAATCAGACACCGATGAAGAGATTGAAATGGAAGCACCTCCTAGTGGGAATTATCAAGGGCCCGAGCGTCCTCCACCACCAGTACCATCGGGAACTGTTAGGCAGGACTCACTTCATCGCGTTCATCCCAAATTGCCTGATTACGATACACTTGCTGCTCGCTTTGATGCCCTTAAGCATCATCACAAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Methyltrn_RNA_3

Protein Analysis

480

Amino Acids

52.87

Weight (kDa)

8.42

Isoelectric Point (pI)

49.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ist1 PF03398 32 - 196 2.1e-61 Regulator of Vps4 activity in the MVB pathway
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 139
AasI GACNNNNNNGTC 1 cut(s) 1059
Acc16I TGCGCA 1 cut(s) 743
Acc36I ACCTGC 1 cut(s) 139
AccII CGCG 3 cut(s) 652, 784, 1371
AccIII TCCGGA 1 cut(s) 400
AciI CCGC 8 cut(s) 15, 101, 113, 650, 837, 918, 953, 1124
AclWI GGATC 1 cut(s) 1095
AcoI YGGCCR 2 cut(s) 978, 1042
AcsI RAATTY 3 cut(s) 1013, 1186, 1231
AcuI CTGAAG 1 cut(s) 176
AcyI GRCGYC 1 cut(s) 207
AfaI GTAC 2 cut(s) 655, 1335
AfiI CCNNNNNNNGG 2 cut(s) 485, 1295
AflII CTTAAG 1 cut(s) 1424
AflIII ACRYGT 1 cut(s) 232
AgsI TTSAA 5 cut(s) 79, 230, 311, 1152, 1277
AhdI GACNNNNNGTC 1 cut(s) 514
AhlI ACTAGT 1 cut(s) 815
AjnI CCWGG 3 cut(s) 478, 579, 719
AleI CACNNNNGTG 1 cut(s) 385
Alw21I GWGCWC 1 cut(s) 392
Alw26I GTCTC 1 cut(s) 629
AlwI GGATC 1 cut(s) 1095
AlwNI CAGNNNCTG 3 cut(s) 467, 605, 926
Ama87I CYCGRG 1 cut(s) 1313
Aor13HI TCCGGA 1 cut(s) 400
AoxI GGCC 4 cut(s) 52, 978, 1042, 1310
ApaI GGGCCC 1 cut(s) 1314
ApoI RAATTY 3 cut(s) 1013, 1186, 1231
AspLEI GCGC 2 cut(s) 744, 786
AspS9I GGNCC 4 cut(s) 647, 1052, 1310, 1311
AsuC2I CCSGG 2 cut(s) 224, 338
AsuHPI GGTGA 3 cut(s) 169, 212, 548
AsuNHI GCTAGC 1 cut(s) 362
AvaI CYCGRG 1 cut(s) 1313
AvaII GGWCC 2 cut(s) 647, 1052
BaeGI GKGCMC 2 cut(s) 338, 1314
BalI TGGCCA 1 cut(s) 980
BanII GRGCYC 1 cut(s) 1314
BbsI GAAGAC 1 cut(s) 210
Bbv12I GWGCWC 1 cut(s) 392
BbvCI CCTCAGC 2 cut(s) 134, 1104
BccI CCATC 6 cut(s) 63, 103, 638, 791, 1231, 1345
BcgI CGANNNNNNTGC 2 cut(s) 1385, 1419
BciT130I CCWGG 3 cut(s) 480, 581, 721
BciVI GTATCC 2 cut(s) 230, 586
BcnI CCSGG 2 cut(s) 224, 338
BcoDI GTCTC 1 cut(s) 629
BcuI ACTAGT 1 cut(s) 815
BfaI CTAG 5 cut(s) 303, 363, 641, 816, 1293
BfmI CTRYAG 2 cut(s) 459, 1195
BfrI CTTAAG 1 cut(s) 1424
BfuAI ACCTGC 1 cut(s) 139
BfuI GTATCC 2 cut(s) 230, 586
BlpI GCTNAGC 1 cut(s) 321
Bme1390I CCNGG 5 cut(s) 224, 338, 480, 581, 721
Bme18I GGWCC 2 cut(s) 647, 1052
BmeRI GACNNNNNGTC 1 cut(s) 514
BmeT110I CYCGRG 1 cut(s) 1313
BmgT120I GGNCC 4 cut(s) 647, 1052, 1310, 1311
BmiI GGNNCC 1 cut(s) 1312
BmrFI CCNGG 5 cut(s) 224, 338, 480, 581, 721
BmrI ACTGGG 1 cut(s) 1129
BmsI GCATC 5 cut(s) 917, 934, 1010, 1408, 1438
BmtI GCTAGC 1 cut(s) 366
BmuI ACTGGG 1 cut(s) 1129
BpiI GAAGAC 1 cut(s) 210
BpmI CTGGAG 1 cut(s) 612
Bpu10I CCTNAGC 2 cut(s) 134, 1104
Bpu1102I GCTNAGC 1 cut(s) 321
BpuMI CCSGG 2 cut(s) 224, 338
BsaHI GRCGYC 1 cut(s) 207
BsaJI CCNNGG 2 cut(s) 383, 1168
BsaWI WCCGGW 1 cut(s) 400
BsaXI ACNNNNNCTCC 2 cut(s) 974, 1004
Bsc4I CCNNNNNNNGG 2 cut(s) 485, 1295
Bse118I RCCGGY 1 cut(s) 1040
Bse1I ACTGG 6 cut(s) 411, 732, 774, 939, 1124, 1331
Bse3DI GCAATG 2 cut(s) 177, 954
BseAI TCCGGA 1 cut(s) 400
BseBI CCWGG 3 cut(s) 480, 581, 721
BseDI CCNNGG 2 cut(s) 383, 1168
BseGI GGATG 2 cut(s) 488, 1375
BseLI CCNNNNNNNGG 2 cut(s) 485, 1295
BseMI GCAATG 2 cut(s) 177, 954
BseMII CTCAG 3 cut(s) 125, 384, 1095
BseNI ACTGG 6 cut(s) 411, 732, 774, 939, 1124, 1331
BseRI GAGGAG 2 cut(s) 73, 1188
BseSI GKGCMC 2 cut(s) 338, 1314
BsgI GTGCAG 2 cut(s) 942, 1203
Bsh1236I CGCG 3 cut(s) 652, 784, 1371
BshFI GGCC 4 cut(s) 54, 980, 1044, 1312
BsiHKAI GWGCWC 1 cut(s) 392
BsiHKCI CYCGRG 1 cut(s) 1313
BsiSI CCGG 4 cut(s) 223, 338, 401, 1041
BslFI GGGAC 1 cut(s) 897
BslI CCNNNNNNNGG 2 cut(s) 485, 1295
BsmAI GTCTC 1 cut(s) 629
BsmFI GGGAC 1 cut(s) 897
BsmI GAATGC 1 cut(s) 498
BsnI GGCC 4 cut(s) 54, 980, 1044, 1312
BsoBI CYCGRG 1 cut(s) 1313
Bsp120I GGGCCC 1 cut(s) 1310
Bsp1286I GDGCHC 3 cut(s) 338, 392, 1314
Bsp13I TCCGGA 1 cut(s) 400
Bsp143I GATC 2 cut(s) 343, 1087
Bsp1720I GCTNAGC 1 cut(s) 321
Bsp19I CCATGG 1 cut(s) 1168
BspACI CCGC 8 cut(s) 15, 101, 113, 650, 837, 918, 953, 1124
BspANI GGCC 4 cut(s) 54, 980, 1044, 1312
BspCNI CTCAG 3 cut(s) 126, 385, 1096
BspEI TCCGGA 1 cut(s) 400
BspFNI CGCG 3 cut(s) 652, 784, 1371
BspHI TCATGA 2 cut(s) 42, 555
BspLI GGNNCC 1 cut(s) 1312
BspMAI CTGCAG 1 cut(s) 463
BspMI ACCTGC 1 cut(s) 139
BspOI GCTAGC 1 cut(s) 366
BspPI GGATC 1 cut(s) 1095
BspTI CTTAAG 1 cut(s) 1424
BsrDI GCAATG 2 cut(s) 177, 954
BsrFI RCCGGY 1 cut(s) 1040
BsrI ACTGG 6 cut(s) 411, 732, 774, 939, 1124, 1331
BssAI RCCGGY 1 cut(s) 1040
BssECI CCNNGG 2 cut(s) 383, 1168
BssMI GATC 2 cut(s) 343, 1087
BssNI GRCGYC 1 cut(s) 207
BssT1I CCWWGG 2 cut(s) 383, 1168
Bst2UI CCWGG 3 cut(s) 480, 581, 721
Bst4CI ACNGT 2 cut(s) 7, 1348
Bst6I CTCTTC 3 cut(s) 439, 627, 1263
BstACI GRCGYC 1 cut(s) 207
BstAFI CTTAAG 1 cut(s) 1424
BstAPI GCANNNNNTGC 3 cut(s) 914, 926, 935
BstC8I GCNNGC 3 cut(s) 364, 677, 1411
BstDEI CTNAG 5 cut(s) 134, 321, 393, 416, 1104
BstDSI CCRYGG 1 cut(s) 1168
BstF5I GGATG 2 cut(s) 488, 1375
BstFNI CGCG 3 cut(s) 652, 784, 1371
BstHHI GCGC 2 cut(s) 744, 786
BstKTI GATC 2 cut(s) 346, 1090
BstMAI GTCTC 1 cut(s) 629
BstMBI GATC 2 cut(s) 343, 1087
BstNI CCWGG 3 cut(s) 480, 581, 721
BstNSI RCATGY 1 cut(s) 236
BstSCI CCNGG 5 cut(s) 222, 336, 478, 579, 719
BstSFI CTRYAG 2 cut(s) 459, 1195
BstSLI GKGCMC 2 cut(s) 338, 1314
BstUI CGCG 3 cut(s) 652, 784, 1371
BstV2I GAAGAC 1 cut(s) 210
BsuI GTATCC 2 cut(s) 230, 586
BsuRI GGCC 4 cut(s) 54, 980, 1044, 1312
BtgI CCRYGG 1 cut(s) 1168
BtgZI GCGATG 2 cut(s) 301, 1352
BtsCI GGATG 2 cut(s) 488, 1375
BtsI GCAGTG 1 cut(s) 210
BtsIMutI CAGTG 3 cut(s) 210, 946, 1117
BveI ACCTGC 1 cut(s) 139
Cac8I GCNNGC 3 cut(s) 364, 677, 1411
CaiI CAGNNNCTG 3 cut(s) 467, 605, 926
CciI TCATGA 2 cut(s) 42, 555
CfoI GCGC 2 cut(s) 744, 786
Cfr10I RCCGGY 1 cut(s) 1040
Cfr13I GGNCC 4 cut(s) 647, 1052, 1310, 1311
CseI GACGC 2 cut(s) 215, 1307
CsiI ACCWGGT 1 cut(s) 579
Csp6I GTAC 2 cut(s) 654, 1334
CviAII CATG 5 cut(s) 43, 233, 556, 1084, 1169
CviQI GTAC 2 cut(s) 654, 1334
DdeI CTNAG 5 cut(s) 134, 321, 393, 416, 1104
DpnI GATC 2 cut(s) 345, 1089
DpnII GATC 2 cut(s) 343, 1087
DraI TTTAAA 1 cut(s) 1018
DrdI GACNNNNNNGTC 1 cut(s) 1059
DriI GACNNNNNGTC 1 cut(s) 514
DseDI GACNNNNNNGTC 1 cut(s) 1059
EaeI YGGCCR 2 cut(s) 978, 1042
Eam1104I CTCTTC 3 cut(s) 439, 627, 1263
Eam1105I GACNNNNNGTC 1 cut(s) 514
EarI CTCTTC 3 cut(s) 439, 627, 1263
EciI GGCGGA 1 cut(s) 1139
Eco130I CCWWGG 2 cut(s) 383, 1168
Eco24I GRGCYC 1 cut(s) 1314
Eco47I GGWCC 2 cut(s) 647, 1052
Eco57I CTGAAG 1 cut(s) 176
Eco88I CYCGRG 1 cut(s) 1313
EcoO109I RGGNCCY 1 cut(s) 1310
EcoRII CCWGG 3 cut(s) 478, 579, 719
EcoT14I CCWWGG 2 cut(s) 383, 1168
EcoT38I GRGCYC 1 cut(s) 1314
ErhI CCWWGG 2 cut(s) 383, 1168
FaeI CATG 5 cut(s) 46, 236, 559, 1087, 1172
FaqI GGGAC 1 cut(s) 897
FatI CATG 5 cut(s) 42, 232, 555, 1083, 1168
FokI GGATG 2 cut(s) 495, 1362
FriOI GRGCYC 1 cut(s) 1314
FspBI CTAG 5 cut(s) 303, 363, 641, 816, 1293
FspI TGCGCA 1 cut(s) 743
GlaI GCGC 2 cut(s) 743, 785
GsuI CTGGAG 1 cut(s) 612
HaeIII GGCC 4 cut(s) 54, 980, 1044, 1312
HapII CCGG 4 cut(s) 223, 338, 401, 1041
HgaI GACGC 2 cut(s) 215, 1307
HhaI GCGC 2 cut(s) 744, 786
Hin1I GRCGYC 1 cut(s) 207
Hin1II CATG 5 cut(s) 46, 236, 559, 1087, 1172
Hin6I GCGC 2 cut(s) 742, 784
HinP1I GCGC 2 cut(s) 742, 784
HincII GTYRAC 1 cut(s) 1165
HindII GTYRAC 1 cut(s) 1165
HpaI GTTAAC 1 cut(s) 1165
HpaII CCGG 4 cut(s) 223, 338, 401, 1041
HphI GGTGA 3 cut(s) 169, 212, 548
Hpy166II GTNNAC 2 cut(s) 761, 1165
Hpy188I TCNGA 7 cut(s) 68, 195, 394, 607, 715, 1228, 1258
Hpy188III TCNNGA 8 cut(s) 43, 303, 401, 556, 629, 641, 1070, 1341
Hpy8I GTNNAC 2 cut(s) 761, 1165
Hpy99I CGWCG 1 cut(s) 11
HpyAV CCTTC 3 cut(s) 347, 553, 565
HpyCH4III ACNGT 2 cut(s) 7, 1348
HpyCH4IV ACGT 1 cut(s) 1161
HpyF3I CTNAG 5 cut(s) 134, 321, 393, 416, 1104
HpySE526I ACGT 1 cut(s) 1161
Hsp92I GRCGYC 1 cut(s) 207
Hsp92II CATG 5 cut(s) 46, 236, 559, 1087, 1172
HspAI GCGC 2 cut(s) 742, 784
Kpn2I TCCGGA 1 cut(s) 400
KspAI GTTAAC 1 cut(s) 1165
Kzo9I GATC 2 cut(s) 343, 1087
LweI GCATC 5 cut(s) 917, 934, 1010, 1408, 1438
MabI ACCWGGT 1 cut(s) 579
MaeI CTAG 5 cut(s) 303, 363, 641, 816, 1293
MaeII ACGT 1 cut(s) 1161
MaeIII GTNAC 2 cut(s) 173, 682
MalI GATC 2 cut(s) 345, 1089
MboI GATC 2 cut(s) 343, 1087
MboII GAAGA 9 cut(s) 118, 215, 445, 456, 644, 720, 1140, 1195, 1280
MhlI GDGCHC 3 cut(s) 338, 392, 1314
MlsI TGGCCA 1 cut(s) 980
MluCI AATT 7 cut(s) 893, 1013, 1033, 1186, 1231, 1300, 1382
MluNI TGGCCA 1 cut(s) 980
MlyI GAGTC 6 cut(s) 631, 710, 896, 983, 1067, 1352
Mox20I TGGCCA 1 cut(s) 980
MroI TCCGGA 1 cut(s) 400
MscI TGGCCA 1 cut(s) 980
MseI TTAA 5 cut(s) 293, 368, 1017, 1164, 1425
MslI CAYNNNNRTG 2 cut(s) 385, 1095
Msp20I TGGCCA 1 cut(s) 980
MspA1I CMGCKG 3 cut(s) 101, 914, 926
MspCI CTTAAG 1 cut(s) 1424
MspI CCGG 4 cut(s) 223, 338, 401, 1041
MspR9I CCNGG 5 cut(s) 224, 338, 480, 581, 721
Mva1269I GAATGC 1 cut(s) 498
MvaI CCWGG 3 cut(s) 480, 581, 721
MvnI CGCG 3 cut(s) 652, 784, 1371
NciI CCSGG 2 cut(s) 224, 338
NcoI CCATGG 1 cut(s) 1168
NdeII GATC 2 cut(s) 343, 1087
NheI GCTAGC 1 cut(s) 362
NlaIII CATG 5 cut(s) 46, 236, 559, 1087, 1172
NlaIV GGNNCC 1 cut(s) 1312
NmeAIII GCCGAG 2 cut(s) 30, 884
NmuCI GTSAC 2 cut(s) 173, 682
NsbI TGCGCA 1 cut(s) 743
NspI RCATGY 1 cut(s) 236
OliI CACNNNNGTG 1 cut(s) 385
PagI TCATGA 2 cut(s) 42, 555
PaqCI CACCTGC 1 cut(s) 139
PciI ACATGT 1 cut(s) 232
PctI GAATGC 1 cut(s) 498
PfeI GAWTC 4 cut(s) 397, 493, 602, 1253
PleI GAGTC 6 cut(s) 631, 709, 896, 983, 1067, 1352
PpsI GAGTC 6 cut(s) 631, 709, 896, 983, 1067, 1352
PscI ACATGT 1 cut(s) 232
Psp6I CCWGG 3 cut(s) 478, 579, 719
PspGI CCWGG 3 cut(s) 478, 579, 719
PspN4I GGNNCC 1 cut(s) 1312
PspOMI GGGCCC 1 cut(s) 1310
PspPI GGNCC 4 cut(s) 647, 1052, 1310, 1311
PstI CTGCAG 1 cut(s) 463
PstNI CAGNNNCTG 3 cut(s) 467, 605, 926
PvuII CAGCTG 2 cut(s) 914, 926
RsaI GTAC 2 cut(s) 655, 1335
RsaNI GTAC 2 cut(s) 654, 1334
RseI CAYNNNNRTG 2 cut(s) 385, 1095
SaqAI TTAA 5 cut(s) 293, 368, 1017, 1164, 1425
Sau3AI GATC 2 cut(s) 343, 1087
Sau96I GGNCC 4 cut(s) 647, 1052, 1310, 1311
SchI GAGTC 6 cut(s) 631, 710, 896, 983, 1067, 1352
ScrFI CCNGG 5 cut(s) 224, 338, 480, 581, 721
SduI GDGCHC 3 cut(s) 338, 392, 1314
SexAI ACCWGGT 1 cut(s) 579
SfaNI GCATC 5 cut(s) 917, 934, 1010, 1408, 1438
SfcI CTRYAG 2 cut(s) 459, 1195
SinI GGWCC 2 cut(s) 647, 1052
SmiMI CAYNNNNRTG 2 cut(s) 385, 1095
SmlI CTYRAG 1 cut(s) 1424
SmoI CTYRAG 1 cut(s) 1424
SpeI ACTAGT 1 cut(s) 815
Sse9I AATT 7 cut(s) 893, 1013, 1033, 1186, 1231, 1300, 1382
SsiI CCGC 8 cut(s) 15, 101, 113, 650, 837, 918, 953, 1124
SspMI CTAG 5 cut(s) 303, 363, 641, 816, 1293
StyD4I CCNGG 5 cut(s) 222, 336, 478, 579, 719
StyI CCWWGG 2 cut(s) 383, 1168
TaaI ACNGT 2 cut(s) 7, 1348
TaiI ACGT 1 cut(s) 1164
TaqI TCGA 1 cut(s) 1028
TasI AATT 7 cut(s) 893, 1013, 1033, 1186, 1231, 1300, 1382
TauI GCSGC 3 cut(s) 104, 920, 956
TfiI GAWTC 4 cut(s) 397, 493, 602, 1253
Tru1I TTAA 5 cut(s) 293, 368, 1017, 1164, 1425
Tru9I TTAA 5 cut(s) 293, 368, 1017, 1164, 1425
TscAI CASTG 3 cut(s) 217, 946, 1124
TseFI GTSAC 2 cut(s) 173, 682
Tsp45I GTSAC 2 cut(s) 173, 682
TspDTI ATGAA 9 cut(s) 59, 262, 572, 1026, 1113, 1266, 1281, 1355, 1364
TspRI CASTG 3 cut(s) 217, 946, 1124
Vha464I CTTAAG 1 cut(s) 1424
VpaK11BI GGWCC 2 cut(s) 647, 1052
XapI RAATTY 3 cut(s) 1013, 1186, 1231
XbaI TCTAGA 2 cut(s) 302, 640
XceI RCATGY 1 cut(s) 236
XcmI CCANNNNNNNNNTGG 1 cut(s) 946
XspI CTAG 5 cut(s) 303, 363, 641, 816, 1293
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.