Rroxscaffold_1G00055640

Ribosomal RNA large subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0008663
Physical Location & Seq
Forward (+)
77204272 .. 77208921
4650 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00055640.1

Sequence Viewer

Length: 1440 bp
ATGCAGCATTTTCCAGCCCGCCTGATAAAGTCCCTGTCTACTTCTGCTTCCTTACCATGCACCACCACTACCCTCCAAGAACTTGCTTCTGCTCACCCCAAAGGTGGTTTCGGTGACTGGTTGAATACAAGAAATGGTGTTGCGAGGGTTGTACTCAAGAAGGGGAAGACACAGCTATTCAAGGATGGAAGTCCAATGGTTTATAGTGGAGCAGTTGATAGAATAATTGGGAGACCGCCACCAAGAACTGGAGATGTTGTGCTAGTAGCTGATGGAGCAGAAAAGCCAATAGGGTGGGGCATGTATAATTCAGTCTCCATGTTCTGTGTCCGGCTTATGCAGCTGGATGAGGAAGCAATAAGGGATTGTTCATGTGCATTGAATATGGAGAAACTGCTTGAGACAAGAATTAATGAAGCTATAGAGCTACGTAAGAGTTTGGGGCTTCCATCAGCTAGTACAAATGCATTTCGTCTTGTCAATAGTGAAGGAGACAGATTATCAGGCCTAATAATTGACATATTTGGAGATGTAGCAGTAATAGCATCATCTGCCGCTTGGGTTGAGAAGTACAAAGCAGAAATAGAGGCTTGTGTTGGTAGAATCAATGAAATTAATCACATCAACTGGAGACCATCTGTGGAAATTTTAAAAGAAGAAGGATTGGATGTGTCAAATTTGAAGGAAATGGATCCATCTATTTGCCCTCAGAGAACAAAGGTTATGGAAAACGGGATTTTTTATGCCATTTCACTTGAAGGGCAGAAGACAGGGTTCTATGCTGATCAGCGTGAAAACCGCAAATTCATATCAACAATTTCAGACAATCAGAAAGTTCTTGATATCTGCTGCTATAGTGGTGGTTTTGCGCTAAATGCTGCACGAGGTGGTGCTGTGAATGTCACAGGTGTTGACTCATCCTTGGGTGCAATCGAATTAGCTAAAGAAAATATTGCTCTTAACAACATGGATCCAGGATTAATATCATTTGTGAAAGAAGATGCAAGTGAGTTTATGAAGGGTGCTCTTTCTAGGAATGAATCATTTGATATTGTCATCTTAGATCCTCCTAAACTAGCACCACGAAAGAAGGTTTTACAAAATGCATCAGGCATGTATAGAAATTTAAATTCATTAGCAATGCAATTGACAAGGAAAGGTGGCCTTCTCATGACTTGTTCGTGTTCAGGAGCGATGACCCAAAGTGGGACGTTCTTGCGCATTCTTCAGGCAATTAAAACTACTAAATTTCAAGTTGTTATAAGATTCTGGATTTTGTTTAGGATCAAGTACACTACGTACAATACAGAGACTGCAGCATCAGCAGCAGGTAGAAAAATAACCGTTCTCAGGGATGCTGGAGCAGCATGTGATCATACCATTGACCCATCCTACCCAGAAGGCAAATACCTTTCCAACATTCTCCTGAGGGTGCTTTGA
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
Methyltrans_SAM

Protein Analysis

479

Amino Acids

52.44

Weight (kDa)

8.74

Isoelectric Point (pI)

33.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PUA_3 PF17785 50 - 113 4.6e-10 PUA-like domain
Methyltrans_SAM PF10672 240 - 399 8.1e-16 S-adenosylmethionine-dependent methyltransferase
TRM5-TYW2_MTfase PF02475 241 - 358 6e-06 TRM5/TYW2 methyltransferase domain
MTS PF05175 271 - 391 2e-08 Methyltransferase small domain
PrmA PF06325 273 - 353 8.3e-08 Ribosomal protein L11 methyltransferase (PrmA)
Methyltransf_31 PF13847 274 - 403 3.7e-11 Methyltransferase domain
Cons_hypoth95 PF03602 275 - 357 1.9e-08 Conserved hypothetical protein 95
Methyltransf_25 PF13649 279 - 363 1.6e-08 Methyltransferase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1262
Acc16I TGCGCA 1 cut(s) 1220
Acc36I ACCTGC 1 cut(s) 1319
AccB7I CCANNNNNTGG 1 cut(s) 248
AccI GTMKAC 1 cut(s) 38
AciI CCGC 4 cut(s) 19, 236, 555, 799
AclWI GGATC 6 cut(s) 686, 699, 965, 978, 1058, 1292
AcsI RAATTY 6 cut(s) 645, 676, 803, 1123, 1129, 1247
AcuI CTGAAG 1 cut(s) 1211
AdeI CACNNNGTG 1 cut(s) 887
AfaI GTAC 5 cut(s) 153, 460, 572, 1292, 1301
AfiI CCNNNNNNNGG 4 cut(s) 104, 248, 1206, 1350
AgsI TTSAA 6 cut(s) 124, 181, 382, 682, 758, 1253
AjnI CCWGG 1 cut(s) 973
AjuI GAANNNNNNNTTGG 2 cut(s) 92, 124
AluBI AGCT 7 cut(s) 175, 269, 343, 419, 427, 455, 941
AluI AGCT 7 cut(s) 175, 269, 343, 419, 427, 455, 941
Alw21I GWGCWC 1 cut(s) 1027
Alw26I GTCTC 6 cut(s) 226, 319, 395, 486, 625, 1304
AlwI GGATC 6 cut(s) 686, 699, 965, 978, 1058, 1292
AlwNI CAGNNNCTG 1 cut(s) 1313
AoxI GGCC 2 cut(s) 505, 1162
ApeKI GCWGC 7 cut(s) 4, 340, 849, 878, 1316, 1325, 1364
ApoI RAATTY 6 cut(s) 645, 676, 803, 1123, 1129, 1247
AseI ATTAAT 3 cut(s) 411, 615, 980
AspLEI GCGC 2 cut(s) 871, 1221
AsuHPI GGTGA 2 cut(s) 86, 125
AxyI CCTNAGG 1 cut(s) 1427
BamHI GGATCC 2 cut(s) 691, 970
BauI CACGAG 1 cut(s) 882
BbsI GAAGAC 2 cut(s) 173, 773
Bbv12I GWGCWC 1 cut(s) 1027
BbvI GCAGC 7 cut(s) 16, 352, 836, 865, 1328, 1337, 1376
BccI CCATC 6 cut(s) 179, 266, 457, 643, 703, 1396
BciT130I CCWGG 1 cut(s) 975
BclI TGATCA 2 cut(s) 784, 1372
BcoDI GTCTC 6 cut(s) 226, 319, 395, 486, 625, 1304
BfaI CTAG 4 cut(s) 263, 456, 1032, 1076
BfmI CTRYAG 3 cut(s) 420, 853, 1314
BfuAI ACCTGC 1 cut(s) 1319
BisI GCNGC 8 cut(s) 5, 341, 555, 850, 879, 1317, 1326, 1365
BlsI GCNGC 8 cut(s) 6, 342, 556, 851, 880, 1318, 1327, 1366
Bme1390I CCNGG 1 cut(s) 975
BmiI GGNNCC 2 cut(s) 693, 972
BmrFI CCNGG 1 cut(s) 975
BmsI GCATC 5 cut(s) 554, 991, 1115, 1328, 1345
BpiI GAAGAC 2 cut(s) 173, 773
BpmI CTGGAG 3 cut(s) 270, 649, 1380
BpuEI CTTGAG 2 cut(s) 140, 419
BsaAI YACGTR 2 cut(s) 431, 1299
BsaBI GATNNNNATC 1 cut(s) 982
BsaI GGTCTC 2 cut(s) 226, 625
BsaJI CCNNGG 1 cut(s) 921
BsaXI ACNNNNNCTCC 2 cut(s) 243, 273
Bsc4I CCNNNNNNNGG 4 cut(s) 104, 248, 1206, 1350
Bse1I ACTGG 3 cut(s) 122, 253, 632
Bse21I CCTNAGG 1 cut(s) 1427
Bse3DI GCAATG 1 cut(s) 1146
Bse8I GATNNNNATC 1 cut(s) 982
BseBI CCWGG 1 cut(s) 975
BseDI CCNNGG 1 cut(s) 921
BseGI GGATG 6 cut(s) 190, 352, 673, 917, 1360, 1388
BseJI GATNNNNATC 1 cut(s) 982
BseLI CCNNNNNNNGG 4 cut(s) 104, 248, 1206, 1350
BseMI GCAATG 1 cut(s) 1146
BseMII CTCAG 3 cut(s) 722, 1363, 1418
BseNI ACTGG 3 cut(s) 122, 253, 632
BseXI GCAGC 7 cut(s) 16, 352, 836, 865, 1328, 1337, 1376
BsgI GTGCAG 1 cut(s) 864
BshFI GGCC 2 cut(s) 507, 1164
BsiHKAI GWGCWC 1 cut(s) 1027
BsiSI CCGG 1 cut(s) 331
BslFI GGGAC 2 cut(s) 16, 1222
BslI CCNNNNNNNGG 4 cut(s) 104, 248, 1206, 1350
BsmAI GTCTC 6 cut(s) 226, 319, 395, 486, 625, 1304
BsmFI GGGAC 2 cut(s) 16, 1222
BsmI GAATGC 1 cut(s) 1221
BsnI GGCC 2 cut(s) 507, 1164
Bso31I GGTCTC 2 cut(s) 226, 625
Bsp1286I GDGCHC 1 cut(s) 1027
Bsp143I GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
BspACI CCGC 4 cut(s) 19, 236, 555, 799
BspANI GGCC 2 cut(s) 507, 1164
BspCNI CTCAG 3 cut(s) 721, 1362, 1419
BspHI TCATGA 1 cut(s) 1170
BspLI GGNNCC 2 cut(s) 693, 972
BspMAI CTGCAG 1 cut(s) 1318
BspMI ACCTGC 1 cut(s) 1319
BspPI GGATC 6 cut(s) 686, 699, 965, 978, 1058, 1292
BspTNI GGTCTC 2 cut(s) 226, 625
BsrDI GCAATG 1 cut(s) 1146
BsrI ACTGG 3 cut(s) 122, 253, 632
BssECI CCNNGG 1 cut(s) 921
BssMI GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
BssSI CACGAG 1 cut(s) 882
BssT1I CCWWGG 1 cut(s) 921
Bst2BI CACGAG 1 cut(s) 882
Bst2UI CCWGG 1 cut(s) 975
Bst4CI ACNGT 1 cut(s) 1345
BstAPI GCANNNNNTGC 1 cut(s) 551
BstBAI YACGTR 2 cut(s) 431, 1299
BstC8I GCNNGC 1 cut(s) 19
BstDEI CTNAG 4 cut(s) 708, 1060, 1349, 1427
BstF5I GGATG 6 cut(s) 190, 352, 673, 917, 1360, 1388
BstHHI GCGC 2 cut(s) 871, 1221
BstKTI GATC 6 cut(s) 694, 787, 973, 1066, 1287, 1375
BstMAI GTCTC 6 cut(s) 226, 319, 395, 486, 625, 1304
BstMBI GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
BstMWI GCNNNNNNNGC 8 cut(s) 275, 340, 542, 551, 875, 1322, 1325, 1364
BstNI CCWGG 1 cut(s) 975
BstNSI RCATGY 3 cut(s) 304, 1117, 1371
BstSCI CCNGG 1 cut(s) 973
BstSFI CTRYAG 3 cut(s) 420, 853, 1314
BstSNI TACGTA 2 cut(s) 431, 1299
BstV1I GCAGC 7 cut(s) 16, 352, 836, 865, 1328, 1337, 1376
BstV2I GAAGAC 2 cut(s) 173, 773
BstX2I RGATCY 3 cut(s) 691, 970, 1063
BstXI CCANNNNNNTGG 1 cut(s) 294
BstYI RGATCY 3 cut(s) 691, 970, 1063
Bsu36I CCTNAGG 1 cut(s) 1427
BsuRI GGCC 2 cut(s) 507, 1164
BtgZI GCGATG 1 cut(s) 1208
BtsCI GGATG 6 cut(s) 190, 352, 673, 917, 1360, 1388
BveI ACCTGC 1 cut(s) 1319
Cac8I GCNNGC 1 cut(s) 19
CaiI CAGNNNCTG 1 cut(s) 1313
CciI TCATGA 1 cut(s) 1170
CfoI GCGC 2 cut(s) 871, 1221
Csp6I GTAC 5 cut(s) 152, 459, 571, 1291, 1300
CviAII CATG 8 cut(s) 57, 301, 319, 372, 967, 1114, 1171, 1368
CviQI GTAC 5 cut(s) 152, 459, 571, 1291, 1300
DdeI CTNAG 4 cut(s) 708, 1060, 1349, 1427
DpnI GATC 6 cut(s) 693, 786, 972, 1065, 1286, 1374
DpnII GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
DraI TTTAAA 2 cut(s) 651, 1128
DraIII CACNNNGTG 1 cut(s) 887
Eco105I TACGTA 2 cut(s) 431, 1299
Eco130I CCWWGG 1 cut(s) 921
Eco147I AGGCCT 1 cut(s) 507
Eco31I GGTCTC 2 cut(s) 226, 625
Eco32I GATATC 1 cut(s) 844
Eco57I CTGAAG 1 cut(s) 1211
Eco81I CCTNAGG 1 cut(s) 1427
EcoRII CCWGG 1 cut(s) 973
EcoRV GATATC 1 cut(s) 844
EcoT14I CCWWGG 1 cut(s) 921
EcoT22I ATGCAT 2 cut(s) 469, 1108
ErhI CCWWGG 1 cut(s) 921
FaeI CATG 8 cut(s) 60, 304, 322, 375, 970, 1117, 1174, 1371
FalI AAGNNNNNCTT 2 cut(s) 1149, 1181
FaqI GGGAC 2 cut(s) 16, 1222
FatI CATG 8 cut(s) 56, 300, 318, 371, 966, 1113, 1170, 1367
FauI CCCGC 1 cut(s) 26
FbaI TGATCA 2 cut(s) 784, 1372
FblI GTMKAC 1 cut(s) 38
Fnu4HI GCNGC 8 cut(s) 5, 341, 555, 850, 879, 1317, 1326, 1365
FokI GGATG 6 cut(s) 197, 359, 680, 904, 1367, 1375
Fsp4HI GCNGC 8 cut(s) 5, 341, 555, 850, 879, 1317, 1326, 1365
FspBI CTAG 4 cut(s) 263, 456, 1032, 1076
FspI TGCGCA 1 cut(s) 1220
GlaI GCGC 2 cut(s) 870, 1220
GluI GCNGC 8 cut(s) 5, 341, 555, 850, 879, 1317, 1326, 1365
GsuI CTGGAG 3 cut(s) 270, 649, 1380
HaeIII GGCC 2 cut(s) 507, 1164
HapII CCGG 1 cut(s) 331
HhaI GCGC 2 cut(s) 871, 1221
Hin1II CATG 8 cut(s) 60, 304, 322, 375, 970, 1117, 1174, 1371
Hin6I GCGC 2 cut(s) 869, 1219
HinP1I GCGC 2 cut(s) 869, 1219
HincII GTYRAC 1 cut(s) 913
HindII GTYRAC 1 cut(s) 913
HinfI GANTC 4 cut(s) 603, 914, 1040, 1266
HpaII CCGG 1 cut(s) 331
HphI GGTGA 2 cut(s) 86, 125
Hpy166II GTNNAC 3 cut(s) 39, 913, 1293
Hpy188I TCNGA 3 cut(s) 711, 823, 831
Hpy188III TCNNGA 6 cut(s) 157, 839, 1171, 1188, 1270, 1426
Hpy8I GTNNAC 3 cut(s) 39, 913, 1293
HpyAV CCTTC 9 cut(s) 154, 482, 653, 676, 752, 1012, 1084, 1175, 1394
HpyCH4III ACNGT 1 cut(s) 1345
HpyCH4IV ACGT 3 cut(s) 430, 1211, 1298
HpyF10VI GCNNNNNNNGC 8 cut(s) 275, 340, 542, 551, 875, 1322, 1325, 1364
HpyF3I CTNAG 4 cut(s) 708, 1060, 1349, 1427
HpySE526I ACGT 3 cut(s) 430, 1211, 1298
Hsp92II CATG 8 cut(s) 60, 304, 322, 375, 970, 1117, 1174, 1371
HspAI GCGC 2 cut(s) 869, 1219
Ksp22I TGATCA 2 cut(s) 784, 1372
Kzo9I GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
LmnI GCTCC 4 cut(s) 209, 275, 1190, 1361
Lsp1109I GCAGC 7 cut(s) 16, 352, 836, 865, 1328, 1337, 1376
LweI GCATC 5 cut(s) 554, 991, 1115, 1328, 1345
MaeI CTAG 4 cut(s) 263, 456, 1032, 1076
MaeII ACGT 3 cut(s) 430, 1211, 1298
MaeIII GTNAC 2 cut(s) 113, 901
MalI GATC 6 cut(s) 693, 786, 972, 1065, 1286, 1374
MboI GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
MboII GAAGA 5 cut(s) 178, 668, 778, 1010, 1217
MfeI CAATTG 1 cut(s) 1145
MflI RGATCY 3 cut(s) 691, 970, 1063
MhlI GDGCHC 1 cut(s) 1027
MlyI GAGTC 1 cut(s) 908
MmeI TCCRAC 1 cut(s) 1440
MnlI CCTC 8 cut(s) 83, 138, 343, 580, 717, 878, 1077, 1422
Mph1103I ATGCAT 2 cut(s) 469, 1108
MseI TTAA 7 cut(s) 411, 615, 650, 960, 980, 1127, 1236
MspA1I CMGCKG 1 cut(s) 343
MspI CCGG 1 cut(s) 331
MspR9I CCNGG 1 cut(s) 975
MunI CAATTG 1 cut(s) 1145
Mva1269I GAATGC 1 cut(s) 1221
MvaI CCWGG 1 cut(s) 975
MwoI GCNNNNNNNGC 8 cut(s) 275, 340, 542, 551, 875, 1322, 1325, 1364
NdeII GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
NlaIII CATG 8 cut(s) 60, 304, 322, 375, 970, 1117, 1174, 1371
NlaIV GGNNCC 2 cut(s) 693, 972
NmuCI GTSAC 2 cut(s) 113, 901
NsbI TGCGCA 1 cut(s) 1220
NsiI ATGCAT 2 cut(s) 469, 1108
NspI RCATGY 3 cut(s) 304, 1117, 1371
PagI TCATGA 1 cut(s) 1170
PceI AGGCCT 1 cut(s) 507
PctI GAATGC 1 cut(s) 1221
PfeI GAWTC 3 cut(s) 603, 1040, 1266
PflMI CCANNNNNTGG 1 cut(s) 248
PfoI TCCNGGA 1 cut(s) 973
PkrI GCNGC 8 cut(s) 6, 342, 556, 851, 880, 1318, 1327, 1366
PleI GAGTC 1 cut(s) 908
PpsI GAGTC 1 cut(s) 908
Ppu21I YACGTR 2 cut(s) 431, 1299
PshBI ATTAAT 3 cut(s) 411, 615, 980
PsiI TTATAA 1 cut(s) 1262
Psp6I CCWGG 1 cut(s) 973
PspGI CCWGG 1 cut(s) 973
PspN4I GGNNCC 2 cut(s) 693, 972
PstI CTGCAG 1 cut(s) 1318
PstNI CAGNNNCTG 1 cut(s) 1313
PsuI RGATCY 3 cut(s) 691, 970, 1063
PvuII CAGCTG 1 cut(s) 343
RsaI GTAC 5 cut(s) 153, 460, 572, 1292, 1301
RsaNI GTAC 5 cut(s) 152, 459, 571, 1291, 1300
SaqAI TTAA 7 cut(s) 411, 615, 650, 960, 980, 1127, 1236
SatI GCNGC 8 cut(s) 5, 341, 555, 850, 879, 1317, 1326, 1365
Sau3AI GATC 6 cut(s) 691, 784, 970, 1063, 1284, 1372
SchI GAGTC 1 cut(s) 908
ScrFI CCNGG 1 cut(s) 975
SduI GDGCHC 1 cut(s) 1027
SfaNI GCATC 5 cut(s) 554, 991, 1115, 1328, 1345
SfcI CTRYAG 3 cut(s) 420, 853, 1314
SmiI ATTTAAAT 1 cut(s) 1128
SmlI CTYRAG 2 cut(s) 155, 398
SmoI CTYRAG 2 cut(s) 155, 398
SnaBI TACGTA 2 cut(s) 431, 1299
SseBI AGGCCT 1 cut(s) 507
SsiI CCGC 4 cut(s) 19, 236, 555, 799
SspI AATATT 1 cut(s) 952
SspMI CTAG 4 cut(s) 263, 456, 1032, 1076
StuI AGGCCT 1 cut(s) 507
StyD4I CCNGG 1 cut(s) 973
StyI CCWWGG 1 cut(s) 921
SwaI ATTTAAAT 1 cut(s) 1128
TaaI ACNGT 1 cut(s) 1345
TaiI ACGT 3 cut(s) 433, 1214, 1301
TaqI TCGA 1 cut(s) 933
TatI WGTACW 4 cut(s) 151, 458, 570, 1290
TauI GCSGC 1 cut(s) 557
TfiI GAWTC 3 cut(s) 603, 1040, 1266
Tru1I TTAA 7 cut(s) 411, 615, 650, 960, 980, 1127, 1236
Tru9I TTAA 7 cut(s) 411, 615, 650, 960, 980, 1127, 1236
TseFI GTSAC 2 cut(s) 113, 901
TseI GCWGC 7 cut(s) 4, 340, 849, 878, 1316, 1325, 1364
Tsp45I GTSAC 2 cut(s) 113, 901
TspDTI ATGAA 7 cut(s) 360, 429, 624, 796, 1031, 1053, 1122
Van91I CCANNNNNTGG 1 cut(s) 248
VspI ATTAAT 3 cut(s) 411, 615, 980
XapI RAATTY 6 cut(s) 645, 676, 803, 1123, 1129, 1247
XceI RCATGY 3 cut(s) 304, 1117, 1371
XmiI GTMKAC 1 cut(s) 38
XspI CTAG 4 cut(s) 263, 456, 1032, 1076
Zsp2I ATGCAT 2 cut(s) 469, 1108
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.