Rorug06G0394800

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0010420
Physical Location & Seq
Forward (+)
54031782 .. 54034295
2514 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0394800.1

Sequence Viewer

Length: 1263 bp
ATGACTCTGGAAAAGAAGCCCAAGGCAGTAATAGTAGGAGGGAGCATAGCAGGTGTATCATGCGCACACACGCTCATATTAGCAGGGTGGGATGTTGTGGTGCTTGAGAAATCATATCAAGTCCCAACTGGAAGCCCAACTGGTGCAGGACTAGGACTTGACCCTCTCTCCCTGCAACTCATTCAGTCTTGGATCAAAGACCCTGAGCTTCTCAACAGGACCACCCTACCCCTCACAATTGATCAGAATGATGCTGTGGGTGGTGAGAAGAAGGTTAAGTGGACACTAACCAGAGATGAGAAGTTTAACTGCAGAGCAGCACATTGGGCTGACCTACATGCTCTTTTATATCATGCTTTGCCACCTAACTTGTTTCTTTGGGGTCACCATTTCCAATATTTCTCCATTTCTAGTGACAAGAGATCAGTTCAAGTGAAGGCTTTATCCCTTCAAAGTAACGAGATCATTGAAATCGTTGGGGATTTGCTTGTTGCAGCAGATGGGTGTCTCTCTAAAATCCGCCAAAGCTTTGTGCCTGATCATAAGCTGAGGTATTCAGGTTATTGTGCATGGAGAGGGGTTCTTGATTTTTCAGGAAATGAGAATTCCGAAACCATAATGGGGATCCGAAAGGCATACCCTGAACTCGGGAAATGCTTGTACTTCGGCTTAGGTTCTGGGACTCACACTGTGCTATACGAGCTTCTGAACAATAGGCTGAATTGGATTTGGTATGTCCATCAACCAGAGCCTGATCTGAAGGGTAATTCAATGACCACGAAGGCAAGCAGCGACGTGATCCAGGCAATGCACAAAGAAGCAGAGAAGATGTGGCTTCCTGAGTTCGTGGGAGTCATCAAAGAAACGAGCCACCCTTTCATCAATGCCATATATGACAGTGAACCCTTGGAGCAAATCTATTGGGTCAATGTGGTATTGGTTGGAGATGCAGCTCACCCCACAACTCCTCATGCAGTAAGAAGCACAAACATGTCGGTCTTGGATGCTGCGGTGTTAGGCCAGTGCCTGAAGAAGTGGGGTGCAGAAAACTTGCAATCAGCTCTTGAAGAATATCAGTCCATTCGGTTACCAGTAGTATCGAAGCAAGTCCTTCATGCAAGGAGAATGGGGAGGATTAAACAAGGTCTAGTTCTTCCTGACCGACAGTCTTTTGACCCCAAGAAGGCTGATCCAGAGGAGTGCCAAGAGCTTCAACAGAAACTCATGCCTTTTTTCTCTGACGTTCCTTCCATTTTAGTGTGA
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
Methyltransf_5

Protein Analysis

420

Amino Acids

46.91

Weight (kDa)

6.54

Isoelectric Point (pI)

43.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
FAD_binding_3 PF01494 9 - 176 3.1e-07 FAD binding domain
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) 41
Acc16I TGCGCA 1 cut(s) 64
Acc36I ACCTGC 1 cut(s) 41
AciI CCGC 2 cut(s) 520, 1010
AclWI GGATC 5 cut(s) 200, 619, 632, 793, 1184
AcsI RAATTY 1 cut(s) 604
AcuI CTGAAG 2 cut(s) 779, 1049
AdeI CACNNNGTG 1 cut(s) 691
AfaI GTAC 1 cut(s) 662
AfiI CCNNNNNNNGG 3 cut(s) 621, 647, 1183
AflIII ACRYGT 1 cut(s) 990
AgsI TTSAA 6 cut(s) 431, 452, 470, 771, 1067, 1214
AhdI GACNNNNNGTC 1 cut(s) 1165
AjiI CACGTC 1 cut(s) 796
AjnI CCWGG 1 cut(s) 801
AluBI AGCT 7 cut(s) 208, 528, 547, 703, 953, 1061, 1210
AluI AGCT 7 cut(s) 208, 528, 547, 703, 953, 1061, 1210
Alw26I GTCTC 1 cut(s) 512
AlwI GGATC 5 cut(s) 200, 619, 632, 793, 1184
AlwNI CAGNNNCTG 2 cut(s) 752, 1027
Ama87I CYCGRG 1 cut(s) 647
AoxI GGCC 1 cut(s) 1018
ApeKI GCWGC 5 cut(s) 317, 494, 789, 950, 1007
ApoI RAATTY 1 cut(s) 604
AspLEI GCGC 1 cut(s) 65
AspS9I GGNCC 1 cut(s) 219
AsuHPI GGTGA 3 cut(s) 275, 377, 947
AvaI CYCGRG 1 cut(s) 647
AvaII GGWCC 1 cut(s) 219
BamHI GGATCC 1 cut(s) 624
BbvCI CCTCAGC 1 cut(s) 548
BbvI GCAGC 5 cut(s) 329, 506, 801, 962, 994
BccI CCATC 2 cut(s) 494, 747
BciT130I CCWGG 1 cut(s) 803
BclI TGATCA 2 cut(s) 241, 538
BcoDI GTCTC 1 cut(s) 512
BfaI CTAG 3 cut(s) 152, 411, 1148
BfmI CTRYAG 1 cut(s) 310
BfuAI ACCTGC 1 cut(s) 41
BisI GCNGC 5 cut(s) 318, 495, 790, 951, 1008
BlsI GCNGC 5 cut(s) 319, 496, 791, 952, 1009
Bme1390I CCNGG 1 cut(s) 803
Bme18I GGWCC 1 cut(s) 219
BmeRI GACNNNNNGTC 1 cut(s) 1165
BmeT110I CYCGRG 1 cut(s) 647
BmgBI CACGTC 1 cut(s) 796
BmgT120I GGNCC 1 cut(s) 219
BmiI GGNNCC 1 cut(s) 626
BmrFI CCNGG 1 cut(s) 803
BmsI GCATC 3 cut(s) 241, 937, 994
Bpu10I CCTNAGC 3 cut(s) 204, 548, 670
BpuEI CTTGAG 1 cut(s) 125
BsaJI CCNNGG 2 cut(s) 21, 906
BsaXI ACNNNNNCTCC 2 cut(s) 152, 182
Bsc4I CCNNNNNNNGG 3 cut(s) 621, 647, 1183
Bse1I ACTGG 4 cut(s) 133, 145, 1021, 1091
Bse3DI GCAATG 1 cut(s) 813
BseBI CCWGG 1 cut(s) 803
BseDI CCNNGG 2 cut(s) 21, 906
BseGI GGATG 2 cut(s) 97, 1009
BseLI CCNNNNNNNGG 3 cut(s) 621, 647, 1183
BseMI GCAATG 1 cut(s) 813
BseMII CTCAG 3 cut(s) 195, 539, 831
BseNI ACTGG 4 cut(s) 133, 145, 1021, 1091
BseRI GAGGAG 2 cut(s) 957, 1211
BseXI GCAGC 5 cut(s) 329, 506, 801, 962, 994
BsgI GTGCAG 2 cut(s) 165, 1062
BshFI GGCC 1 cut(s) 1020
BsiHKCI CYCGRG 1 cut(s) 647
BslFI GGGAC 2 cut(s) 107, 694
BslI CCNNNNNNNGG 3 cut(s) 621, 647, 1183
BsmAI GTCTC 1 cut(s) 512
BsmFI GGGAC 2 cut(s) 107, 694
BsnI GGCC 1 cut(s) 1020
BsoBI CYCGRG 1 cut(s) 647
Bsp143I GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
BspACI CCGC 2 cut(s) 520, 1010
BspANI GGCC 1 cut(s) 1020
BspCNI CTCAG 3 cut(s) 196, 540, 832
BspLI GGNNCC 1 cut(s) 626
BspMAI CTGCAG 1 cut(s) 314
BspMI ACCTGC 1 cut(s) 41
BspPI GGATC 5 cut(s) 200, 619, 632, 793, 1184
BsrDI GCAATG 1 cut(s) 813
BsrI ACTGG 4 cut(s) 133, 145, 1021, 1091
BssECI CCNNGG 2 cut(s) 21, 906
BssMI GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
BssT1I CCWWGG 2 cut(s) 21, 906
Bst2UI CCWGG 1 cut(s) 803
Bst4CI ACNGT 3 cut(s) 691, 899, 1167
BstC8I GCNNGC 1 cut(s) 787
BstDEI CTNAG 4 cut(s) 204, 548, 670, 840
BstEII GGTNACC 2 cut(s) 383, 1086
BstF5I GGATG 2 cut(s) 97, 1009
BstHHI GCGC 1 cut(s) 65
BstKTI GATC 9 cut(s) 195, 244, 425, 465, 541, 627, 757, 801, 1192
BstMAI GTCTC 1 cut(s) 512
BstMBI GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
BstMWI GCNNNNNNNGC 2 cut(s) 326, 700
BstNI CCWGG 1 cut(s) 803
BstNSI RCATGY 2 cut(s) 341, 994
BstPI GGTNACC 2 cut(s) 383, 1086
BstSCI CCNGG 1 cut(s) 801
BstSFI CTRYAG 1 cut(s) 310
BstV1I GCAGC 5 cut(s) 329, 506, 801, 962, 994
BstX2I RGATCY 1 cut(s) 624
BstYI RGATCY 1 cut(s) 624
BsuRI GGCC 1 cut(s) 1020
BtrI CACGTC 1 cut(s) 796
BtsCI GGATG 2 cut(s) 97, 1009
BtsIMutI CAGTG 3 cut(s) 687, 904, 1028
BveI ACCTGC 1 cut(s) 41
Cac8I GCNNGC 1 cut(s) 787
CaiI CAGNNNCTG 2 cut(s) 752, 1027
CfoI GCGC 1 cut(s) 65
Cfr13I GGNCC 1 cut(s) 219
Csp6I GTAC 1 cut(s) 661
CspCI CAANNNNNGTGG 2 cut(s) 351, 386
CviAII CATG 8 cut(s) 60, 338, 353, 570, 971, 991, 1115, 1225
CviQI GTAC 1 cut(s) 661
DdeI CTNAG 4 cut(s) 204, 548, 670, 840
DpnI GATC 9 cut(s) 194, 243, 424, 464, 540, 626, 756, 800, 1191
DpnII GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
DraIII CACNNNGTG 1 cut(s) 691
DriI GACNNNNNGTC 1 cut(s) 1165
Eam1105I GACNNNNNGTC 1 cut(s) 1165
EciI GGCGGA 1 cut(s) 509
Eco130I CCWWGG 2 cut(s) 21, 906
Eco47I GGWCC 1 cut(s) 219
Eco57I CTGAAG 2 cut(s) 779, 1049
Eco88I CYCGRG 1 cut(s) 647
Eco91I GGTNACC 2 cut(s) 383, 1086
EcoO65I GGTNACC 2 cut(s) 383, 1086
EcoRI GAATTC 1 cut(s) 604
EcoRII CCWGG 1 cut(s) 801
EcoT14I CCWWGG 2 cut(s) 21, 906
ErhI CCWWGG 2 cut(s) 21, 906
FaeI CATG 8 cut(s) 63, 341, 356, 573, 974, 994, 1118, 1228
FaqI GGGAC 2 cut(s) 107, 694
FatI CATG 8 cut(s) 59, 337, 352, 569, 970, 990, 1114, 1224
FbaI TGATCA 2 cut(s) 241, 538
Fnu4HI GCNGC 5 cut(s) 318, 495, 790, 951, 1008
FokI GGATG 2 cut(s) 104, 1016
Fsp4HI GCNGC 5 cut(s) 318, 495, 790, 951, 1008
FspAI RTGCGCAY 1 cut(s) 64
FspBI CTAG 3 cut(s) 152, 411, 1148
FspI TGCGCA 1 cut(s) 64
GlaI GCGC 1 cut(s) 64
GluI GCNGC 5 cut(s) 318, 495, 790, 951, 1008
HaeIII GGCC 1 cut(s) 1020
HhaI GCGC 1 cut(s) 65
Hin1II CATG 8 cut(s) 63, 341, 356, 573, 974, 994, 1118, 1228
Hin6I GCGC 1 cut(s) 63
HinP1I GCGC 1 cut(s) 63
HindIII AAGCTT 1 cut(s) 526
HinfI GANTC 3 cut(s) 4, 682, 852
HphI GGTGA 3 cut(s) 275, 377, 947
Hpy166II GTNNAC 2 cut(s) 282, 902
Hpy188I TCNGA 6 cut(s) 246, 610, 629, 708, 759, 1240
Hpy188III TCNNGA 8 cut(s) 8, 584, 594, 649, 839, 1064, 1157, 1193
Hpy8I GTNNAC 2 cut(s) 282, 902
Hpy99I CGWCG 1 cut(s) 797
HpyAV CCTTC 8 cut(s) 265, 430, 458, 754, 775, 1121, 1177, 1257
HpyCH4III ACNGT 3 cut(s) 691, 899, 1167
HpyCH4IV ACGT 2 cut(s) 795, 1242
HpyF10VI GCNNNNNNNGC 2 cut(s) 326, 700
HpyF3I CTNAG 4 cut(s) 204, 548, 670, 840
HpySE526I ACGT 2 cut(s) 795, 1242
Hsp92II CATG 8 cut(s) 63, 341, 356, 573, 974, 994, 1118, 1228
HspAI GCGC 1 cut(s) 63
Ksp22I TGATCA 2 cut(s) 241, 538
Kzo9I GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
LmnI GCTCC 2 cut(s) 42, 910
Lsp1109I GCAGC 5 cut(s) 329, 506, 801, 962, 994
LweI GCATC 3 cut(s) 241, 937, 994
MaeI CTAG 3 cut(s) 152, 411, 1148
MaeII ACGT 2 cut(s) 795, 1242
MaeIII GTNAC 4 cut(s) 383, 413, 455, 1086
MalI GATC 9 cut(s) 194, 243, 424, 464, 540, 626, 756, 800, 1191
MboI GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
MboII GAAGA 5 cut(s) 280, 838, 1042, 1079, 1145
MfeI CAATTG 1 cut(s) 237
MflI RGATCY 1 cut(s) 624
MluCI AATT 4 cut(s) 237, 604, 721, 766
MlyI GAGTC 2 cut(s) 676, 861
MmeI TCCRAC 1 cut(s) 922
MnlI CCTC 8 cut(s) 32, 174, 242, 543, 569, 978, 1125, 1189
MseI TTAA 3 cut(s) 276, 306, 1137
MslI CAYNNNNRTG 2 cut(s) 989, 1256
MspR9I CCNGG 1 cut(s) 803
MunI CAATTG 1 cut(s) 237
MvaI CCWGG 1 cut(s) 803
MwoI GCNNNNNNNGC 2 cut(s) 326, 700
NdeII GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
NlaIII CATG 8 cut(s) 63, 341, 356, 573, 974, 994, 1118, 1228
NlaIV GGNNCC 1 cut(s) 626
NmuCI GTSAC 2 cut(s) 383, 413
NsbI TGCGCA 1 cut(s) 64
NspI RCATGY 2 cut(s) 341, 994
PaqCI CACCTGC 1 cut(s) 41
PciI ACATGT 1 cut(s) 990
PkrI GCNGC 5 cut(s) 319, 496, 791, 952, 1009
PleI GAGTC 2 cut(s) 676, 860
PpsI GAGTC 2 cut(s) 676, 860
PscI ACATGT 1 cut(s) 990
Psp6I CCWGG 1 cut(s) 801
PspEI GGTNACC 2 cut(s) 383, 1086
PspGI CCWGG 1 cut(s) 801
PspN4I GGNNCC 1 cut(s) 626
PspPI GGNCC 1 cut(s) 219
PstI CTGCAG 1 cut(s) 314
PstNI CAGNNNCTG 2 cut(s) 752, 1027
PsuI RGATCY 1 cut(s) 624
RsaI GTAC 1 cut(s) 662
RsaNI GTAC 1 cut(s) 661
RseI CAYNNNNRTG 2 cut(s) 989, 1256
SaqAI TTAA 3 cut(s) 276, 306, 1137
SatI GCNGC 5 cut(s) 318, 495, 790, 951, 1008
Sau3AI GATC 9 cut(s) 192, 241, 422, 462, 538, 624, 754, 798, 1189
Sau96I GGNCC 1 cut(s) 219
SchI GAGTC 2 cut(s) 676, 861
ScrFI CCNGG 1 cut(s) 803
SfaNI GCATC 3 cut(s) 241, 937, 994
SfcI CTRYAG 1 cut(s) 310
SinI GGWCC 1 cut(s) 219
SmiMI CAYNNNNRTG 2 cut(s) 989, 1256
SmlI CTYRAG 1 cut(s) 104
SmoI CTYRAG 1 cut(s) 104
Sse9I AATT 4 cut(s) 237, 604, 721, 766
SsiI CCGC 2 cut(s) 520, 1010
SspI AATATT 1 cut(s) 398
SspMI CTAG 3 cut(s) 152, 411, 1148
StyD4I CCNGG 1 cut(s) 801
StyI CCWWGG 2 cut(s) 21, 906
TaaI ACNGT 3 cut(s) 691, 899, 1167
TaiI ACGT 2 cut(s) 798, 1245
TaqI TCGA 1 cut(s) 1100
TaqII GACCGA 2 cut(s) 985, 1176
TasI AATT 4 cut(s) 237, 604, 721, 766
TatI WGTACW 1 cut(s) 660
Tru1I TTAA 3 cut(s) 276, 306, 1137
Tru9I TTAA 3 cut(s) 276, 306, 1137
TscAI CASTG 3 cut(s) 694, 904, 1028
TseFI GTSAC 2 cut(s) 383, 413
TseI GCWGC 5 cut(s) 317, 494, 789, 950, 1007
Tsp45I GTSAC 2 cut(s) 383, 413
TspDTI ATGAA 2 cut(s) 868, 1103
TspRI CASTG 3 cut(s) 694, 904, 1028
VpaK11BI GGWCC 1 cut(s) 219
XapI RAATTY 1 cut(s) 604
XceI RCATGY 2 cut(s) 341, 994
XspI CTAG 3 cut(s) 152, 411, 1148
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.