FvH4_3g14100

Ribosomal RNA large subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0008663
Physical Location & Seq
Reverse (-)
8467820 .. 8471399
3580 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g14100.t1

Sequence Viewer

Length: 1326 bp
ATGCAGCATTTTCCATCCCGCCTGATAAAGTCTCTGACTACTCCTACTTCTTTACCATGCGCCGCCACCACCCTTCAACAACTCGCTTCTTCTCACCCCAAAGGTGTTGCGAGGGTAGTACTGAAAAAGGGGAAGACACAACTGTTCAAGGATGGAAGTCCAATGGTCTACAGCGGAGCAGTTGATAGAATAATTGGGAAACCGCCACCCAGAACTGGAGACGTTGTGCTAGTAGCTGATGGAGCAGAGAAGCCAATAGGGTGGGGGATGTATAATTCAGCCTCAATGTTTTGTGTTCGGCTTATGCAGCTGGATGAGGAAGCAACAAGGGATTGTTCGTGCGCATTGAATATGGAGAAACTGCTTGAGATGAGAATTAATGAAGCTATCGAGTTGCGTAAGAGTTTGGGGATTCCATCAGCTAGTACAAATGCATTTCGTCTTGTTAATAGTGAAGGAGACAGACTATCAGGTCTAATAATTGACATATTTGGAGATGTAGCAGTAATTGCATCATCTGCTGCTTGGGTTGAGAAGTACAAAGCAGAAATAGAGGCTTGTGTTGGTAGAATCAATGAAATTAATCATATCAACTGGAGACCGTCTGTGGAAATTTTAAAAGAAGAAGGGTTGGATGTGTCAAATTTGAAGGAAATGGATACATCTACTTGCCCTCAAAGAACAAAGGTTATGGAAAATGGGATTTTTTATGCCATTTCACTTGAGGGGCAGAAGACAGGGTTCTATGCTGATCAGCGTGAAAACCGTAAGTTTGTATCAACAATTTCGGACAATCAGAAGGTTCTCGATATCTGCTGCTATAGTGGTGGTTTTGCTCTAAATGCTGCACGAGGTGGTGCTGTAAATGTAACAGGTGTTGACTCATCATTGGGCGCTATCGAACTAGCTAAAGAAAATATTGCTCTTAACAACATGGATCCTGGAATATTATCATTTGTGAAAGAAGATGCAAGTGCGTTTATGAAGGAGGCAATTTCTAGGAATGAATCATGGGATATTGTCATCTTAGATCCTCCTAAACTAGCACCACGAAAGAAGGTTTTGCAAAATGCATCAGGAATGTATAGGAATTTAAATTCATTAGCAATGCAATTGACAAGGAGAGGTGGCCTTCTCATGACTTGTTCGTGTTCAGGAGCGATGACCCAAAGTGGGACATTCTTGCGCATTCTTCAGGGTGCAGCATCAGCAGCAGGAAGAAAAATAACCGTTCTAAGGGATGCTGGAGCAGCATGTGATCATACAATTGACCCATCCTACCCTGAAGGCAAATACCTTTCCAACATTCTCCTGAGGGTGCTTTAA
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

442

Amino Acids

47.86

Weight (kDa)

8.4

Isoelectric Point (pI)

34.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PUA_3 PF17785 39 - 102 1.1e-10 PUA-like domain
Methyltrans_SAM PF10672 229 - 388 7.6e-15 S-adenosylmethionine-dependent methyltransferase
MTS PF05175 259 - 357 2.9e-07 Methyltransferase small domain
PrmA PF06325 262 - 341 1.6e-07 Ribosomal protein L11 methyltransferase (PrmA)
Methyltransf_31 PF13847 263 - 390 1.7e-09 Methyltransferase domain
Cons_hypoth95 PF03602 264 - 346 1.2e-07 Conserved hypothetical protein 95
Methyltransf_25 PF13649 268 - 350 4e-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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 471
Acc16I TGCGCA 2 cut(s) 343, 1187
AccI GTMKAC 1 cut(s) 168
AciI CCGC 4 cut(s) 19, 63, 174, 203
AclWI GGATC 3 cut(s) 932, 945, 1025
AcsI RAATTY 4 cut(s) 612, 643, 1090, 1096
AcuI CTGAAG 2 cut(s) 1178, 1305
AdeI CACNNNGTG 1 cut(s) 854
AfaI GTAC 3 cut(s) 120, 427, 539
AfiI CCNNNNNNNGG 3 cut(s) 215, 1173, 1236
AgsI TTSAA 4 cut(s) 77, 148, 349, 649
AjnI CCWGG 1 cut(s) 940
AluBI AGCT 5 cut(s) 236, 310, 386, 422, 908
AluI AGCT 5 cut(s) 236, 310, 386, 422, 908
Alw26I GTCTC 4 cut(s) 36, 213, 453, 592
AlwI GGATC 3 cut(s) 932, 945, 1025
AoxI GGCC 1 cut(s) 1129
ApeKI GCWGC 8 cut(s) 4, 307, 521, 816, 845, 1202, 1211, 1250
ApoI RAATTY 4 cut(s) 612, 643, 1090, 1096
AseI ATTAAT 2 cut(s) 378, 582
AspLEI GCGC 4 cut(s) 62, 344, 896, 1188
AsuHPI GGTGA 1 cut(s) 86
AxyI CCTNAGG 1 cut(s) 1313
BamHI GGATCC 1 cut(s) 937
BauI CACGAG 1 cut(s) 849
BbsI GAAGAC 2 cut(s) 140, 740
BbvI GCAGC 8 cut(s) 16, 319, 508, 803, 832, 1214, 1223, 1262
BccI CCATC 5 cut(s) 22, 146, 233, 424, 1282
BciT130I CCWGG 1 cut(s) 942
BciVI GTATCC 1 cut(s) 652
BclI TGATCA 2 cut(s) 751, 1258
BcoDI GTCTC 4 cut(s) 36, 213, 453, 592
BfaI CTAG 5 cut(s) 230, 423, 905, 999, 1043
BfmI CTRYAG 2 cut(s) 169, 820
BfoI RGCGCY 1 cut(s) 897
BfuI GTATCC 1 cut(s) 652
BisI GCNGC 9 cut(s) 5, 63, 308, 522, 817, 846, 1203, 1212, 1251
BlsI GCNGC 9 cut(s) 6, 64, 309, 523, 818, 847, 1204, 1213, 1252
BmcAI AGTACT 1 cut(s) 120
Bme1390I CCNGG 1 cut(s) 942
BmiI GGNNCC 1 cut(s) 939
BmrFI CCNGG 1 cut(s) 942
BmsI GCATC 5 cut(s) 521, 958, 1082, 1214, 1231
BpiI GAAGAC 2 cut(s) 140, 740
BpmI CTGGAG 3 cut(s) 237, 616, 1266
BpuEI CTTGAG 2 cut(s) 386, 743
BsaI GGTCTC 1 cut(s) 592
BsaXI ACNNNNNCTCC 2 cut(s) 210, 240
Bsc4I CCNNNNNNNGG 3 cut(s) 215, 1173, 1236
Bse1I ACTGG 2 cut(s) 220, 599
Bse21I CCTNAGG 1 cut(s) 1313
Bse3DI GCAATG 1 cut(s) 1113
BseBI CCWGG 1 cut(s) 942
BseGI GGATG 7 cut(s) 14, 157, 273, 319, 640, 1246, 1274
BseLI CCNNNNNNNGG 3 cut(s) 215, 1173, 1236
BseMI GCAATG 1 cut(s) 1113
BseMII CTCAG 1 cut(s) 1304
BseNI ACTGG 2 cut(s) 220, 599
BseXI GCAGC 8 cut(s) 16, 319, 508, 803, 832, 1214, 1223, 1262
BsgI GTGCAG 2 cut(s) 831, 1221
BshFI GGCC 1 cut(s) 1131
BslFI GGGAC 1 cut(s) 1189
BslI CCNNNNNNNGG 3 cut(s) 215, 1173, 1236
BsmAI GTCTC 4 cut(s) 36, 213, 453, 592
BsmBI CGTCTC 1 cut(s) 213
BsmFI GGGAC 1 cut(s) 1189
BsmI GAATGC 1 cut(s) 1188
BsnI GGCC 1 cut(s) 1131
Bso31I GGTCTC 1 cut(s) 592
Bsp143I GATC 4 cut(s) 751, 937, 1030, 1258
BspACI CCGC 4 cut(s) 19, 63, 174, 203
BspANI GGCC 1 cut(s) 1131
BspCNI CTCAG 1 cut(s) 1305
BspHI TCATGA 1 cut(s) 1137
BspLI GGNNCC 1 cut(s) 939
BspPI GGATC 3 cut(s) 932, 945, 1025
BspTNI GGTCTC 1 cut(s) 592
BsrDI GCAATG 1 cut(s) 1113
BsrI ACTGG 2 cut(s) 220, 599
BssMI GATC 4 cut(s) 751, 937, 1030, 1258
BssSI CACGAG 1 cut(s) 849
Bst2BI CACGAG 1 cut(s) 849
Bst2UI CCWGG 1 cut(s) 942
Bst4CI ACNGT 4 cut(s) 144, 603, 767, 1231
BstAPI GCANNNNNTGC 2 cut(s) 509, 518
BstDEI CTNAG 3 cut(s) 1027, 1235, 1313
BstF5I GGATG 7 cut(s) 14, 157, 273, 319, 640, 1246, 1274
BstH2I RGCGCY 1 cut(s) 897
BstHHI GCGC 4 cut(s) 62, 344, 896, 1188
BstKTI GATC 4 cut(s) 754, 940, 1033, 1261
BstMAI GTCTC 4 cut(s) 36, 213, 453, 592
BstMBI GATC 4 cut(s) 751, 937, 1030, 1258
BstMWI GCNNNNNNNGC 8 cut(s) 242, 307, 509, 518, 842, 1208, 1211, 1250
BstNI CCWGG 1 cut(s) 942
BstNSI RCATGY 1 cut(s) 1257
BstSCI CCNGG 1 cut(s) 940
BstSFI CTRYAG 2 cut(s) 169, 820
BstV1I GCAGC 8 cut(s) 16, 319, 508, 803, 832, 1214, 1223, 1262
BstV2I GAAGAC 2 cut(s) 140, 740
BstX2I RGATCY 2 cut(s) 937, 1030
BstXI CCANNNNNNTGG 1 cut(s) 261
BstYI RGATCY 2 cut(s) 937, 1030
Bsu36I CCTNAGG 1 cut(s) 1313
BsuI GTATCC 1 cut(s) 652
BsuRI GGCC 1 cut(s) 1131
BtgZI GCGATG 1 cut(s) 1175
BtsCI GGATG 7 cut(s) 14, 157, 273, 319, 640, 1246, 1274
CciI TCATGA 1 cut(s) 1137
CfoI GCGC 4 cut(s) 62, 344, 896, 1188
Csp6I GTAC 3 cut(s) 119, 426, 538
CviAII CATG 5 cut(s) 57, 934, 1011, 1138, 1254
CviQI GTAC 3 cut(s) 119, 426, 538
DdeI CTNAG 3 cut(s) 1027, 1235, 1313
DpnI GATC 4 cut(s) 753, 939, 1032, 1260
DpnII GATC 4 cut(s) 751, 937, 1030, 1258
DraI TTTAAA 2 cut(s) 618, 1095
DraIII CACNNNGTG 1 cut(s) 854
DrdI GACNNNNNNGTC 1 cut(s) 471
DseDI GACNNNNNNGTC 1 cut(s) 471
Eco31I GGTCTC 1 cut(s) 592
Eco32I GATATC 1 cut(s) 811
Eco57I CTGAAG 2 cut(s) 1178, 1305
Eco81I CCTNAGG 1 cut(s) 1313
EcoRII CCWGG 1 cut(s) 940
EcoRV GATATC 1 cut(s) 811
EcoT22I ATGCAT 2 cut(s) 436, 1075
Esp3I CGTCTC 1 cut(s) 213
FaeI CATG 5 cut(s) 60, 937, 1014, 1141, 1257
FaqI GGGAC 1 cut(s) 1189
FatI CATG 5 cut(s) 56, 933, 1010, 1137, 1253
FauI CCCGC 1 cut(s) 26
FbaI TGATCA 2 cut(s) 751, 1258
FblI GTMKAC 1 cut(s) 168
Fnu4HI GCNGC 9 cut(s) 5, 63, 308, 522, 817, 846, 1203, 1212, 1251
FokI GGATG 6 cut(s) 164, 280, 326, 647, 1253, 1261
Fsp4HI GCNGC 9 cut(s) 5, 63, 308, 522, 817, 846, 1203, 1212, 1251
FspAI RTGCGCAY 1 cut(s) 343
FspBI CTAG 5 cut(s) 230, 423, 905, 999, 1043
FspI TGCGCA 2 cut(s) 343, 1187
GlaI GCGC 4 cut(s) 61, 343, 895, 1187
GluI GCNGC 9 cut(s) 5, 63, 308, 522, 817, 846, 1203, 1212, 1251
GsuI CTGGAG 3 cut(s) 237, 616, 1266
HaeII RGCGCY 1 cut(s) 897
HaeIII GGCC 1 cut(s) 1131
HhaI GCGC 4 cut(s) 62, 344, 896, 1188
Hin1II CATG 5 cut(s) 60, 937, 1014, 1141, 1257
Hin6I GCGC 4 cut(s) 60, 342, 894, 1186
HinP1I GCGC 4 cut(s) 60, 342, 894, 1186
HincII GTYRAC 1 cut(s) 880
HindII GTYRAC 1 cut(s) 880
HinfI GANTC 4 cut(s) 412, 570, 881, 1007
HphI GGTGA 1 cut(s) 86
Hpy166II GTNNAC 2 cut(s) 169, 880
Hpy188I TCNGA 3 cut(s) 36, 790, 798
Hpy188III TCNNGA 5 cut(s) 806, 1077, 1138, 1155, 1312
Hpy8I GTNNAC 2 cut(s) 169, 880
HpyAV CCTTC 9 cut(s) 83, 449, 620, 643, 793, 979, 1051, 1142, 1280
HpyCH4III ACNGT 4 cut(s) 144, 603, 767, 1231
HpyCH4IV ACGT 1 cut(s) 222
HpyF10VI GCNNNNNNNGC 8 cut(s) 242, 307, 509, 518, 842, 1208, 1211, 1250
HpyF3I CTNAG 3 cut(s) 1027, 1235, 1313
HpySE526I ACGT 1 cut(s) 222
Hsp92II CATG 5 cut(s) 60, 937, 1014, 1141, 1257
HspAI GCGC 4 cut(s) 60, 342, 894, 1186
Ksp22I TGATCA 2 cut(s) 751, 1258
Kzo9I GATC 4 cut(s) 751, 937, 1030, 1258
LmnI GCTCC 4 cut(s) 176, 242, 1157, 1247
Lsp1109I GCAGC 8 cut(s) 16, 319, 508, 803, 832, 1214, 1223, 1262
LweI GCATC 5 cut(s) 521, 958, 1082, 1214, 1231
MaeI CTAG 5 cut(s) 230, 423, 905, 999, 1043
MaeII ACGT 1 cut(s) 222
MaeIII GTNAC 1 cut(s) 868
MalI GATC 4 cut(s) 753, 939, 1032, 1260
MboI GATC 4 cut(s) 751, 937, 1030, 1258
MboII GAAGA 7 cut(s) 81, 145, 635, 745, 977, 1184, 1230
MfeI CAATTG 2 cut(s) 1112, 1266
MflI RGATCY 2 cut(s) 937, 1030
MlyI GAGTC 1 cut(s) 875
MmeI TCCRAC 2 cut(s) 612, 1326
Mph1103I ATGCAT 2 cut(s) 436, 1075
MseI TTAA 7 cut(s) 378, 447, 582, 617, 927, 1094, 1324
MspA1I CMGCKG 2 cut(s) 174, 310
MspR9I CCNGG 1 cut(s) 942
MunI CAATTG 2 cut(s) 1112, 1266
Mva1269I GAATGC 1 cut(s) 1188
MvaI CCWGG 1 cut(s) 942
MwoI GCNNNNNNNGC 8 cut(s) 242, 307, 509, 518, 842, 1208, 1211, 1250
NdeII GATC 4 cut(s) 751, 937, 1030, 1258
NlaIII CATG 5 cut(s) 60, 937, 1014, 1141, 1257
NlaIV GGNNCC 1 cut(s) 939
NsbI TGCGCA 2 cut(s) 343, 1187
NsiI ATGCAT 2 cut(s) 436, 1075
NspI RCATGY 1 cut(s) 1257
PagI TCATGA 1 cut(s) 1137
PctI GAATGC 1 cut(s) 1188
PfeI GAWTC 3 cut(s) 412, 570, 1007
PfoI TCCNGGA 1 cut(s) 940
PkrI GCNGC 9 cut(s) 6, 64, 309, 523, 818, 847, 1204, 1213, 1252
PleI GAGTC 1 cut(s) 875
PpsI GAGTC 1 cut(s) 875
PshBI ATTAAT 2 cut(s) 378, 582
Psp6I CCWGG 1 cut(s) 940
PspGI CCWGG 1 cut(s) 940
PspN4I GGNNCC 1 cut(s) 939
PsuI RGATCY 2 cut(s) 937, 1030
PvuII CAGCTG 1 cut(s) 310
RsaI GTAC 3 cut(s) 120, 427, 539
RsaNI GTAC 3 cut(s) 119, 426, 538
SaqAI TTAA 7 cut(s) 378, 447, 582, 617, 927, 1094, 1324
SatI GCNGC 9 cut(s) 5, 63, 308, 522, 817, 846, 1203, 1212, 1251
Sau3AI GATC 4 cut(s) 751, 937, 1030, 1258
ScaI AGTACT 1 cut(s) 120
SchI GAGTC 1 cut(s) 875
ScrFI CCNGG 1 cut(s) 942
SfaNI GCATC 5 cut(s) 521, 958, 1082, 1214, 1231
SfcI CTRYAG 2 cut(s) 169, 820
SmiI ATTTAAAT 1 cut(s) 1095
SmlI CTYRAG 2 cut(s) 365, 722
SmoI CTYRAG 2 cut(s) 365, 722
SsiI CCGC 4 cut(s) 19, 63, 174, 203
SspI AATATT 2 cut(s) 919, 948
SspMI CTAG 5 cut(s) 230, 423, 905, 999, 1043
StyD4I CCNGG 1 cut(s) 940
SwaI ATTTAAAT 1 cut(s) 1095
TaaI ACNGT 4 cut(s) 144, 603, 767, 1231
TaiI ACGT 1 cut(s) 225
TaqI TCGA 3 cut(s) 390, 807, 900
TatI WGTACW 3 cut(s) 118, 425, 537
TauI GCSGC 1 cut(s) 65
TfiI GAWTC 3 cut(s) 412, 570, 1007
Tru1I TTAA 7 cut(s) 378, 447, 582, 617, 927, 1094, 1324
Tru9I TTAA 7 cut(s) 378, 447, 582, 617, 927, 1094, 1324
TseI GCWGC 8 cut(s) 4, 307, 521, 816, 845, 1202, 1211, 1250
TspDTI ATGAA 5 cut(s) 396, 591, 998, 1020, 1089
VspI ATTAAT 2 cut(s) 378, 582
XapI RAATTY 4 cut(s) 612, 643, 1090, 1096
XceI RCATGY 1 cut(s) 1257
XmiI GTMKAC 1 cut(s) 168
XspI CTAG 5 cut(s) 230, 423, 905, 999, 1043
ZrmI AGTACT 1 cut(s) 120
Zsp2I ATGCAT 2 cut(s) 436, 1075
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.