MD10G1216400.v1.1

Ribosomal RNA large subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0008663
Physical Location & Seq
Forward (+)
31488166 .. 31492395
4230 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1216400.v1.1.491

Sequence Viewer

Length: 1326 bp
ATGCAGCATCTTCTTCCAGTCCGCCTCATAAAGTCTCTGTCTGCTACTTCTTTACCAGGCACCACCTCCACCCTTCACGAACTTGCTTCTACTCACCCCAAAGGTGTTGCGAGGGTTGTACTGAAGAAGGGGAAGACCCAATTATTCAAGGATGGCAGCCCAATGGTCTACAGTGGAGCAGTTGATAGAATAATTGGTAGACCACCTCCCAGGACTGGAGACATTGTGTTGGTAGCTGATGGGGCAGAAAAACCAATAGGATGGGGCATGTACAATTCAGTCTCCATGTTCAGTGTTCGGCTGATGCAACTCGAAGAGGAAGCAACAAGGGATTTGTCATGTGCATTGAACATGGAGAAACTGCTTGAGACAAGAATTAATGAAGCTATAGAACTACGTAAGAGTTTGGGACTTCCATCAGTTAGTACAAATGCATTCCGTCTTGTCAATAGTGAAGCAGACAGATTGTCAGGATTAATAGTTGATATATTTGGAGATGTAGCGGTAGTGGCATCATCTGCTGCTTGGGTTGAGAAGTACAAAGCAGAAGTAGAGGCCTGTATTAATAGAATTGGCGAAGTTAATTTTGTAAACTGGAGACCATCTTTGGAAGTTTTAAAAGAAGAAGGATTGGATGTGTCAAATTACAAGGAAAGGGATCCATCTTTCTGTCCTCAAAGAACAAAGGTTATGGAAAACGGGATCTTTTATTCCATTTCACTTGAGGGACAGAAGACAGGGTTTTATGCAGATCAGCGTGAAAACCGTCAATTCATATCAACAATTTCAGACGGCCAGAAAGTTCTTGATATGTTCTGCTACAGTGGTGGTTTTGCTCTAAATGCTGCACGAGGGGGTGCTGCAAATGTCATCGGTGTCGATTCATCATTGCCTGCGATTGAGCTAGCCAAAGAAAATGTTGTTCTTAACAACATGGATCCACAGAGAATAACATTTTTGAAAGAAGATGCAAGTGAGTTTATGAAGGGTGCTCTTTCTAGGAACGAATCATGGGATATTGTCATTTTAGATCCTCCTAAACTAGCACCCCGAAAGAAGGTTTTACAAAATGCATCAGGCATGTATAGAAATTTAAATTCATTGGCAATGCAACTGACAAAGAGAGGTGGTCTTCTCATGACTTGTTCATGTTCGGGGGCTATGACGCAAAGTGGGATGTTCTTGCGTATTCTTCAGGGTGCGGCATCAGCGGCAGGGAGAAAAATAACCGTTCTACGGGACGCCGGAGCGGCATGCGATCATCCCATTGACCCATCCTACCCAGAAGGCAAATACCTTTCAAACGTCCTTCTGAGGGTCCTTTGA
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

48.18

Weight (kDa)

8.55

Isoelectric Point (pI)

30.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PUA_3 PF17785 39 - 102 2.8e-10 PUA-like domain
Methyltrans_SAM PF10672 229 - 389 4e-17 S-adenosylmethionine-dependent methyltransferase
TRM5-TYW2_MTfase PF02475 230 - 344 2.4e-08 TRM5/TYW2 methyltransferase domain
PrmA PF06325 262 - 341 1.1e-07 Ribosomal protein L11 methyltransferase (PrmA)
Methyltransf_31 PF13847 263 - 385 1.6e-10 Methyltransferase domain
Cons_hypoth95 PF03602 264 - 346 9.9e-09 Conserved hypothetical protein 95
Methyltransf_25 PF13649 268 - 350 1.5e-06 Methyltransferase 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)
AccB1I GGYRCC 1 cut(s) 59
AccBSI CCGCTC 1 cut(s) 1250
AccI GTMKAC 2 cut(s) 168, 199
AciI CCGC 5 cut(s) 22, 503, 1202, 1211, 1250
AclWI GGATC 6 cut(s) 653, 666, 710, 932, 945, 1025
AcoI YGGCCR 1 cut(s) 793
AcsI RAATTY 2 cut(s) 1090, 1096
AcuI CTGAAG 2 cut(s) 143, 1178
AcyI GRCGYC 1 cut(s) 1242
AfaI GTAC 4 cut(s) 120, 272, 427, 539
AfiI CCNNNNNNNGG 4 cut(s) 215, 1057, 1236, 1315
AgsI TTSAA 4 cut(s) 148, 349, 961, 1302
AhdI GACNNNNNGTC 1 cut(s) 466
AjnI CCWGG 2 cut(s) 55, 209
AluBI AGCT 3 cut(s) 236, 386, 904
AluI AGCT 3 cut(s) 236, 386, 904
Alw21I GWGCWC 1 cut(s) 994
Alw26I GTCTC 5 cut(s) 39, 213, 286, 362, 592
AlwI GGATC 6 cut(s) 653, 666, 710, 932, 945, 1025
AoxI GGCC 2 cut(s) 555, 793
ApeKI GCWGC 5 cut(s) 4, 156, 521, 845, 860
ApoI RAATTY 2 cut(s) 1090, 1096
AseI ATTAAT 3 cut(s) 378, 476, 564
AspS9I GGNCC 1 cut(s) 1318
AsuHPI GGTGA 1 cut(s) 86
AsuNHI GCTAGC 1 cut(s) 904
AvaII GGWCC 1 cut(s) 1318
BamHI GGATCC 2 cut(s) 658, 937
BanI GGYRCC 1 cut(s) 59
BauI CACGAG 1 cut(s) 849
BbsI GAAGAC 3 cut(s) 140, 740, 1124
Bbv12I GWGCWC 1 cut(s) 994
BbvI GCAGC 5 cut(s) 16, 168, 508, 832, 847
BccI CCATC 7 cut(s) 146, 233, 255, 424, 610, 670, 1282
BceAI ACGGC 1 cut(s) 808
BciT130I CCWGG 2 cut(s) 57, 211
BcoDI GTCTC 5 cut(s) 39, 213, 286, 362, 592
BfaI CTAG 3 cut(s) 905, 999, 1043
BfmI CTRYAG 3 cut(s) 169, 387, 820
BglI GCCNNNNNGGC 1 cut(s) 1250
BisI GCNGC 8 cut(s) 5, 157, 522, 846, 861, 1203, 1212, 1251
BlsI GCNGC 8 cut(s) 6, 158, 523, 847, 862, 1204, 1213, 1252
Bme1390I CCNGG 2 cut(s) 57, 211
Bme18I GGWCC 1 cut(s) 1318
BmeRI GACNNNNNGTC 1 cut(s) 466
BmgT120I GGNCC 1 cut(s) 1318
BmiI GGNNCC 4 cut(s) 61, 660, 939, 1319
BmrFI CCNGG 2 cut(s) 57, 211
BmsI GCATC 6 cut(s) 16, 294, 521, 958, 1082, 1214
BmtI GCTAGC 1 cut(s) 908
BpiI GAAGAC 3 cut(s) 140, 740, 1124
BpmI CTGGAG 2 cut(s) 237, 616
BpuEI CTTGAG 2 cut(s) 386, 743
BsaAI YACGTR 1 cut(s) 398
BsaHI GRCGYC 1 cut(s) 1242
BsaI GGTCTC 1 cut(s) 592
BsaJI CCNNGG 1 cut(s) 209
BsaXI ACNNNNNCTCC 2 cut(s) 210, 240
Bsc4I CCNNNNNNNGG 4 cut(s) 215, 1057, 1236, 1315
Bse1I ACTGG 3 cut(s) 17, 220, 599
Bse3DI GCAATG 2 cut(s) 887, 1113
BseBI CCWGG 2 cut(s) 57, 211
BseDI CCNNGG 1 cut(s) 209
BseGI GGATG 6 cut(s) 157, 266, 640, 1182, 1261, 1274
BseLI CCNNNNNNNGG 4 cut(s) 215, 1057, 1236, 1315
BseMI GCAATG 2 cut(s) 887, 1113
BseMII CTCAG 1 cut(s) 1304
BseNI ACTGG 3 cut(s) 17, 220, 599
BseXI GCAGC 5 cut(s) 16, 168, 508, 832, 847
BsgI GTGCAG 1 cut(s) 831
BshFI GGCC 2 cut(s) 557, 795
BshNI GGYRCC 1 cut(s) 59
BsiHKAI GWGCWC 1 cut(s) 994
BsiSI CCGG 1 cut(s) 1245
BslFI GGGAC 3 cut(s) 423, 741, 1253
BslI CCNNNNNNNGG 4 cut(s) 215, 1057, 1236, 1315
BsmAI GTCTC 5 cut(s) 39, 213, 286, 362, 592
BsmFI GGGAC 3 cut(s) 423, 741, 1253
BsmI GAATGC 1 cut(s) 434
BsnI GGCC 2 cut(s) 557, 795
Bso31I GGTCTC 1 cut(s) 592
Bsp1286I GDGCHC 1 cut(s) 994
Bsp1407I TGTACA 1 cut(s) 270
Bsp143I GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
BspACI CCGC 5 cut(s) 22, 503, 1202, 1211, 1250
BspANI GGCC 2 cut(s) 557, 795
BspCNI CTCAG 1 cut(s) 1305
BspHI TCATGA 1 cut(s) 1137
BspLI GGNNCC 4 cut(s) 61, 660, 939, 1319
BspOI GCTAGC 1 cut(s) 908
BspPI GGATC 6 cut(s) 653, 666, 710, 932, 945, 1025
BspT107I GGYRCC 1 cut(s) 59
BspTNI GGTCTC 1 cut(s) 592
BsrBI CCGCTC 1 cut(s) 1250
BsrDI GCAATG 2 cut(s) 887, 1113
BsrGI TGTACA 1 cut(s) 270
BsrI ACTGG 3 cut(s) 17, 220, 599
BssECI CCNNGG 1 cut(s) 209
BssMI GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
BssNI GRCGYC 1 cut(s) 1242
BssSI CACGAG 1 cut(s) 849
Bst2BI CACGAG 1 cut(s) 849
Bst2UI CCWGG 2 cut(s) 57, 211
Bst4CI ACNGT 4 cut(s) 173, 767, 824, 1231
Bst6I CTCTTC 1 cut(s) 309
BstACI GRCGYC 1 cut(s) 1242
BstAPI GCANNNNNTGC 1 cut(s) 518
BstAUI TGTACA 1 cut(s) 270
BstBAI YACGTR 1 cut(s) 398
BstC8I GCNNGC 3 cut(s) 894, 906, 1255
BstDEI CTNAG 1 cut(s) 1313
BstF5I GGATG 6 cut(s) 157, 266, 640, 1182, 1261, 1274
BstKTI GATC 6 cut(s) 661, 705, 754, 940, 1033, 1261
BstMAI GTCTC 5 cut(s) 39, 213, 286, 362, 592
BstMBI GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
BstMWI GCNNNNNNNGC 7 cut(s) 242, 509, 518, 842, 1208, 1211, 1250
BstNI CCWGG 2 cut(s) 57, 211
BstNSI RCATGY 3 cut(s) 271, 1084, 1257
BstSCI CCNGG 2 cut(s) 55, 209
BstSFI CTRYAG 3 cut(s) 169, 387, 820
BstSNI TACGTA 1 cut(s) 398
BstV1I GCAGC 5 cut(s) 16, 168, 508, 832, 847
BstV2I GAAGAC 3 cut(s) 140, 740, 1124
BstX2I RGATCY 4 cut(s) 658, 702, 937, 1030
BstXI CCANNNNNNTGG 1 cut(s) 261
BstYI RGATCY 4 cut(s) 658, 702, 937, 1030
BsuRI GGCC 2 cut(s) 557, 795
BtsCI GGATG 6 cut(s) 157, 266, 640, 1182, 1261, 1274
BtsIMutI CAGTG 3 cut(s) 178, 298, 829
Cac8I GCNNGC 3 cut(s) 894, 906, 1255
CciI TCATGA 1 cut(s) 1137
Cfr13I GGNCC 1 cut(s) 1318
CseI GACGC 2 cut(s) 1174, 1250
Csp6I GTAC 4 cut(s) 119, 271, 426, 538
CviJI RGCY 9 cut(s) 159, 236, 301, 386, 557, 795, 904, 908, 1160
CviKI_1 RGCY 9 cut(s) 159, 236, 301, 386, 557, 795, 904, 908, 1160
CviQI GTAC 4 cut(s) 119, 271, 426, 538
DdeI CTNAG 1 cut(s) 1313
DpnI GATC 6 cut(s) 660, 704, 753, 939, 1032, 1260
DpnII GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
DraI TTTAAA 2 cut(s) 618, 1095
DriI GACNNNNNGTC 1 cut(s) 466
EaeI YGGCCR 1 cut(s) 793
Eam1104I CTCTTC 1 cut(s) 309
Eam1105I GACNNNNNGTC 1 cut(s) 466
EarI CTCTTC 1 cut(s) 309
EciI GGCGGA 1 cut(s) 11
Eco105I TACGTA 1 cut(s) 398
Eco147I AGGCCT 1 cut(s) 557
Eco31I GGTCTC 1 cut(s) 592
Eco47I GGWCC 1 cut(s) 1318
Eco57I CTGAAG 2 cut(s) 143, 1178
EcoO109I RGGNCCY 1 cut(s) 1318
EcoRII CCWGG 2 cut(s) 55, 209
EcoT22I ATGCAT 2 cut(s) 436, 1075
FaqI GGGAC 3 cut(s) 423, 741, 1253
FblI GTMKAC 2 cut(s) 168, 199
Fnu4HI GCNGC 8 cut(s) 5, 157, 522, 846, 861, 1203, 1212, 1251
FokI GGATG 6 cut(s) 164, 273, 647, 1189, 1248, 1261
Fsp4HI GCNGC 8 cut(s) 5, 157, 522, 846, 861, 1203, 1212, 1251
FspBI CTAG 3 cut(s) 905, 999, 1043
GluI GCNGC 8 cut(s) 5, 157, 522, 846, 861, 1203, 1212, 1251
GsuI CTGGAG 2 cut(s) 237, 616
HaeIII GGCC 2 cut(s) 557, 795
HapII CCGG 1 cut(s) 1245
HgaI GACGC 2 cut(s) 1174, 1250
Hin1I GRCGYC 1 cut(s) 1242
HinfI GANTC 2 cut(s) 881, 1007
HpaII CCGG 1 cut(s) 1245
HphI GGTGA 1 cut(s) 86
Hpy166II GTNNAC 3 cut(s) 169, 200, 592
Hpy188I TCNGA 2 cut(s) 790, 1314
Hpy188III TCNNGA 4 cut(s) 77, 471, 806, 1138
Hpy8I GTNNAC 3 cut(s) 169, 200, 592
HpyAV CCTTC 7 cut(s) 83, 121, 620, 979, 1051, 1280, 1319
HpyCH4III ACNGT 4 cut(s) 173, 767, 824, 1231
HpyCH4IV ACGT 2 cut(s) 397, 1305
HpyF10VI GCNNNNNNNGC 7 cut(s) 242, 509, 518, 842, 1208, 1211, 1250
HpyF3I CTNAG 1 cut(s) 1313
HpySE526I ACGT 2 cut(s) 397, 1305
Hsp92I GRCGYC 1 cut(s) 1242
Kzo9I GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
LmnI GCTCC 2 cut(s) 176, 1247
Lsp1109I GCAGC 5 cut(s) 16, 168, 508, 832, 847
LweI GCATC 6 cut(s) 16, 294, 521, 958, 1082, 1214
MaeI CTAG 3 cut(s) 905, 999, 1043
MaeII ACGT 2 cut(s) 397, 1305
MalI GATC 6 cut(s) 660, 704, 753, 939, 1032, 1260
MbiI CCGCTC 1 cut(s) 1250
MboI GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
MboII GAAGA 9 cut(s) 5, 136, 145, 326, 635, 745, 977, 1124, 1184
MflI RGATCY 4 cut(s) 658, 702, 937, 1030
MhlI GDGCHC 1 cut(s) 994
Mph1103I ATGCAT 2 cut(s) 436, 1075
MseI TTAA 7 cut(s) 378, 476, 564, 582, 617, 927, 1094
MspA1I CMGCKG 1 cut(s) 1211
MspI CCGG 1 cut(s) 1245
MspR9I CCNGG 2 cut(s) 57, 211
Mva1269I GAATGC 1 cut(s) 434
MvaI CCWGG 2 cut(s) 57, 211
MwoI GCNNNNNNNGC 7 cut(s) 242, 509, 518, 842, 1208, 1211, 1250
NdeII GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
NheI GCTAGC 1 cut(s) 904
NlaIV GGNNCC 4 cut(s) 61, 660, 939, 1319
NsiI ATGCAT 2 cut(s) 436, 1075
NspI RCATGY 3 cut(s) 271, 1084, 1257
PaeI GCATGC 1 cut(s) 1257
PagI TCATGA 1 cut(s) 1137
PceI AGGCCT 1 cut(s) 557
PctI GAATGC 1 cut(s) 434
PfeI GAWTC 2 cut(s) 881, 1007
PkrI GCNGC 8 cut(s) 6, 158, 523, 847, 862, 1204, 1213, 1252
Ppu21I YACGTR 1 cut(s) 398
PpuMI RGGWCCY 1 cut(s) 1318
PshBI ATTAAT 3 cut(s) 378, 476, 564
Psp5II RGGWCCY 1 cut(s) 1318
Psp6I CCWGG 2 cut(s) 55, 209
PspGI CCWGG 2 cut(s) 55, 209
PspN4I GGNNCC 4 cut(s) 61, 660, 939, 1319
PspPI GGNCC 1 cut(s) 1318
PspPPI RGGWCCY 1 cut(s) 1318
PsuI RGATCY 4 cut(s) 658, 702, 937, 1030
RsaI GTAC 4 cut(s) 120, 272, 427, 539
RsaNI GTAC 4 cut(s) 119, 271, 426, 538
SaqAI TTAA 7 cut(s) 378, 476, 564, 582, 617, 927, 1094
SatI GCNGC 8 cut(s) 5, 157, 522, 846, 861, 1203, 1212, 1251
Sau3AI GATC 6 cut(s) 658, 702, 751, 937, 1030, 1258
Sau96I GGNCC 1 cut(s) 1318
ScrFI CCNGG 2 cut(s) 57, 211
SduI GDGCHC 1 cut(s) 994
SfaNI GCATC 6 cut(s) 16, 294, 521, 958, 1082, 1214
SfcI CTRYAG 3 cut(s) 169, 387, 820
SinI GGWCC 1 cut(s) 1318
SmiI ATTTAAAT 1 cut(s) 1095
SmlI CTYRAG 2 cut(s) 365, 722
SmoI CTYRAG 2 cut(s) 365, 722
SnaBI TACGTA 1 cut(s) 398
SphI GCATGC 1 cut(s) 1257
SseBI AGGCCT 1 cut(s) 557
SsiI CCGC 5 cut(s) 22, 503, 1202, 1211, 1250
SspMI CTAG 3 cut(s) 905, 999, 1043
StuI AGGCCT 1 cut(s) 557
StyD4I CCNGG 2 cut(s) 55, 209
SwaI ATTTAAAT 1 cut(s) 1095
TaaI ACNGT 4 cut(s) 173, 767, 824, 1231
TaiI ACGT 2 cut(s) 400, 1308
TaqI TCGA 2 cut(s) 312, 879
TatI WGTACW 4 cut(s) 118, 270, 425, 537
TauI GCSGC 3 cut(s) 1205, 1214, 1253
TfiI GAWTC 2 cut(s) 881, 1007
Tru1I TTAA 7 cut(s) 378, 476, 564, 582, 617, 927, 1094
Tru9I TTAA 7 cut(s) 378, 476, 564, 582, 617, 927, 1094
TscAI CASTG 3 cut(s) 178, 298, 829
TseI GCWGC 5 cut(s) 4, 156, 521, 845, 860
TspDTI ATGAA 6 cut(s) 396, 763, 873, 998, 1089, 1137
TspGWI ACGGA 1 cut(s) 428
TspRI CASTG 3 cut(s) 178, 298, 829
VpaK11BI GGWCC 1 cut(s) 1318
VspI ATTAAT 3 cut(s) 378, 476, 564
XapI RAATTY 2 cut(s) 1090, 1096
XceI RCATGY 3 cut(s) 271, 1084, 1257
XmiI GTMKAC 2 cut(s) 168, 199
XspI CTAG 3 cut(s) 905, 999, 1043
Zsp2I ATGCAT 2 cut(s) 436, 1075
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.