AT2G39670

Ribosomal RNA large subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0010937
Physical Location & Seq
Forward (+)
16534175 .. 16537318
3144 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G39670.2

Sequence Viewer

Length: 1287 bp
ATGATGACGACAACAACCAATACTATGGCTATGCTTCAAAACCTCGTCTTCTCTGTTCCAATCTCTCGTATGGTAGTTCGGCGTCACTCCCTCGCTACCACCTTCTCCGCTGCCGCCACAACCGTCGTACCGTCTCCTAAACCGGTATCAGCCAAACCGGCGCGTACTCCACACGTGGACTCACATGTTCTCATCGGAATGTCAGAGCCTGAGCTTCAAGAGCTTGCTATCAACCTCGGTCAAGAAGGATACAGAGGAAAGCAGCTCCATCATCTTATTTACAAGAGAAAGGTTAATAAAGTTGAAGACTTTAGCAATTTGCCACTGACGTTTCGTAAAGGACTTGTGGATGGTGGATTTAAAGTGGGAAGATCACCCATTTACCAAACTGTTACTGCCACTGATGGTACCATTAAGCTTCTGCTAAAGCTTGAAGATAACCTATTGATCGAAACTGTTGGTATACCAGTTCAAGATGATGAGAAGGGCATAACGCGCCTCACCGCTTGTGTCTCTTCCCAGGTTGGATGTCCGCTTCGTTGTTCGTTTTGTGCCACGGGAAAAGGAGGCTTTTCAAGAAATCTGCAGCGCCATGAAATTATTGAGCAGGTGTTGGCTATCGAGGACGTGTTCAAGCATAGGGTGACAAATGTGGTTTTCATGGGAATGGGTGAGCCGATGTTGAACCTAAAGTCAGTACTTGATGCTCATCGTTGTTTGAACAAGGACATTGAAATCGGACAACGAATGATTACAATATCGACTGTAGGTGTTCCAAACACAATCAAGAAGCTTGCATCTCATAAGCTTCAGTCGACCTTAGCTGTCAGCTTACATGCGCCAAATCAGAGCCTCAGGGAGAAAATTGTACCAAGTGCCAAGGCTTATCCGCTGGAAGCAATTATGAAGGATTGTCGTGATTACTTCCAAGAAACAAATAGACGAGTCTCTTTCGAATATGCCCTTCTAGCTGGAGTCAATGATCAAGTTGAGCATGCGGTGGAACTTGCAGAGCTACTCCGTGAATGGGGTAAAACTTATCACGTAAATTTGATACCTTACAACCCGATAGAGGGATCAGAGTACCAGCGACCTTACAAGAAAGCGGTCCTAGCGTTTGCAGCTGCGTTGGAGTCGCGTAAGATAACAGCAAGCGTAAGGCAAACAAGAGGACTTGATGCAAGTGCTGCTTGTGGTCAGCTGAGGAATAAGTTTCAGAAAAGCCCTTTGCTTACTGAGACGGATAGTCAAGAGTCTCAGCCAGATGCAGAAGCTGTCGCTTGTTGA
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
Fer4_14 Radical_SAM

Protein Analysis

428

Amino Acids

47.35

Weight (kDa)

9.05

Isoelectric Point (pI)

47.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Radical_SAM PF04055 175 - 339 6e-18 Radical SAM superfamily
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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Orthologous Genes (Group: OG0010937)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G39670 AT2G39670
fragaria_vesca FvH4_7g22600
malus_domestica MD07G1012700.v1.1 MD07G1199600.v1.1
prunus_persica Prupe.2G236300_v2.0.a1
pyrus_communis pycom07g01040 pycom07g18640
rosa_chinensis RchiOBHm_Chr1g0367701
rosa_laevigata RLG00000027269
rosa_multiflora Rmu_sc0008470.1_g000011 Rmu_sc0022951.1_g000001 Rmu_sc0027455.1_g000001
rosa_roxburghii Rroxscaffold_4G00289290
rosa_rugosa Rorug01G0336200
rosa_samantha Rh1AG343200 Rh1BG304900 Rh1CG320600 Rh1DG337200
rosa_wichuraiana Rw1G030540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 598
Acc36I ACCTGC 1 cut(s) 598
Acc65I GGTACC 1 cut(s) 407
AccB1I GGYRCC 1 cut(s) 407
AccI GTMKAC 2 cut(s) 463, 815
AccII CGCG 3 cut(s) 163, 496, 1138
AciI CCGC 7 cut(s) 108, 114, 504, 533, 890, 998, 1106
AclWI GGATC 1 cut(s) 1084
AcsI RAATTY 1 cut(s) 1048
AcuI CTGAAG 1 cut(s) 794
AcvI CACGTG 1 cut(s) 175
AcyI GRCGYC 1 cut(s) 82
AfaI GTAC 6 cut(s) 129, 166, 409, 699, 870, 1085
AfiI CCNNNNNNNGG 3 cut(s) 1027, 1072, 1073
AflIII ACRYGT 3 cut(s) 172, 184, 627
AgeI ACCGGT 1 cut(s) 142
AhdI GACNNNNNGTC 1 cut(s) 1245
AjiI CACGTC 1 cut(s) 628
AjnI CCWGG 1 cut(s) 519
Alw26I GTCTC 5 cut(s) 138, 517, 952, 1232, 1260
AlwI GGATC 1 cut(s) 1084
AlwNI CAGNNNCTG 2 cut(s) 209, 1274
ApeKI GCWGC 6 cut(s) 110, 262, 586, 1121, 1124, 1187
ApoI RAATTY 1 cut(s) 1048
AsiGI ACCGGT 1 cut(s) 142
Asp718I GGTACC 1 cut(s) 407
AspLEI GCGC 4 cut(s) 163, 498, 591, 841
AspS9I GGNCC 1 cut(s) 1108
AsuHPI GGTGA 4 cut(s) 366, 493, 655, 683
AsuII TTCGAA 1 cut(s) 954
AvaII GGWCC 1 cut(s) 1108
AxyI CCTNAGG 1 cut(s) 854
BaeI ACNNNNGTAYC 2 cut(s) 111, 144
BanI GGYRCC 1 cut(s) 407
BbrPI CACGTG 1 cut(s) 175
BbsI GAAGAC 2 cut(s) 40, 312
BbvCI CCTCAGC 1 cut(s) 1202
BbvI GCAGC 6 cut(s) 97, 274, 598, 1111, 1133, 1174
BccI CCATC 3 cut(s) 276, 344, 398
BciT130I CCWGG 1 cut(s) 521
BciVI GTATCC 1 cut(s) 242
BclI TGATCA 1 cut(s) 982
BcoDI GTCTC 5 cut(s) 138, 517, 952, 1232, 1260
BfaI CTAG 2 cut(s) 968, 1112
BfmI CTRYAG 2 cut(s) 584, 765
BfoI RGCGCY 1 cut(s) 592
BfuAI ACCTGC 1 cut(s) 598
BfuI GTATCC 1 cut(s) 242
BglI GCCNNNNNGGC 1 cut(s) 158
BisI GCNGC 7 cut(s) 111, 114, 263, 587, 1122, 1125, 1188
BlsI GCNGC 7 cut(s) 112, 115, 264, 588, 1123, 1126, 1189
BmcAI AGTACT 1 cut(s) 699
Bme1390I CCNGG 1 cut(s) 521
Bme18I GGWCC 1 cut(s) 1108
BmeRI GACNNNNNGTC 1 cut(s) 1245
BmgBI CACGTC 1 cut(s) 628
BmgT120I GGNCC 1 cut(s) 1108
BmiI GGNNCC 1 cut(s) 409
BmrFI CCNGG 1 cut(s) 521
BmsI GCATC 4 cut(s) 694, 806, 1168, 1255
BpiI GAAGAC 2 cut(s) 40, 312
BpmI CTGGAG 1 cut(s) 993
Bpu10I CCTNAGC 3 cut(s) 210, 820, 1202
Bpu14I TTCGAA 1 cut(s) 954
BsaAI YACGTR 2 cut(s) 175, 1045
BsaBI GATNNNNATC 1 cut(s) 708
BsaHI GRCGYC 1 cut(s) 82
BsaJI CCNNGG 4 cut(s) 235, 519, 555, 879
BsaWI WCCGGW 1 cut(s) 142
Bsc4I CCNNNNNNNGG 3 cut(s) 1027, 1072, 1073
Bse118I RCCGGY 2 cut(s) 142, 157
Bse1I ACTGG 1 cut(s) 467
Bse21I CCTNAGG 1 cut(s) 854
Bse8I GATNNNNATC 1 cut(s) 708
BseBI CCWGG 1 cut(s) 521
BseDI CCNNGG 4 cut(s) 235, 519, 555, 879
BseGI GGATG 2 cut(s) 355, 533
BseJI GATNNNNATC 1 cut(s) 708
BseLI CCNNNNNNNGG 3 cut(s) 1027, 1072, 1073
BseMII CTCAG 5 cut(s) 201, 868, 1193, 1227, 1271
BseNI ACTGG 1 cut(s) 467
BseXI GCAGC 6 cut(s) 97, 274, 598, 1111, 1133, 1174
Bsh1236I CGCG 3 cut(s) 163, 496, 1138
BshNI GGYRCC 1 cut(s) 407
BshTI ACCGGT 1 cut(s) 142
BsiSI CCGG 2 cut(s) 143, 158
BslI CCNNNNNNNGG 3 cut(s) 1027, 1072, 1073
BsmAI GTCTC 5 cut(s) 138, 517, 952, 1232, 1260
BsmBI CGTCTC 2 cut(s) 138, 1232
Bsp119I TTCGAA 1 cut(s) 954
Bsp143I GATC 4 cut(s) 371, 447, 982, 1076
BspACI CCGC 7 cut(s) 108, 114, 504, 533, 890, 998, 1106
BspCNI CTCAG 5 cut(s) 202, 867, 1194, 1228, 1270
BspFNI CGCG 3 cut(s) 163, 496, 1138
BspLI GGNNCC 1 cut(s) 409
BspMAI CTGCAG 1 cut(s) 588
BspMI ACCTGC 1 cut(s) 598
BspPI GGATC 1 cut(s) 1084
BspT104I TTCGAA 1 cut(s) 954
BspT107I GGYRCC 1 cut(s) 407
BsrFI RCCGGY 2 cut(s) 142, 157
BsrI ACTGG 1 cut(s) 467
BssAI RCCGGY 2 cut(s) 142, 157
BssECI CCNNGG 4 cut(s) 235, 519, 555, 879
BssMI GATC 4 cut(s) 371, 447, 982, 1076
BssNAI GTATAC 1 cut(s) 464
BssNI GRCGYC 1 cut(s) 82
BssT1I CCWWGG 1 cut(s) 879
Bst1107I GTATAC 1 cut(s) 464
Bst2UI CCWGG 1 cut(s) 521
Bst4CI ACNGT 5 cut(s) 124, 132, 391, 457, 766
Bst6I CTCTTC 1 cut(s) 520
BstACI GRCGYC 1 cut(s) 82
BstAPI GCANNNNNTGC 1 cut(s) 1187
BstBAI YACGTR 2 cut(s) 175, 1045
BstBI TTCGAA 1 cut(s) 954
BstC8I GCNNGC 4 cut(s) 225, 795, 996, 1153
BstDEI CTNAG 6 cut(s) 210, 820, 854, 1202, 1236, 1257
BstDSI CCRYGG 1 cut(s) 555
BstF5I GGATG 2 cut(s) 355, 533
BstFNI CGCG 3 cut(s) 163, 496, 1138
BstH2I RGCGCY 1 cut(s) 592
BstHHI GCGC 4 cut(s) 163, 498, 591, 841
BstKTI GATC 4 cut(s) 374, 450, 985, 1079
BstMAI GTCTC 5 cut(s) 138, 517, 952, 1232, 1260
BstMBI GATC 4 cut(s) 371, 447, 982, 1076
BstMWI GCNNNNNNNGC 7 cut(s) 158, 220, 495, 968, 1112, 1121, 1187
BstNI CCWGG 1 cut(s) 521
BstNSI RCATGY 3 cut(s) 188, 839, 998
BstSCI CCNGG 1 cut(s) 519
BstSFI CTRYAG 2 cut(s) 584, 765
BstUI CGCG 3 cut(s) 163, 496, 1138
BstV1I GCAGC 6 cut(s) 97, 274, 598, 1111, 1133, 1174
BstV2I GAAGAC 2 cut(s) 40, 312
BstXI CCANNNNNNTGG 1 cut(s) 25
BstZ17I GTATAC 1 cut(s) 464
Bsu36I CCTNAGG 1 cut(s) 854
BsuI GTATCC 1 cut(s) 242
BtgI CCRYGG 1 cut(s) 555
BtrI CACGTC 1 cut(s) 628
BtsCI GGATG 2 cut(s) 355, 533
BtsIMutI CAGTG 2 cut(s) 323, 399
BveI ACCTGC 1 cut(s) 598
Cac8I GCNNGC 4 cut(s) 225, 795, 996, 1153
CaiI CAGNNNCTG 2 cut(s) 209, 1274
CfoI GCGC 4 cut(s) 163, 498, 591, 841
Cfr10I RCCGGY 2 cut(s) 142, 157
Cfr13I GGNCC 1 cut(s) 1108
CseI GACGC 1 cut(s) 71
Csp6I GTAC 6 cut(s) 128, 165, 408, 698, 869, 1084
CspAI ACCGGT 1 cut(s) 142
CviAII CATG 5 cut(s) 185, 593, 661, 836, 995
CviQI GTAC 6 cut(s) 128, 165, 408, 698, 869, 1084
DdeI CTNAG 6 cut(s) 210, 820, 854, 1202, 1236, 1257
DpnI GATC 4 cut(s) 373, 449, 984, 1078
DpnII GATC 4 cut(s) 371, 447, 982, 1076
DraI TTTAAA 1 cut(s) 361
DriI GACNNNNNGTC 1 cut(s) 1245
Eam1104I CTCTTC 1 cut(s) 520
Eam1105I GACNNNNNGTC 1 cut(s) 1245
EarI CTCTTC 1 cut(s) 520
Eco130I CCWWGG 1 cut(s) 879
Eco47I GGWCC 1 cut(s) 1108
Eco57I CTGAAG 1 cut(s) 794
Eco72I CACGTG 1 cut(s) 175
Eco81I CCTNAGG 1 cut(s) 854
EcoRII CCWGG 1 cut(s) 519
EcoT14I CCWWGG 1 cut(s) 879
ErhI CCWWGG 1 cut(s) 879
Esp3I CGTCTC 2 cut(s) 138, 1232
FaeI CATG 5 cut(s) 188, 596, 664, 839, 998
FalI AAGNNNNNCTT 2 cut(s) 1174, 1206
FatI CATG 5 cut(s) 184, 592, 660, 835, 994
FbaI TGATCA 1 cut(s) 982
FblI GTMKAC 2 cut(s) 463, 815
Fnu4HI GCNGC 7 cut(s) 111, 114, 263, 587, 1122, 1125, 1188
FokI GGATG 2 cut(s) 362, 540
Fsp4HI GCNGC 7 cut(s) 111, 114, 263, 587, 1122, 1125, 1188
FspBI CTAG 2 cut(s) 968, 1112
GlaI GCGC 4 cut(s) 162, 497, 590, 840
GluI GCNGC 7 cut(s) 111, 114, 263, 587, 1122, 1125, 1188
GsuI CTGGAG 1 cut(s) 993
HaeII RGCGCY 1 cut(s) 592
HapII CCGG 2 cut(s) 143, 158
HgaI GACGC 1 cut(s) 71
HhaI GCGC 4 cut(s) 163, 498, 591, 841
Hin1I GRCGYC 1 cut(s) 82
Hin1II CATG 5 cut(s) 188, 596, 664, 839, 998
Hin6I GCGC 4 cut(s) 161, 496, 589, 839
HinP1I GCGC 4 cut(s) 161, 496, 589, 839
HincII GTYRAC 1 cut(s) 816
HindII GTYRAC 1 cut(s) 816
HindIII AAGCTT 4 cut(s) 416, 428, 791, 806
HinfI GANTC 5 cut(s) 179, 945, 975, 1133, 1253
HpaII CCGG 2 cut(s) 143, 158
HphI GGTGA 4 cut(s) 366, 493, 655, 683
Hpy166II GTNNAC 3 cut(s) 178, 464, 816
Hpy188I TCNGA 6 cut(s) 197, 205, 740, 849, 1081, 1218
Hpy188III TCNNGA 7 cut(s) 218, 242, 473, 576, 787, 917, 1250
Hpy8I GTNNAC 3 cut(s) 178, 464, 816
Hpy99I CGWCG 1 cut(s) 128
HpyAV CCTTC 5 cut(s) 112, 239, 478, 901, 974
HpyCH4III ACNGT 5 cut(s) 124, 132, 391, 457, 766
HpyCH4IV ACGT 4 cut(s) 174, 329, 627, 1044
HpyCH4V TGCA 6 cut(s) 586, 797, 1010, 1121, 1181, 1268
HpyF10VI GCNNNNNNNGC 7 cut(s) 158, 220, 495, 968, 1112, 1121, 1187
HpyF3I CTNAG 6 cut(s) 210, 820, 854, 1202, 1236, 1257
HpySE526I ACGT 4 cut(s) 174, 329, 627, 1044
Hsp92I GRCGYC 1 cut(s) 82
Hsp92II CATG 5 cut(s) 188, 596, 664, 839, 998
HspAI GCGC 4 cut(s) 161, 496, 589, 839
KpnI GGTACC 1 cut(s) 411
Ksp22I TGATCA 1 cut(s) 982
Kzo9I GATC 4 cut(s) 371, 447, 982, 1076
LmnI GCTCC 1 cut(s) 270
Lsp1109I GCAGC 6 cut(s) 97, 274, 598, 1111, 1133, 1174
LweI GCATC 4 cut(s) 694, 806, 1168, 1255
MaeI CTAG 2 cut(s) 968, 1112
MaeII ACGT 4 cut(s) 174, 329, 627, 1044
MaeIII GTNAC 3 cut(s) 83, 391, 643
MalI GATC 4 cut(s) 373, 449, 984, 1078
MboI GATC 4 cut(s) 371, 447, 982, 1076
MboII GAAGA 5 cut(s) 40, 317, 381, 446, 507
MluCI AATT 5 cut(s) 316, 597, 864, 900, 1048
MlyI GAGTC 5 cut(s) 173, 954, 984, 1142, 1262
MmeI TCCRAC 2 cut(s) 505, 1110
MseI TTAA 3 cut(s) 294, 360, 414
MslI CAYNNNNRTG 2 cut(s) 197, 665
MspA1I CMGCKG 4 cut(s) 110, 892, 1124, 1201
MspI CCGG 2 cut(s) 143, 158
MspR9I CCNGG 1 cut(s) 521
MvaI CCWGG 1 cut(s) 521
MvnI CGCG 3 cut(s) 163, 496, 1138
MwoI GCNNNNNNNGC 7 cut(s) 158, 220, 495, 968, 1112, 1121, 1187
NdeII GATC 4 cut(s) 371, 447, 982, 1076
NlaIII CATG 5 cut(s) 188, 596, 664, 839, 998
NlaIV GGNNCC 1 cut(s) 409
NmuCI GTSAC 2 cut(s) 83, 643
NspI RCATGY 3 cut(s) 188, 839, 998
NspV TTCGAA 1 cut(s) 954
PaeI GCATGC 1 cut(s) 998
PaqCI CACCTGC 1 cut(s) 598
PciI ACATGT 1 cut(s) 184
PinAI ACCGGT 1 cut(s) 142
PkrI GCNGC 7 cut(s) 112, 115, 264, 588, 1123, 1126, 1189
PleI GAGTC 5 cut(s) 173, 953, 983, 1141, 1261
PmaCI CACGTG 1 cut(s) 175
PmlI CACGTG 1 cut(s) 175
PpsI GAGTC 5 cut(s) 173, 953, 983, 1141, 1261
Ppu21I YACGTR 2 cut(s) 175, 1045
PscI ACATGT 1 cut(s) 184
Psp6I CCWGG 1 cut(s) 519
PspCI CACGTG 1 cut(s) 175
PspGI CCWGG 1 cut(s) 519
PspN4I GGNNCC 1 cut(s) 409
PspPI GGNCC 1 cut(s) 1108
PstI CTGCAG 1 cut(s) 588
PstNI CAGNNNCTG 2 cut(s) 209, 1274
PvuII CAGCTG 2 cut(s) 1124, 1201
RsaI GTAC 6 cut(s) 129, 166, 409, 699, 870, 1085
RsaNI GTAC 6 cut(s) 128, 165, 408, 698, 869, 1084
RseI CAYNNNNRTG 2 cut(s) 197, 665
SalI GTCGAC 1 cut(s) 814
SaqAI TTAA 3 cut(s) 294, 360, 414
SatI GCNGC 7 cut(s) 111, 114, 263, 587, 1122, 1125, 1188
Sau3AI GATC 4 cut(s) 371, 447, 982, 1076
Sau96I GGNCC 1 cut(s) 1108
ScaI AGTACT 1 cut(s) 699
SchI GAGTC 5 cut(s) 173, 954, 984, 1142, 1262
ScrFI CCNGG 1 cut(s) 521
SfaNI GCATC 4 cut(s) 694, 806, 1168, 1255
SfcI CTRYAG 2 cut(s) 584, 765
SfuI TTCGAA 1 cut(s) 954
SinI GGWCC 1 cut(s) 1108
SmiMI CAYNNNNRTG 2 cut(s) 197, 665
SphI GCATGC 1 cut(s) 998
Sse9I AATT 5 cut(s) 316, 597, 864, 900, 1048
SsiI CCGC 7 cut(s) 108, 114, 504, 533, 890, 998, 1106
SspMI CTAG 2 cut(s) 968, 1112
StyD4I CCNGG 1 cut(s) 519
StyI CCWWGG 1 cut(s) 879
TaaI ACNGT 5 cut(s) 124, 132, 391, 457, 766
TaiI ACGT 4 cut(s) 177, 332, 630, 1047
TaqI TCGA 5 cut(s) 450, 621, 761, 815, 954
TaqII GACCGA 1 cut(s) 227
TasI AATT 5 cut(s) 316, 597, 864, 900, 1048
TatI WGTACW 1 cut(s) 697
TauI GCSGC 1 cut(s) 116
Tru1I TTAA 3 cut(s) 294, 360, 414
Tru9I TTAA 3 cut(s) 294, 360, 414
TscAI CASTG 2 cut(s) 330, 406
TseFI GTSAC 2 cut(s) 83, 643
TseI GCWGC 6 cut(s) 110, 262, 586, 1121, 1124, 1187
Tsp45I GTSAC 2 cut(s) 83, 643
TspDTI ATGAA 3 cut(s) 609, 649, 920
TspGWI ACGGA 2 cut(s) 1010, 1256
TspRI CASTG 2 cut(s) 330, 406
VpaK11BI GGWCC 1 cut(s) 1108
XapI RAATTY 1 cut(s) 1048
XceI RCATGY 3 cut(s) 188, 839, 998
XmiI GTMKAC 2 cut(s) 463, 815
XspI CTAG 2 cut(s) 968, 1112
ZrmI AGTACT 1 cut(s) 699
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.