AT1G20410

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0006609
Physical Location & Seq
Reverse (-)
7078804 .. 7082566
3763 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G20410.2

Sequence Viewer

Length: 1515 bp
ATGTCCGGCGAAAAAGAACCCGTCGCCGTCGAATCAGCCGGCTTGCCCAACGGCCTAGTAAGTCATGGTAACTCCAAGACACGGCGCGTATACGAAACAGCTCGATCTCTGCATACCGGTGCTGTGAAAGATCTTCTCTCTCTCGGGGTCTGTGAGAGATGTATTTTCCGATTGGTATCCGTCGAGGCTTTTGATTCCGATATTTCATCAGTCTCGACTTCAACTCTGCGCAGCTGGCTCAAATCCGGTGATGATGAAACTAGTGCATCGGAATCTAGCTGTTCCACAATCTGCATTGTTTGTTTAGGTATATTGCAGTTCGTTTTTTCCGATGTCAAAAAAGAGCTGGTGAAATCGGATTCTAGTAGTGATTACGTTGCAAGGATAACGGACTTGGTGAAGCAGGATCGTCATGAGTTCGATAGCTTTGGTCTTGAAGTCTCTGTGCCATCAACTATCATGGAGAATGAACGTGCACTCTTGTCATACCTTAAAGGAAAGTACAGCACCGAAGTTTGGCTGCAGCGCGATAAAATTTCTGTAAAGGATGCCTTGAAAGTTCTACTCTTGGATCAACTTAAAGCATCGTTGGGCGCTGAATCAGATTCAAGCTCTTTTCACATCCGTTTGACATACACTAAAGCATCAGACGAGGCTCAGGGTGCTTCTGAAACAACGCATGAAAGTAAGAGGAGGAAAACAGACGCAGAGAATGGATCAAACTGTATTTCCGAGAATTCATTTGAAAAGGTGTATGAACCATGCATCTTTTCAGTTCATTGCAACAGGATGCCTATCTTTTTTAGTGGGAGGTACTTCAAATACTCCAGAAATGTTAGTCAATCACGATGGATTATTGATGATGAAAGAATGGGGGAAGCGTCTGTTGAGGAGATACTTGGTGGAAACATTCTTCCAGCATGCCTTGGGGATTCCTACAAGTTCCATGCTGCTGGCAGAGAAGATATTGATGTACGAATGTTGGGTTCAGGTAGACCTTTCTTGATCGAGGTTCAGAATTCTCGCCAGTTACCGTCTGAACAATCATTGAAGGAAGTTGAAGAAAAGATAAACAAGTCAGAGAAAAAACTAGTCGGAGTAAAAGACCTTAAATGTATCGGAAGTCAGTGTTGGGCAATGATGCGCGAGGGAGAAGCGGAGAAGCAGAAGCAGTATGTTGCACTTGTATGGATTTCTCGTCCACTTGAAGAGAAAGACTTCAACTCAATTTCTTGCCTGAAAGAATTGAAAATCTTGCAGAAGACACCAGTAAGAGTGCTTCACCGACGAAGTCCACTGGACCGTGAAAAGATTATACATTGGATGAAAGTTGAAAAGATAAAAGGACACTCTCACTACTTTCTATTGCATCTGTGCACCCAGGCTGGAACATACATCAAAGAGTTTGTTCATGGAGATCTTGGTCGTACCACTCCCAGCATGGGATCAATTTTAGGGTGCAGAGCGGAGATAATACAACTAGATGTGACTGATGTGAAAATGGGCGACCCATGA
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
No domains found.

Protein Analysis

504

Amino Acids

56.55

Weight (kDa)

6.53

Isoelectric Point (pI)

48.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pus10_C PF21238 114 - 346 2.1e-85 Pus10, C-terminal
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)
Acc16I TGCGCA 1 cut(s) 230
AccBSI CCGCTC 1 cut(s) 1466
AccI GTMKAC 2 cut(s) 90, 994
AccII CGCG 3 cut(s) 87, 528, 1146
AciI CCGC 2 cut(s) 1157, 1466
AclWI GGATC 4 cut(s) 414, 579, 724, 1453
AcsI RAATTY 3 cut(s) 534, 736, 1018
AfaI GTAC 4 cut(s) 503, 815, 975, 1429
AfiI CCNNNNNNNGG 3 cut(s) 81, 516, 1442
AgeI ACCGGT 1 cut(s) 116
AhlI ACTAGT 2 cut(s) 260, 1090
AjnI CCWGG 1 cut(s) 1380
AjuI GAANNNNNNNTTGG 2 cut(s) 1114, 1146
AluBI AGCT 6 cut(s) 101, 234, 279, 346, 426, 612
AluI AGCT 6 cut(s) 101, 234, 279, 346, 426, 612
Alw21I GWGCWC 2 cut(s) 478, 1379
Alw26I GTCTC 2 cut(s) 217, 445
Alw44I GTGCAC 2 cut(s) 474, 1375
AlwI GGATC 4 cut(s) 414, 579, 724, 1453
Ama87I CYCGRG 1 cut(s) 143
AoxI GGCC 1 cut(s) 52
ApaLI GTGCAC 2 cut(s) 474, 1375
ApeKI GCWGC 4 cut(s) 231, 520, 523, 950
ApoI RAATTY 3 cut(s) 534, 736, 1018
AsiGI ACCGGT 1 cut(s) 116
Asp700I GAANNNNTTC 1 cut(s) 1217
AspLEI GCGC 5 cut(s) 87, 231, 528, 596, 1146
AspS9I GGNCC 1 cut(s) 1300
AsuHPI GGTGA 4 cut(s) 260, 361, 409, 1274
AvaI CYCGRG 1 cut(s) 143
AvaII GGWCC 1 cut(s) 1300
BaeGI GKGCMC 2 cut(s) 478, 1379
BarI GAAGNNNNNNTAC 2 cut(s) 1263, 1295
BbsI GAAGAC 1 cut(s) 1268
Bbv12I GWGCWC 2 cut(s) 478, 1379
BbvI GCAGC 4 cut(s) 243, 507, 535, 937
BccI CCATC 2 cut(s) 457, 843
BceAI ACGGC 3 cut(s) 11, 67, 98
BciT130I CCWGG 1 cut(s) 1382
BciVI GTATCC 1 cut(s) 187
BcoDI GTCTC 2 cut(s) 217, 445
BcuI ACTAGT 2 cut(s) 260, 1090
BfaI CTAG 6 cut(s) 56, 261, 276, 363, 1091, 1481
BfmI CTRYAG 1 cut(s) 521
BfoI RGCGCY 1 cut(s) 597
BfuI GTATCC 1 cut(s) 187
BglII AGATCT 2 cut(s) 130, 1417
BisI GCNGC 4 cut(s) 232, 521, 524, 951
BlsI GCNGC 4 cut(s) 233, 522, 525, 952
Bme1390I CCNGG 1 cut(s) 1382
Bme18I GGWCC 1 cut(s) 1300
BmeT110I CYCGRG 1 cut(s) 143
BmgT120I GGNCC 1 cut(s) 1300
BmrFI CCNGG 1 cut(s) 1382
BmsI GCATC 8 cut(s) 275, 538, 593, 653, 774, 780, 1131, 1378
BpiI GAAGAC 1 cut(s) 1268
BpmI CTGGAG 1 cut(s) 811
Bpu10I CCTNAGC 1 cut(s) 657
BsaBI GATNNNNATC 2 cut(s) 175, 794
BsaJI CCNNGG 2 cut(s) 925, 1380
BsaWI WCCGGW 2 cut(s) 116, 245
Bsc4I CCNNNNNNNGG 3 cut(s) 81, 516, 1442
Bse118I RCCGGY 2 cut(s) 38, 116
Bse1I ACTGG 3 cut(s) 1027, 1268, 1302
Bse3DI GCAATG 2 cut(s) 778, 1143
Bse8I GATNNNNATC 2 cut(s) 175, 794
BseBI CCWGG 1 cut(s) 1382
BseDI CCNNGG 2 cut(s) 925, 1380
BseGI GGATG 4 cut(s) 553, 621, 795, 1329
BseJI GATNNNNATC 2 cut(s) 175, 794
BseLI CCNNNNNNNGG 3 cut(s) 81, 516, 1442
BseMI GCAATG 2 cut(s) 778, 1143
BseMII CTCAG 1 cut(s) 671
BseNI ACTGG 3 cut(s) 1027, 1268, 1302
BseRI GAGGAG 2 cut(s) 706, 905
BseSI GKGCMC 2 cut(s) 478, 1379
BseXI GCAGC 4 cut(s) 243, 507, 535, 937
BseYI CCCAGC 1 cut(s) 1436
BsgI GTGCAG 1 cut(s) 1480
Bsh1236I CGCG 3 cut(s) 87, 528, 1146
BshFI GGCC 1 cut(s) 54
BshTI ACCGGT 1 cut(s) 116
BsiHKAI GWGCWC 2 cut(s) 478, 1379
BsiHKCI CYCGRG 1 cut(s) 143
BsiSI CCGG 4 cut(s) 6, 39, 117, 246
BslI CCNNNNNNNGG 3 cut(s) 81, 516, 1442
BsmAI GTCTC 2 cut(s) 217, 445
BsnI GGCC 1 cut(s) 54
BsoBI CYCGRG 1 cut(s) 143
Bsp1286I GDGCHC 2 cut(s) 478, 1379
Bsp143I GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
BspACI CCGC 2 cut(s) 1157, 1466
BspANI GGCC 1 cut(s) 54
BspCNI CTCAG 1 cut(s) 670
BspFNI CGCG 3 cut(s) 87, 528, 1146
BspHI TCATGA 1 cut(s) 412
BspMAI CTGCAG 1 cut(s) 525
BspPI GGATC 4 cut(s) 414, 579, 724, 1453
BsrBI CCGCTC 1 cut(s) 1466
BsrDI GCAATG 2 cut(s) 778, 1143
BsrFI RCCGGY 2 cut(s) 38, 116
BsrI ACTGG 3 cut(s) 1027, 1268, 1302
BssAI RCCGGY 2 cut(s) 38, 116
BssECI CCNNGG 2 cut(s) 925, 1380
BssMI GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
BssNAI GTATAC 1 cut(s) 91
BssT1I CCWWGG 1 cut(s) 925
Bst1107I GTATAC 1 cut(s) 91
Bst2UI CCWGG 1 cut(s) 1382
Bst4CI ACNGT 3 cut(s) 725, 1035, 1304
Bst6I CTCTTC 1 cut(s) 1203
BstC8I GCNNGC 5 cut(s) 40, 44, 236, 922, 955
BstDEI CTNAG 1 cut(s) 657
BstF5I GGATG 4 cut(s) 553, 621, 795, 1329
BstFNI CGCG 3 cut(s) 87, 528, 1146
BstH2I RGCGCY 1 cut(s) 597
BstHHI GCGC 5 cut(s) 87, 231, 528, 596, 1146
BstKTI GATC 8 cut(s) 107, 133, 409, 574, 719, 1008, 1420, 1448
BstMAI GTCTC 2 cut(s) 217, 445
BstMBI GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
BstMWI GCNNNNNNNGC 2 cut(s) 235, 662
BstNI CCWGG 1 cut(s) 1382
BstNSI RCATGY 1 cut(s) 924
BstSCI CCNGG 1 cut(s) 1380
BstSFI CTRYAG 1 cut(s) 521
BstSLI GKGCMC 2 cut(s) 478, 1379
BstUI CGCG 3 cut(s) 87, 528, 1146
BstV1I GCAGC 4 cut(s) 243, 507, 535, 937
BstV2I GAAGAC 1 cut(s) 1268
BstX2I RGATCY 2 cut(s) 130, 1417
BstXI CCANNNNNNTGG 1 cut(s) 953
BstYI RGATCY 2 cut(s) 130, 1417
BstZ17I GTATAC 1 cut(s) 91
BsuI GTATCC 1 cut(s) 187
BsuRI GGCC 1 cut(s) 54
BtsCI GGATG 4 cut(s) 553, 621, 795, 1329
BtsIMutI CAGTG 2 cut(s) 1133, 1295
Cac8I GCNNGC 5 cut(s) 40, 44, 236, 922, 955
CciI TCATGA 1 cut(s) 412
CfoI GCGC 5 cut(s) 87, 231, 528, 596, 1146
Cfr10I RCCGGY 2 cut(s) 38, 116
Cfr13I GGNCC 1 cut(s) 1300
CseI GACGC 2 cut(s) 713, 870
Csp6I GTAC 4 cut(s) 502, 814, 974, 1428
CspAI ACCGGT 1 cut(s) 116
CviQI GTAC 4 cut(s) 502, 814, 974, 1428
DdeI CTNAG 1 cut(s) 657
DpnI GATC 8 cut(s) 106, 132, 408, 573, 718, 1007, 1419, 1447
DpnII GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
Eam1104I CTCTTC 1 cut(s) 1203
EarI CTCTTC 1 cut(s) 1203
Eco130I CCWWGG 1 cut(s) 925
Eco47I GGWCC 1 cut(s) 1300
Eco88I CYCGRG 1 cut(s) 143
EcoRI GAATTC 2 cut(s) 736, 1018
EcoRII CCWGG 1 cut(s) 1380
EcoT14I CCWWGG 1 cut(s) 925
EcoT22I ATGCAT 1 cut(s) 767
ErhI CCWWGG 1 cut(s) 925
FalI AAGNNNNNCTT 2 cut(s) 536, 568
FblI GTMKAC 2 cut(s) 90, 994
Fnu4HI GCNGC 4 cut(s) 232, 521, 524, 951
FokI GGATG 4 cut(s) 560, 608, 802, 1336
Fsp4HI GCNGC 4 cut(s) 232, 521, 524, 951
FspBI CTAG 6 cut(s) 56, 261, 276, 363, 1091, 1481
FspI TGCGCA 1 cut(s) 230
GlaI GCGC 5 cut(s) 86, 230, 527, 595, 1145
GluI GCNGC 4 cut(s) 232, 521, 524, 951
GsaI CCCAGC 1 cut(s) 1440
GsuI CTGGAG 1 cut(s) 811
HaeII RGCGCY 1 cut(s) 597
HaeIII GGCC 1 cut(s) 54
HapII CCGG 4 cut(s) 6, 39, 117, 246
HgaI GACGC 2 cut(s) 713, 870
HhaI GCGC 5 cut(s) 87, 231, 528, 596, 1146
Hin6I GCGC 5 cut(s) 85, 229, 526, 594, 1144
HinP1I GCGC 5 cut(s) 85, 229, 526, 594, 1144
HinfI GANTC 7 cut(s) 32, 194, 272, 359, 599, 605, 932
HpaII CCGG 4 cut(s) 6, 39, 117, 246
HphI GGTGA 4 cut(s) 260, 361, 409, 1274
Hpy166II GTNNAC 6 cut(s) 91, 476, 995, 1202, 1295, 1377
Hpy188III TCNNGA 6 cut(s) 214, 413, 434, 828, 846, 1003
Hpy8I GTNNAC 6 cut(s) 91, 476, 995, 1202, 1295, 1377
Hpy99I CGWCG 4 cut(s) 26, 32, 185, 1290
HpyAV CCTTC 1 cut(s) 1045
HpyCH4III ACNGT 3 cut(s) 725, 1035, 1304
HpyCH4IV ACGT 2 cut(s) 375, 472
HpyF10VI GCNNNNNNNGC 2 cut(s) 235, 662
HpyF3I CTNAG 1 cut(s) 657
HpySE526I ACGT 2 cut(s) 375, 472
HspAI GCGC 5 cut(s) 85, 229, 526, 594, 1144
KroI GCCGGC 1 cut(s) 38
KroNI GCCGGC 1 cut(s) 40
Kzo9I GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
Lsp1109I GCAGC 4 cut(s) 243, 507, 535, 937
LweI GCATC 8 cut(s) 275, 538, 593, 653, 774, 780, 1131, 1378
MaeI CTAG 6 cut(s) 56, 261, 276, 363, 1091, 1481
MaeII ACGT 2 cut(s) 375, 472
MaeIII GTNAC 3 cut(s) 68, 1029, 1486
MalI GATC 8 cut(s) 106, 132, 408, 573, 718, 1007, 1419, 1447
MbiI CCGCTC 1 cut(s) 1466
MboI GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
MboII GAAGA 6 cut(s) 125, 905, 974, 1073, 1220, 1273
MflI RGATCY 2 cut(s) 130, 1417
MhlI GDGCHC 2 cut(s) 478, 1379
MluCI AATT 6 cut(s) 534, 736, 1018, 1227, 1244, 1449
MmeI TCCRAC 1 cut(s) 1075
MnlI CCTC 8 cut(s) 178, 646, 684, 687, 804, 883, 1003, 1141
Mph1103I ATGCAT 1 cut(s) 767
MroNI GCCGGC 1 cut(s) 38
MroXI GAANNNNTTC 1 cut(s) 1217
MseI TTAA 3 cut(s) 492, 579, 1110
MslI CAYNNNNRTG 2 cut(s) 117, 1186
MspA1I CMGCKG 1 cut(s) 234
MspI CCGG 4 cut(s) 6, 39, 117, 246
MspR9I CCNGG 1 cut(s) 1382
MvaI CCWGG 1 cut(s) 1382
MvnI CGCG 3 cut(s) 87, 528, 1146
MwoI GCNNNNNNNGC 2 cut(s) 235, 662
NaeI GCCGGC 1 cut(s) 40
NdeII GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
NgoMIV GCCGGC 1 cut(s) 38
NmuCI GTSAC 1 cut(s) 1486
NsbI TGCGCA 1 cut(s) 230
NsiI ATGCAT 1 cut(s) 767
NspI RCATGY 1 cut(s) 924
PaeI GCATGC 1 cut(s) 924
PagI TCATGA 1 cut(s) 412
PcsI WCGNNNNNNNCGW 1 cut(s) 327
PdiI GCCGGC 1 cut(s) 40
PdmI GAANNNNTTC 1 cut(s) 1217
PfeI GAWTC 7 cut(s) 32, 194, 272, 359, 599, 605, 932
PflFI GACNNNGTC 1 cut(s) 1290
PinAI ACCGGT 1 cut(s) 116
PkrI GCNGC 4 cut(s) 233, 522, 525, 952
Psp6I CCWGG 1 cut(s) 1380
PspFI CCCAGC 1 cut(s) 1436
PspGI CCWGG 1 cut(s) 1380
PspPI GGNCC 1 cut(s) 1300
PstI CTGCAG 1 cut(s) 525
PsuI RGATCY 2 cut(s) 130, 1417
PsyI GACNNNGTC 1 cut(s) 1290
PvuII CAGCTG 1 cut(s) 234
RsaI GTAC 4 cut(s) 503, 815, 975, 1429
RsaNI GTAC 4 cut(s) 502, 814, 974, 1428
RseI CAYNNNNRTG 2 cut(s) 117, 1186
SaqAI TTAA 3 cut(s) 492, 579, 1110
SatI GCNGC 4 cut(s) 232, 521, 524, 951
Sau3AI GATC 8 cut(s) 104, 130, 406, 571, 716, 1005, 1417, 1445
Sau96I GGNCC 1 cut(s) 1300
ScrFI CCNGG 1 cut(s) 1382
SduI GDGCHC 2 cut(s) 478, 1379
SfaNI GCATC 8 cut(s) 275, 538, 593, 653, 774, 780, 1131, 1378
SfcI CTRYAG 1 cut(s) 521
SinI GGWCC 1 cut(s) 1300
SmiMI CAYNNNNRTG 2 cut(s) 117, 1186
SpeI ACTAGT 2 cut(s) 260, 1090
SphI GCATGC 1 cut(s) 924
Sse9I AATT 6 cut(s) 534, 736, 1018, 1227, 1244, 1449
SsiI CCGC 2 cut(s) 1157, 1466
SspMI CTAG 6 cut(s) 56, 261, 276, 363, 1091, 1481
StyD4I CCNGG 1 cut(s) 1380
StyI CCWWGG 1 cut(s) 925
TaaI ACNGT 3 cut(s) 725, 1035, 1304
TaiI ACGT 2 cut(s) 378, 475
TaqI TCGA 6 cut(s) 30, 103, 183, 215, 420, 1008
TasI AATT 6 cut(s) 534, 736, 1018, 1227, 1244, 1449
TatI WGTACW 1 cut(s) 501
TfiI GAWTC 7 cut(s) 32, 194, 272, 359, 599, 605, 932
Tru1I TTAA 3 cut(s) 492, 579, 1110
Tru9I TTAA 3 cut(s) 492, 579, 1110
TscAI CASTG 2 cut(s) 1133, 1302
TseFI GTSAC 1 cut(s) 1486
TseI GCWGC 4 cut(s) 231, 520, 523, 950
Tsp45I GTSAC 1 cut(s) 1486
TspGWI ACGGA 3 cut(s) 169, 404, 614
TspRI CASTG 2 cut(s) 1133, 1302
Tth111I GACNNNGTC 1 cut(s) 1290
VneI GTGCAC 2 cut(s) 474, 1375
VpaK11BI GGWCC 1 cut(s) 1300
XapI RAATTY 3 cut(s) 534, 736, 1018
XceI RCATGY 1 cut(s) 924
XcmI CCANNNNNNNNNTGG 1 cut(s) 1438
XmiI GTMKAC 2 cut(s) 90, 994
XmnI GAANNNNTTC 1 cut(s) 1217
XspI CTAG 6 cut(s) 56, 261, 276, 363, 1091, 1481
Zsp2I ATGCAT 1 cut(s) 767
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.