AT5G35400

Pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0006106
Physical Location & Seq
Reverse (-)
13599220 .. 13602355
3136 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G35400.2

Sequence Viewer

Length: 1263 bp
ATGGCGAGCAGAGTTTACGTTCATTACCACCACGCCGATGCCTGTAGCAAAGCTCGCTGGAACGCCAGAGAGACATTTAGGTTTATGTATGATAGGCCTTGGCAACATGTTCTTGACTTCTACTCAAATGCAGTGGAAGGGAATCTTTCTGTCCTGAGTTTGTTTCAGCCTAAAAAATCTTTGGTTCATGATGATGGGATAACTGAAGAGATGCTTCTTGAATCGGAACCGGAGACTTCTACTCGGAAAGACGGGAGGTCGGGGAGGTGGGAAAGAGTGAATTTCAAGATCGTTCTTTCGTATAATGGGGCTTCTTTTGATGGATGGCAGAAACAGCCTGACTTACATACTGTTCAGGGTGTAGTAGAGAAGTCTCTAGGGGGATTTGTTGATGAAAGGAAAGCTCAACTGCTCAAGAAAAAATGTAAACCATTAGAAGGACGTGTACTTGTCGCTGGAAGAACCGATAAAGGAGTGTCTGCTCTTAATCAAGTTTGTTCTTTCTATACATGGAGAAAAGACATTGAACCCATTGCTATTGAAGATGCTATCAATAAAGATGCTTCTGGGAAGCTAAGGGTTGTATCAATCTCTAAGGTTTCCCGTTCATTTCACCCAAATTTCTCGGCAAAATGGAGGCGCTACTTGTATATCTTCCCCTTGGATGATGCTGAGCCATTGCGAAAAAGTGGCGAGAATCATGAGAACTTTATCTTTGATGAGAACAAGAAAAAGCAAAGAAATGGACTCTTAAGTGAAGAGATTGCTGAAGAAGTAATAATGAGCGAGGATGATGAGCTTGAAATTGAGGAAACCAGCAATGCGCTTGAAGTAGTAGAAAAACCAAGTGACTTTAGTGTAAGCAAGGTTGATCAACTTTTGCAGCACCTTCAAGGAAAAGTATTATCCTACAAGATGTTTGCGCGTGATACAAAAGCTGCAAGAAACGAAGGTCCGCCTACAGAATGTTTTATGTACCATGCACGGGCAGCCGAAATTAGATTGTCCAGTTCTGACTGTGTGGAAGGAAGAAGGGTTATGTGTGTTGAGCTTGTGGCTAACCGATTTCTCCGCAAGATGGTTCGAGTTCTTGTGGCAACATCAATCCGAGAAGCTGCCGCTGGTGCGGAAGATGATGCATTGTTAAAACTGCTAGAAGCTTCATGCAGACGAGCCACAGCTCCTCCAGCTCCATCTGAAGGTCTCTGTCTATTCGACGTTGGTTATACTGACTTTGACCCTCAAACTTCTCTCATTTCCTGA
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
PseudoU_synth_1

Protein Analysis

420

Amino Acids

47.65

Weight (kDa)

6.26

Isoelectric Point (pI)

48.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 395 - 460 4.2e-07 tRNA pseudouridine synthase
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)
AccII CGCG 1 cut(s) 925
AciI CCGC 4 cut(s) 956, 1072, 1119, 1127
AcsI RAATTY 2 cut(s) 280, 619
AcuI CTGAAG 3 cut(s) 225, 789, 1218
AfaI GTAC 2 cut(s) 447, 977
AfiI CCNNNNNNNGG 4 cut(s) 437, 985, 1078, 1199
AflII CTTAAG 1 cut(s) 751
AflIII ACRYGT 2 cut(s) 106, 442
AgsI TTSAA 7 cut(s) 221, 286, 527, 542, 803, 830, 893
AhdI GACNNNNNGTC 1 cut(s) 256
AjiI CACGTC 1 cut(s) 443
Alw26I GTCTC 4 cut(s) 65, 227, 378, 1208
AoxI GGCC 1 cut(s) 95
ApeKI GCWGC 4 cut(s) 883, 938, 989, 1115
ApoI RAATTY 2 cut(s) 280, 619
AspLEI GCGC 3 cut(s) 642, 826, 925
AspS9I GGNCC 1 cut(s) 953
AsuHPI GGTGA 1 cut(s) 605
AvaII GGWCC 1 cut(s) 953
BarI GAAGNNNNNNTAC 2 cut(s) 429, 461
BbvI GCAGC 4 cut(s) 895, 925, 1001, 1102
BccI CCATC 5 cut(s) 188, 314, 318, 1072, 1201
BclI TGATCA 1 cut(s) 871
BcoDI GTCTC 4 cut(s) 65, 227, 378, 1208
BfaI CTAG 2 cut(s) 377, 1154
BfmI CTRYAG 2 cut(s) 43, 960
BfoI RGCGCY 1 cut(s) 643
BfrI CTTAAG 1 cut(s) 751
BisI GCNGC 5 cut(s) 884, 939, 990, 1116, 1119
BlpI GCTNAGC 1 cut(s) 672
BlsI GCNGC 5 cut(s) 885, 940, 991, 1117, 1120
Bme18I GGWCC 1 cut(s) 953
BmeRI GACNNNNNGTC 1 cut(s) 256
BmgBI CACGTC 1 cut(s) 443
BmgT120I GGNCC 1 cut(s) 953
BmiI GGNNCC 1 cut(s) 228
BmsI GCATC 6 cut(s) 28, 201, 535, 550, 658, 1126
BpmI CTGGAG 1 cut(s) 1170
Bpu10I CCTNAGC 1 cut(s) 575
Bpu1102I GCTNAGC 1 cut(s) 672
BpuEI CTTGAG 1 cut(s) 398
BsaI GGTCTC 1 cut(s) 1208
BsaJI CCNNGG 2 cut(s) 98, 660
BsaWI WCCGGW 1 cut(s) 229
BsaXI ACNNNNNCTCC 2 cut(s) 1168, 1198
Bsc4I CCNNNNNNNGG 4 cut(s) 437, 985, 1078, 1199
Bse1I ACTGG 1 cut(s) 1008
Bse3DI GCAATG 3 cut(s) 531, 677, 826
BseDI CCNNGG 2 cut(s) 98, 660
BseGI GGATG 3 cut(s) 329, 670, 796
BseLI CCNNNNNNNGG 4 cut(s) 437, 985, 1078, 1199
BseMI GCAATG 3 cut(s) 531, 677, 826
BseMII CTCAG 2 cut(s) 146, 663
BseNI ACTGG 1 cut(s) 1008
BseRI GAGGAG 1 cut(s) 1173
BseXI GCAGC 4 cut(s) 895, 925, 1001, 1102
Bsh1236I CGCG 1 cut(s) 925
BshFI GGCC 1 cut(s) 97
BsiSI CCGG 1 cut(s) 230
BslI CCNNNNNNNGG 4 cut(s) 437, 985, 1078, 1199
BsmAI GTCTC 4 cut(s) 65, 227, 378, 1208
BsnI GGCC 1 cut(s) 97
Bso31I GGTCTC 1 cut(s) 1208
Bsp143I GATC 2 cut(s) 288, 871
Bsp1720I GCTNAGC 1 cut(s) 672
BspACI CCGC 4 cut(s) 956, 1072, 1119, 1127
BspANI GGCC 1 cut(s) 97
BspCNI CTCAG 2 cut(s) 147, 664
BspFNI CGCG 1 cut(s) 925
BspHI TCATGA 2 cut(s) 187, 700
BspLI GGNNCC 1 cut(s) 228
BspTI CTTAAG 1 cut(s) 751
BspTNI GGTCTC 1 cut(s) 1208
BsrDI GCAATG 3 cut(s) 531, 677, 826
BsrI ACTGG 1 cut(s) 1008
BssECI CCNNGG 2 cut(s) 98, 660
BssMI GATC 2 cut(s) 288, 871
BssT1I CCWWGG 2 cut(s) 98, 660
Bst4CI ACNGT 2 cut(s) 352, 1019
Bst6I CTCTTC 2 cut(s) 201, 753
BstAFI CTTAAG 1 cut(s) 751
BstC8I GCNNGC 2 cut(s) 7, 55
BstDEI CTNAG 4 cut(s) 155, 575, 594, 672
BstF5I GGATG 3 cut(s) 329, 670, 796
BstFNI CGCG 1 cut(s) 925
BstH2I RGCGCY 1 cut(s) 643
BstHHI GCGC 3 cut(s) 642, 826, 925
BstKTI GATC 2 cut(s) 291, 874
BstMAI GTCTC 4 cut(s) 65, 227, 378, 1208
BstMBI GATC 2 cut(s) 288, 871
BstMWI GCNNNNNNNGC 5 cut(s) 54, 334, 989, 1124, 1187
BstNSI RCATGY 1 cut(s) 110
BstSFI CTRYAG 2 cut(s) 43, 960
BstUI CGCG 1 cut(s) 925
BstV1I GCAGC 4 cut(s) 895, 925, 1001, 1102
BsuRI GGCC 1 cut(s) 97
BtrI CACGTC 1 cut(s) 443
BtsCI GGATG 3 cut(s) 329, 670, 796
BtsI GCAGTG 1 cut(s) 138
BtsIMutI CAGTG 1 cut(s) 138
Cac8I GCNNGC 2 cut(s) 7, 55
CciI TCATGA 2 cut(s) 187, 700
CfoI GCGC 3 cut(s) 642, 826, 925
Cfr13I GGNCC 1 cut(s) 953
Csp6I GTAC 2 cut(s) 446, 976
CspCI CAANNNNNGTGG 2 cut(s) 114, 149
CviAII CATG 6 cut(s) 107, 188, 510, 701, 980, 1164
CviQI GTAC 2 cut(s) 446, 976
DdeI CTNAG 4 cut(s) 155, 575, 594, 672
DpnI GATC 2 cut(s) 290, 873
DpnII GATC 2 cut(s) 288, 871
DriI GACNNNNNGTC 1 cut(s) 256
Eam1104I CTCTTC 2 cut(s) 201, 753
Eam1105I GACNNNNNGTC 1 cut(s) 256
EarI CTCTTC 2 cut(s) 201, 753
EciI GGCGGA 1 cut(s) 945
Eco130I CCWWGG 2 cut(s) 98, 660
Eco147I AGGCCT 1 cut(s) 97
Eco31I GGTCTC 1 cut(s) 1208
Eco47I GGWCC 1 cut(s) 953
Eco57I CTGAAG 3 cut(s) 225, 789, 1218
EcoT14I CCWWGG 2 cut(s) 98, 660
EcoT22I ATGCAT 1 cut(s) 1141
ErhI CCWWGG 2 cut(s) 98, 660
FaeI CATG 6 cut(s) 110, 191, 513, 704, 983, 1167
FalI AAGNNNNNCTT 4 cut(s) 129, 161, 198, 230
FatI CATG 6 cut(s) 106, 187, 509, 700, 979, 1163
FbaI TGATCA 1 cut(s) 871
Fnu4HI GCNGC 5 cut(s) 884, 939, 990, 1116, 1119
FokI GGATG 3 cut(s) 336, 677, 803
Fsp4HI GCNGC 5 cut(s) 884, 939, 990, 1116, 1119
FspBI CTAG 2 cut(s) 377, 1154
GlaI GCGC 3 cut(s) 641, 825, 924
GluI GCNGC 5 cut(s) 884, 939, 990, 1116, 1119
GsuI CTGGAG 1 cut(s) 1170
HaeII RGCGCY 1 cut(s) 643
HaeIII GGCC 1 cut(s) 97
HapII CCGG 1 cut(s) 230
HhaI GCGC 3 cut(s) 642, 826, 925
Hin1II CATG 6 cut(s) 110, 191, 513, 704, 983, 1167
Hin6I GCGC 3 cut(s) 640, 824, 923
HinP1I GCGC 3 cut(s) 640, 824, 923
HindIII AAGCTT 1 cut(s) 1158
HinfI GANTC 4 cut(s) 142, 221, 697, 747
HpaII CCGG 1 cut(s) 230
HphI GGTGA 1 cut(s) 605
Hpy166II GTNNAC 3 cut(s) 16, 428, 446
Hpy188I TCNGA 5 cut(s) 226, 246, 1015, 1109, 1198
Hpy188III TCNNGA 8 cut(s) 113, 154, 188, 218, 286, 415, 701, 1260
Hpy8I GTNNAC 3 cut(s) 16, 428, 446
Hpy99I CGWCG 1 cut(s) 1220
HpyAV CCTTC 7 cut(s) 131, 431, 899, 944, 1019, 1026, 1193
HpyCH4III ACNGT 2 cut(s) 352, 1019
HpyCH4IV ACGT 3 cut(s) 18, 442, 1218
HpyCH4V TGCA 6 cut(s) 131, 883, 941, 983, 1139, 1167
HpyF10VI GCNNNNNNNGC 5 cut(s) 54, 334, 989, 1124, 1187
HpyF3I CTNAG 4 cut(s) 155, 575, 594, 672
HpySE526I ACGT 3 cut(s) 18, 442, 1218
Hsp92II CATG 6 cut(s) 110, 191, 513, 704, 983, 1167
HspAI GCGC 3 cut(s) 640, 824, 923
Ksp22I TGATCA 1 cut(s) 871
Kzo9I GATC 2 cut(s) 288, 871
LmnI GCTCC 2 cut(s) 1186, 1195
Lsp1109I GCAGC 4 cut(s) 895, 925, 1001, 1102
LweI GCATC 6 cut(s) 28, 201, 535, 550, 658, 1126
MaeI CTAG 2 cut(s) 377, 1154
MaeII ACGT 3 cut(s) 18, 442, 1218
MaeIII GTNAC 1 cut(s) 848
MalI GATC 2 cut(s) 290, 873
MboI GATC 2 cut(s) 288, 871
MboII GAAGA 8 cut(s) 218, 471, 554, 646, 770, 782, 1041, 1142
MluCI AATT 4 cut(s) 280, 619, 804, 996
MlyI GAGTC 1 cut(s) 741
MnlI CCTC 7 cut(s) 249, 258, 630, 781, 802, 1194, 1251
Mph1103I ATGCAT 1 cut(s) 1141
MseI TTAA 3 cut(s) 486, 752, 1145
MslI CAYNNNNRTG 2 cut(s) 36, 192
MspA1I CMGCKG 1 cut(s) 1121
MspCI CTTAAG 1 cut(s) 751
MspI CCGG 1 cut(s) 230
MvnI CGCG 1 cut(s) 925
MwoI GCNNNNNNNGC 5 cut(s) 54, 334, 989, 1124, 1187
NdeII GATC 2 cut(s) 288, 871
NlaIII CATG 6 cut(s) 110, 191, 513, 704, 983, 1167
NlaIV GGNNCC 1 cut(s) 228
NmeAIII GCCGAG 1 cut(s) 605
NmuCI GTSAC 1 cut(s) 848
NsiI ATGCAT 1 cut(s) 1141
NspI RCATGY 1 cut(s) 110
PagI TCATGA 2 cut(s) 187, 700
PceI AGGCCT 1 cut(s) 97
PciI ACATGT 1 cut(s) 106
PfeI GAWTC 3 cut(s) 142, 221, 697
PkrI GCNGC 5 cut(s) 885, 940, 991, 1117, 1120
PleI GAGTC 1 cut(s) 741
PpsI GAGTC 1 cut(s) 741
PscI ACATGT 1 cut(s) 106
PspN4I GGNNCC 1 cut(s) 228
PspPI GGNCC 1 cut(s) 953
RsaI GTAC 2 cut(s) 447, 977
RsaNI GTAC 2 cut(s) 446, 976
RseI CAYNNNNRTG 2 cut(s) 36, 192
SaqAI TTAA 3 cut(s) 486, 752, 1145
SatI GCNGC 5 cut(s) 884, 939, 990, 1116, 1119
Sau3AI GATC 2 cut(s) 288, 871
Sau96I GGNCC 1 cut(s) 953
SchI GAGTC 1 cut(s) 741
SfaNI GCATC 6 cut(s) 28, 201, 535, 550, 658, 1126
SfcI CTRYAG 2 cut(s) 43, 960
SinI GGWCC 1 cut(s) 953
SmiMI CAYNNNNRTG 2 cut(s) 36, 192
SmlI CTYRAG 2 cut(s) 413, 751
SmoI CTYRAG 2 cut(s) 413, 751
Sse9I AATT 4 cut(s) 280, 619, 804, 996
SseBI AGGCCT 1 cut(s) 97
SsiI CCGC 4 cut(s) 956, 1072, 1119, 1127
SspMI CTAG 2 cut(s) 377, 1154
StuI AGGCCT 1 cut(s) 97
StyI CCWWGG 2 cut(s) 98, 660
TaaI ACNGT 2 cut(s) 352, 1019
TaiI ACGT 3 cut(s) 21, 445, 1221
TaqI TCGA 2 cut(s) 1084, 1215
TasI AATT 4 cut(s) 280, 619, 804, 996
TatI WGTACW 1 cut(s) 445
TauI GCSGC 1 cut(s) 1121
TfiI GAWTC 3 cut(s) 142, 221, 697
Tru1I TTAA 3 cut(s) 486, 752, 1145
Tru9I TTAA 3 cut(s) 486, 752, 1145
TscAI CASTG 1 cut(s) 138
TseFI GTSAC 1 cut(s) 848
TseI GCWGC 4 cut(s) 883, 938, 989, 1115
Tsp45I GTSAC 1 cut(s) 848
TspDTI ATGAA 5 cut(s) 11, 176, 408, 597, 1152
TspRI CASTG 1 cut(s) 138
Vha464I CTTAAG 1 cut(s) 751
VpaK11BI GGWCC 1 cut(s) 953
XapI RAATTY 2 cut(s) 280, 619
XceI RCATGY 1 cut(s) 110
XspI CTAG 2 cut(s) 377, 1154
Zsp2I ATGCAT 1 cut(s) 1141
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.