Rw6G006400

RNA pseudouridine synthase 4

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
Physical Location & Seq
Forward (+)
10231253 .. 10234704
3452 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G006400.1

Sequence Viewer

Length: 1413 bp
ATGCCGAATCACCTTCTCCTCCGCCGCATCCTCCTCCGTCCTCCACTCTCCTCCTCCGCCGAATCCGGCGGCGATAGGCTCTTCATCTCACCTTTCCACTACTCCCGATCTTACGCCACCGCCCAACCATTTCACGAAGACAAACAAAAGCGCGGCAAAAAGTGGTTCACTCTACCTCCGTTCACTGACTCCGTAAACGGCGCCGCTTTGGGACGAGAGCTGTCTCGCAGCGTCGGCAGAGATGTGTATGCTAAACCCACAGCCGCCGCAGCCACGACGGCGCTTAAATGGGTCACCAGGTGCTGCCCTGAGATTCCCAGAAGCCTTGTCCAGAAGCTCTTTCGGTTAAGACAGGTTCGAAGAGAAGCATCTGACATGGATCAAGGTGTTCAAGCGCTTAAAAGGGTGGGGGCTAAAGACTCGATGAACTTAGGAGATCGAATTTGTCTTCCTATTTCTGTGAAACAGTTCCCTGATGATAAACAAGAAGAGGGACATTGTAGTGAAGAAGAAGTCAAGTTTATTTGTAGTCTCGTGTTGTATAAGGATCCGGCTATTGTTGTCATCAATAAACCCCCTGGATTGCCTGTTCAGGGCGGTATTGGAATCAAAAGGAGTTTAGATGAACTGGCTGCCACTTGTTTAAGTTACGGCTTTTCAGAACCCCCTCGTCTGGTACACAGGCTTGACAGAGATTGTAGTGGTATCCTTGTGATGGGACGGACGGACACAAACAAGTGCAACATTTTAAAGGTTATCGACCATGCTAAAGCCATTCTGCAAAGAAGGTATTGGGCACTCGTCATTGGATCTCCCAGACAACAAGAGGGGTTAATCTCAGTGCCTTTAGGAAAGGTGGTGGTTGACAATGGTAAATCAGATAGGATCACCATTGTGAATAAGGCACAATGTTTGCCATCTCAACATGCAATTACAAAGTTCAAAGTGATTGGATCATCATGTCCTGGTTTCACATGGTTAGAGCTAATTCCACTTACTGGTCGAAAGCACCAGCTGCGTGTACACTGTGCAGAAGTTTTGGGAACACCGATAGTCGGAGACTACAAATATGGATGGCGAACGTATAAGGACTGGAAACCTGTTGCTTGGTCAAAGATTGAATGTCATTCCAATGAGGAGCGTTTGAAGAGAAAAAACATTCCTTTTTATCTCAATATGGACAGTGGATGTATCGCCGAAAAGAATTTGCGCTTACATCTTCATTCTAAGCAAATGATTTTGCCTAATGTGTCTCTGGCTTTGCAAAATGTGAAACTGCATGCGGAATGTGATCTTTCAGGACTAGAAAGCCTAGAGTTGGTTGCTCCTATGCTTTCATACATCCAAAAAAGTTGGGATATTTCAAATTCTGGTTTTGACAGGGGTGATATTACACTCTTAAGCTACAACTAG

Protein Analysis

470

Amino Acids

52.74

Weight (kDa)

9.39

Isoelectric Point (pI)

52.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_2 PF00849 186 - 344 8.1e-22 RNA pseudouridylate synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 200
AccB7I CCANNNNNTGG 1 cut(s) 998
AccII CGCG 1 cut(s) 153
AclWI GGATC 6 cut(s) 387, 542, 555, 817, 893, 961
AcsI RAATTY 3 cut(s) 441, 1204, 1366
AcyI GRCGYC 1 cut(s) 201
AdeI CACNNNGTG 1 cut(s) 300
AfaI GTAC 2 cut(s) 678, 1023
AfeI AGCGCT 1 cut(s) 396
AfiI CCNNNNNNNGG 6 cut(s) 593, 673, 715, 998, 1055, 1318
AflII CTTAAG 1 cut(s) 1399
AgsI TTSAA 5 cut(s) 392, 943, 1121, 1147, 1365
AjnI CCWGG 3 cut(s) 296, 577, 964
AleI CACNNNNGTG 1 cut(s) 893
AloI GAACNNNNNNTCC 2 cut(s) 573, 605
AluBI AGCT 5 cut(s) 220, 337, 985, 1015, 1404
AluI AGCT 5 cut(s) 220, 337, 985, 1015, 1404
Alw26I GTCTC 4 cut(s) 228, 536, 1053, 1257
AlwI GGATC 6 cut(s) 387, 542, 555, 817, 893, 961
AlwNI CAGNNNCTG 1 cut(s) 303
Aor51HI AGCGCT 1 cut(s) 396
ApeKI GCWGC 5 cut(s) 228, 269, 303, 632, 1015
ApoI RAATTY 3 cut(s) 441, 1204, 1366
Asp700I GAANNNNTTC 1 cut(s) 467
AspLEI GCGC 5 cut(s) 153, 203, 283, 397, 1212
AsuHPI GGTGA 4 cut(s) 81, 286, 880, 1397
AsuII TTCGAA 1 cut(s) 358
BaeGI GKGCMC 1 cut(s) 799
BamHI GGATCC 1 cut(s) 547
BanI GGYRCC 1 cut(s) 200
BauI CACGAG 1 cut(s) 533
BbsI GAAGAC 2 cut(s) 144, 440
BbvI GCAGC 5 cut(s) 240, 281, 290, 619, 1002
BccI CCATC 3 cut(s) 709, 925, 1068
BceAI ACGGC 3 cut(s) 214, 294, 667
BciT130I CCWGG 3 cut(s) 298, 579, 966
BciVI GTATCC 1 cut(s) 716
BcoDI GTCTC 4 cut(s) 228, 536, 1053, 1257
BfaI CTAG 3 cut(s) 1304, 1313, 1411
BfoI RGCGCY 3 cut(s) 204, 284, 398
BfrI CTTAAG 1 cut(s) 1399
BfuI GTATCC 1 cut(s) 716
BglI GCCNNNNNGGC 1 cut(s) 278
Bme1390I CCNGG 3 cut(s) 298, 579, 966
BmiI GGNNCC 2 cut(s) 202, 549
BmrFI CCNGG 3 cut(s) 298, 579, 966
BmsI GCATC 2 cut(s) 36, 377
BpiI GAAGAC 2 cut(s) 144, 440
Bpu14I TTCGAA 1 cut(s) 358
BsaHI GRCGYC 1 cut(s) 201
BsaJI CCNNGG 1 cut(s) 577
BsaXI ACNNNNNCTCC 2 cut(s) 160, 190
Bsc4I CCNNNNNNNGG 6 cut(s) 593, 673, 715, 998, 1055, 1318
Bse1I ACTGG 3 cut(s) 633, 1003, 1097
BseBI CCWGG 3 cut(s) 298, 579, 966
BseDI CCNNGG 1 cut(s) 577
BseGI GGATG 4 cut(s) 27, 1079, 1193, 1341
BseLI CCNNNNNNNGG 6 cut(s) 593, 673, 715, 998, 1055, 1318
BseMII CTCAG 2 cut(s) 300, 852
BseNI ACTGG 3 cut(s) 633, 1003, 1097
BseRI GAGGAG 5 cut(s) 8, 23, 40, 43, 1151
BseSI GKGCMC 1 cut(s) 799
BseXI GCAGC 5 cut(s) 240, 281, 290, 619, 1002
BsgI GTGCAG 1 cut(s) 1050
Bsh1236I CGCG 1 cut(s) 153
BshNI GGYRCC 1 cut(s) 200
BsiSI CCGG 2 cut(s) 66, 551
BslFI GGGAC 3 cut(s) 225, 507, 732
BslI CCNNNNNNNGG 6 cut(s) 593, 673, 715, 998, 1055, 1318
BsmAI GTCTC 4 cut(s) 228, 536, 1053, 1257
BsmFI GGGAC 3 cut(s) 225, 507, 732
Bsp119I TTCGAA 1 cut(s) 358
Bsp1286I GDGCHC 1 cut(s) 799
Bsp1407I TGTACA 1 cut(s) 1021
Bsp143I GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
BspCNI CTCAG 2 cut(s) 301, 851
BspFNI CGCG 1 cut(s) 153
BspLI GGNNCC 2 cut(s) 202, 549
BspPI GGATC 6 cut(s) 387, 542, 555, 817, 893, 961
BspQI GCTCTTC 1 cut(s) 86
BspT104I TTCGAA 1 cut(s) 358
BspT107I GGYRCC 1 cut(s) 200
BspTI CTTAAG 1 cut(s) 1399
BsrGI TGTACA 1 cut(s) 1021
BsrI ACTGG 3 cut(s) 633, 1003, 1097
BssECI CCNNGG 1 cut(s) 577
BssMI GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
BssNI GRCGYC 1 cut(s) 201
BssSI CACGAG 1 cut(s) 533
Bst2BI CACGAG 1 cut(s) 533
Bst2UI CCWGG 3 cut(s) 298, 579, 966
Bst4CI ACNGT 3 cut(s) 468, 1028, 1184
Bst6I CTCTTC 4 cut(s) 86, 355, 483, 1142
BstACI GRCGYC 1 cut(s) 201
BstAFI CTTAAG 1 cut(s) 1399
BstAPI GCANNNNNTGC 1 cut(s) 1015
BstAUI TGTACA 1 cut(s) 1021
BstBI TTCGAA 1 cut(s) 358
BstC8I GCNNGC 1 cut(s) 1281
BstDEI CTNAG 4 cut(s) 309, 430, 838, 1227
BstEII GGTNACC 1 cut(s) 292
BstF5I GGATG 4 cut(s) 27, 1079, 1193, 1341
BstFNI CGCG 1 cut(s) 153
BstH2I RGCGCY 3 cut(s) 204, 284, 398
BstHHI GCGC 5 cut(s) 153, 203, 283, 397, 1212
BstKTI GATC 8 cut(s) 110, 382, 439, 550, 812, 888, 956, 1294
BstMAI GTCTC 4 cut(s) 228, 536, 1053, 1257
BstMBI GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
BstMWI GCNNNNNNNGC 4 cut(s) 234, 269, 278, 1015
BstNI CCWGG 3 cut(s) 298, 579, 966
BstNSI RCATGY 2 cut(s) 929, 1283
BstPI GGTNACC 1 cut(s) 292
BstSCI CCNGG 3 cut(s) 296, 577, 964
BstSLI GKGCMC 1 cut(s) 799
BstUI CGCG 1 cut(s) 153
BstV1I GCAGC 5 cut(s) 240, 281, 290, 619, 1002
BstV2I GAAGAC 2 cut(s) 144, 440
BstX2I RGATCY 2 cut(s) 547, 809
BstYI RGATCY 2 cut(s) 547, 809
BsuI GTATCC 1 cut(s) 716
BtsCI GGATG 4 cut(s) 27, 1079, 1193, 1341
BtsIMutI CAGTG 4 cut(s) 183, 846, 1024, 1189
Cac8I GCNNGC 1 cut(s) 1281
CaiI CAGNNNCTG 1 cut(s) 303
CfoI GCGC 5 cut(s) 153, 203, 283, 397, 1212
CseI GACGC 1 cut(s) 220
CsiI ACCWGGT 1 cut(s) 296
Csp6I GTAC 2 cut(s) 677, 1022
CviAII CATG 6 cut(s) 376, 764, 926, 960, 975, 1280
CviQI GTAC 2 cut(s) 677, 1022
DdeI CTNAG 4 cut(s) 309, 430, 838, 1227
DinI GGCGCC 1 cut(s) 202
DpnI GATC 8 cut(s) 109, 381, 438, 549, 811, 887, 955, 1293
DpnII GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
DraI TTTAAA 1 cut(s) 750
DraIII CACNNNGTG 1 cut(s) 300
Eam1104I CTCTTC 4 cut(s) 86, 355, 483, 1142
EarI CTCTTC 4 cut(s) 86, 355, 483, 1142
EciI GGCGGA 2 cut(s) 11, 46
Eco47III AGCGCT 1 cut(s) 396
Eco91I GGTNACC 1 cut(s) 292
EcoO65I GGTNACC 1 cut(s) 292
EcoRII CCWGG 3 cut(s) 296, 577, 964
EgeI GGCGCC 1 cut(s) 202
EheI GGCGCC 1 cut(s) 202
FaeI CATG 6 cut(s) 379, 767, 929, 963, 978, 1283
FaqI GGGAC 3 cut(s) 225, 507, 732
FatI CATG 6 cut(s) 375, 763, 925, 959, 974, 1279
FokI GGATG 4 cut(s) 14, 1086, 1200, 1328
FspBI CTAG 3 cut(s) 1304, 1313, 1411
GlaI GCGC 5 cut(s) 152, 202, 282, 396, 1211
HaeII RGCGCY 3 cut(s) 204, 284, 398
HapII CCGG 2 cut(s) 66, 551
HgaI GACGC 1 cut(s) 220
HhaI GCGC 5 cut(s) 153, 203, 283, 397, 1212
Hin1I GRCGYC 1 cut(s) 201
Hin1II CATG 6 cut(s) 379, 767, 929, 963, 978, 1283
Hin6I GCGC 5 cut(s) 151, 201, 281, 395, 1210
HinP1I GCGC 5 cut(s) 151, 201, 281, 395, 1210
HincII GTYRAC 1 cut(s) 865
HindII GTYRAC 1 cut(s) 865
HinfI GANTC 6 cut(s) 7, 62, 188, 313, 419, 606
HpaII CCGG 2 cut(s) 66, 551
HphI GGTGA 4 cut(s) 81, 286, 880, 1397
Hpy166II GTNNAC 7 cut(s) 168, 183, 196, 679, 865, 1022, 1024
Hpy188I TCNGA 4 cut(s) 373, 661, 880, 1058
Hpy188III TCNNGA 4 cut(s) 105, 134, 331, 1299
Hpy8I GTNNAC 7 cut(s) 168, 183, 196, 679, 865, 1022, 1024
Hpy99I CGWCG 2 cut(s) 236, 280
HpyAV CCTTC 2 cut(s) 23, 780
HpyCH4III ACNGT 3 cut(s) 468, 1028, 1184
HpyCH4IV ACGT 1 cut(s) 1082
HpyCH4V TGCA 6 cut(s) 741, 781, 929, 1031, 1264, 1279
HpyF10VI GCNNNNNNNGC 4 cut(s) 234, 269, 278, 1015
HpyF3I CTNAG 4 cut(s) 309, 430, 838, 1227
HpySE526I ACGT 1 cut(s) 1082
Hsp92I GRCGYC 1 cut(s) 201
Hsp92II CATG 6 cut(s) 379, 767, 929, 963, 978, 1283
HspAI GCGC 5 cut(s) 151, 201, 281, 395, 1210
KasI GGCGCC 1 cut(s) 200
Kzo9I GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
LguI GCTCTTC 1 cut(s) 86
LmnI GCTCC 2 cut(s) 1138, 1330
Lsp1109I GCAGC 5 cut(s) 240, 281, 290, 619, 1002
LweI GCATC 2 cut(s) 36, 377
MabI ACCWGGT 1 cut(s) 296
MaeI CTAG 3 cut(s) 1304, 1313, 1411
MaeII ACGT 1 cut(s) 1082
MaeIII GTNAC 2 cut(s) 292, 647
MalI GATC 8 cut(s) 109, 381, 438, 549, 811, 887, 955, 1293
MboI GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
MboII GAAGA 9 cut(s) 73, 149, 372, 440, 500, 518, 521, 1159, 1211
MflI RGATCY 2 cut(s) 547, 809
MhlI GDGCHC 1 cut(s) 799
MluCI AATT 5 cut(s) 441, 930, 987, 1204, 1366
Mly113I GGCGCC 1 cut(s) 201
MlyI GAGTC 2 cut(s) 182, 413
MmeI TCCRAC 1 cut(s) 1036
MroXI GAANNNNTTC 1 cut(s) 467
MseI TTAA 7 cut(s) 285, 347, 399, 644, 749, 833, 1400
MslI CAYNNNNRTG 3 cut(s) 501, 893, 1131
MspA1I CMGCKG 1 cut(s) 1015
MspCI CTTAAG 1 cut(s) 1399
MspI CCGG 2 cut(s) 66, 551
MspR9I CCNGG 3 cut(s) 298, 579, 966
MvaI CCWGG 3 cut(s) 298, 579, 966
MvnI CGCG 1 cut(s) 153
MwoI GCNNNNNNNGC 4 cut(s) 234, 269, 278, 1015
NarI GGCGCC 1 cut(s) 201
NdeII GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
NlaIII CATG 6 cut(s) 379, 767, 929, 963, 978, 1283
NlaIV GGNNCC 2 cut(s) 202, 549
NmuCI GTSAC 1 cut(s) 292
NspI RCATGY 2 cut(s) 929, 1283
NspV TTCGAA 1 cut(s) 358
OliI CACNNNNGTG 1 cut(s) 893
PaeI GCATGC 1 cut(s) 1283
PciSI GCTCTTC 1 cut(s) 86
PdmI GAANNNNTTC 1 cut(s) 467
PfeI GAWTC 4 cut(s) 7, 62, 313, 606
PflMI CCANNNNNTGG 1 cut(s) 998
PleI GAGTC 2 cut(s) 182, 413
PluTI GGCGCC 1 cut(s) 204
PpsI GAGTC 2 cut(s) 182, 413
Psp6I CCWGG 3 cut(s) 296, 577, 964
PspEI GGTNACC 1 cut(s) 292
PspGI CCWGG 3 cut(s) 296, 577, 964
PspN4I GGNNCC 2 cut(s) 202, 549
PstNI CAGNNNCTG 1 cut(s) 303
PsuI RGATCY 2 cut(s) 547, 809
PvuII CAGCTG 1 cut(s) 1015
RsaI GTAC 2 cut(s) 678, 1023
RsaNI GTAC 2 cut(s) 677, 1022
RseI CAYNNNNRTG 3 cut(s) 501, 893, 1131
SapI GCTCTTC 1 cut(s) 86
SaqAI TTAA 7 cut(s) 285, 347, 399, 644, 749, 833, 1400
Sau3AI GATC 8 cut(s) 107, 379, 436, 547, 809, 885, 953, 1291
SchI GAGTC 2 cut(s) 182, 413
ScrFI CCNGG 3 cut(s) 298, 579, 966
SduI GDGCHC 1 cut(s) 799
SexAI ACCWGGT 1 cut(s) 296
SfaNI GCATC 2 cut(s) 36, 377
SfoI GGCGCC 1 cut(s) 202
SfuI TTCGAA 1 cut(s) 358
SmiMI CAYNNNNRTG 3 cut(s) 501, 893, 1131
SmlI CTYRAG 1 cut(s) 1399
SmoI CTYRAG 1 cut(s) 1399
SphI GCATGC 1 cut(s) 1283
Sse9I AATT 5 cut(s) 441, 930, 987, 1204, 1366
SspDI GGCGCC 1 cut(s) 200
SspMI CTAG 3 cut(s) 1304, 1313, 1411
StyD4I CCNGG 3 cut(s) 296, 577, 964
TaaI ACNGT 3 cut(s) 468, 1028, 1184
TaiI ACGT 1 cut(s) 1085
TaqI TCGA 5 cut(s) 358, 422, 439, 759, 1003
TasI AATT 5 cut(s) 441, 930, 987, 1204, 1366
TatI WGTACW 1 cut(s) 1021
TauI GCSGC 6 cut(s) 27, 72, 156, 206, 266, 269
TfiI GAWTC 4 cut(s) 7, 62, 313, 606
Tru1I TTAA 7 cut(s) 285, 347, 399, 644, 749, 833, 1400
Tru9I TTAA 7 cut(s) 285, 347, 399, 644, 749, 833, 1400
TscAI CASTG 4 cut(s) 190, 846, 1031, 1189
TseFI GTSAC 1 cut(s) 292
TseI GCWGC 5 cut(s) 228, 269, 303, 632, 1015
Tsp45I GTSAC 1 cut(s) 292
TspDTI ATGAA 5 cut(s) 73, 440, 639, 1211, 1326
TspGWI ACGGA 5 cut(s) 26, 168, 181, 736, 740
TspRI CASTG 4 cut(s) 190, 846, 1031, 1189
Van91I CCANNNNNTGG 1 cut(s) 998
Vha464I CTTAAG 1 cut(s) 1399
XapI RAATTY 3 cut(s) 441, 1204, 1366
XceI RCATGY 2 cut(s) 929, 1283
XmnI GAANNNNTTC 1 cut(s) 467
XspI CTAG 3 cut(s) 1304, 1313, 1411
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.