Rorug07G0016600

RNA pseudourine synthase 3

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000007
Physical Location & Seq
Forward (+)
1318653 .. 1321123
2471 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug07G0016600.1

Sequence Viewer

Length: 1359 bp
ATGGCCAACAAGGAAGGTCGTGGACCTAGCATTTGGGATACATTCGTTAAAATCCCAGGAACTATTGCAAATAATGATACAGCAGATGTTACAGTGGATCAATATCACCGTTACAAAGAAGACATTGATATCATGCAAAACCTAAATTTTGATGCCTATCGGTTCTCAATATCATGGTCCAGAATCTTCCCAGATGGTACTGGGAAAGTGAATTGGAAAGGAGTTGCATACTACAATCGGTTAATTAACTACTTGCTTAAAAGAGGCATTACTCCTTATGCAAATTTGTATCACTATGATCTTCCCCTAGCACTTGAGCAAAAGTATCTGGGATTGTTAAGTGACAAAGTGGTGAAGGATTTTGCGGATTACGCGGAATTTTGCTTCAAGACATTTGGAGACAGAGTCAAGAACTGGTTGACATTCAATGAGCCTAGAGTGGTGGCTGCTCTTGGCTATGACAATGGAATAAATGCTCCGGCACGGTGCTCCAAAGCTTATGGAAATTGCACAGCTGGGAATTCAGGAACTGAGCCTTACATTGCTGCTCATCATTTGATTTTGTCACATGCAGCTGCTGTTCAGAGATACCGCAAAAAGTATCAGAAAATACAAAAGGGAAAGATTGGTATTCTCTTGGATTTTCTTTGGTACGAACCTCTTACCAGATCAAAGGCTGACAGATATGCAGCTCAAAGGGCAATAGACTTTCATGTTGGATGGTTCATTCATCCAATTGTATATGGGGAGTATCCGAAAACAATGCAAAATATTGTTGGCAATAGGCTGCCTAAGTTTACTAAAGAGGAGGTTAAGATGGTGATGGGCTCTATGGATTTTGTAGGCATCAACCAGTATACAGCTTTTTACGTGTATGATCCACATCAAAACAAAACAAAACCAAATGCCTTGGGATACCAAAATGACTGGAATGCAAAATTTGCTTATGACAAGAATGGAGTGCCTATTGGTCCTAGGGCATATTCTTTTTGGCTCTACCAAGTACCATGGGGTTTGTACAAGTGCATAACGTACATAAAAGAGCATCATGGGAACCCCCCTGTGATTTTATCTGAAAACGGCATGGATAACCCCGGAAACCAGACTCTTCCAAAGGCATTGCACGATACCAATAGGATCAACTACTACAGAAGCTATCTGGAGCAACTGAAGAAGGCAGTTGATGAGGGAGCCAATGTGGTAGGCTACTTTGCTTGGTCATTGCTCGACAACTTTGAATGGAGATTGGGTTACACTTCAAGGTTTGGCATAGTCTATGTTGACTTCACCACCCTCAAGAGATACCCAAAGATGTCTGCCTTCTGGTTCAAGAAACTTCTTACCAAAAAGAAGCATTAG

Protein Analysis

452

Amino Acids

52.39

Weight (kDa)

9.37

Isoelectric Point (pI)

17.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_1 PF00232 3 - 451 4e-142 Glycosyl hydrolase family 1
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)
AccI GTMKAC 1 cut(s) 857
AccII CGCG 1 cut(s) 374
AciI CCGC 3 cut(s) 365, 374, 592
AclWI GGATC 3 cut(s) 105, 872, 1145
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 5 cut(s) 145, 283, 377, 520, 938
AcuI CTGAAG 1 cut(s) 1190
AfaI GTAC 5 cut(s) 199, 653, 1005, 1019, 1034
AflIII ACRYGT 1 cut(s) 870
AgsI TTSAA 5 cut(s) 388, 427, 1238, 1260, 1330
AjnI CCWGG 1 cut(s) 55
AluBI AGCT 6 cut(s) 497, 515, 575, 692, 863, 1155
AluI AGCT 6 cut(s) 497, 515, 575, 692, 863, 1155
Alw21I GWGCWC 1 cut(s) 491
Alw26I GTCTC 1 cut(s) 393
AlwI GGATC 3 cut(s) 105, 872, 1145
AlwNI CAGNNNCTG 2 cut(s) 530, 578
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 6 cut(s) 446, 545, 572, 575, 689, 787
ApoI RAATTY 5 cut(s) 145, 283, 377, 520, 938
ArsI GACNNNNNNTTYG 2 cut(s) 15, 47
AspA2I CCTAGG 1 cut(s) 974
AspS9I GGNCC 3 cut(s) 23, 177, 971
AsuC2I CCSGG 1 cut(s) 1095
AsuHPI GGTGA 4 cut(s) 98, 364, 832, 1279
AvaII GGWCC 3 cut(s) 23, 177, 971
AvrII CCTAGG 1 cut(s) 974
BaeI ACNNNNGTAYC 2 cut(s) 30, 63
BalI TGGCCA 1 cut(s) 5
BanII GRGCYC 1 cut(s) 830
BbsI GAAGAC 1 cut(s) 126
Bbv12I GWGCWC 1 cut(s) 491
BbvI GCAGC 6 cut(s) 433, 532, 562, 584, 701, 774
BccI CCATC 4 cut(s) 188, 714, 811, 817
BceAI ACGGC 1 cut(s) 1096
BcgI CGANNNNNNTGC 2 cut(s) 745, 779
BciT130I CCWGG 1 cut(s) 57
BciVI GTATCC 3 cut(s) 31, 762, 908
BcnI CCSGG 1 cut(s) 1095
BcoDI GTCTC 1 cut(s) 393
BfaI CTAG 4 cut(s) 27, 308, 435, 975
BfmI CTRYAG 1 cut(s) 1147
BfuI GTATCC 3 cut(s) 31, 762, 908
BisI GCNGC 6 cut(s) 447, 546, 573, 576, 690, 788
BlnI CCTAGG 1 cut(s) 974
BlsI GCNGC 6 cut(s) 448, 547, 574, 577, 691, 789
Bme1390I CCNGG 2 cut(s) 57, 1095
Bme18I GGWCC 3 cut(s) 23, 177, 971
BmgT120I GGNCC 3 cut(s) 23, 177, 971
BmiI GGNNCC 2 cut(s) 1055, 1192
BmrFI CCNGG 2 cut(s) 57, 1095
BmrI ACTGGG 1 cut(s) 210
BmsI GCATC 3 cut(s) 142, 855, 1054
BmuI ACTGGG 1 cut(s) 210
BpiI GAAGAC 1 cut(s) 126
BpmI CTGGAG 1 cut(s) 1181
BpuEI CTTGAG 2 cut(s) 335, 1280
BpuMI CCSGG 1 cut(s) 1095
BsaAI YACGTR 1 cut(s) 871
BsaBI GATNNNNATC 3 cut(s) 102, 156, 882
BsaJI CCNNGG 5 cut(s) 55, 909, 974, 1007, 1093
BsaXI ACNNNNNCTCC 6 cut(s) 390, 420, 1182, 1212, 1234, 1264
Bse1I ACTGG 4 cut(s) 205, 419, 853, 932
Bse3DI GCAATG 3 cut(s) 540, 1118, 1220
Bse8I GATNNNNATC 3 cut(s) 102, 156, 882
BseBI CCWGG 1 cut(s) 57
BseDI CCNNGG 5 cut(s) 55, 909, 974, 1007, 1093
BseGI GGATG 2 cut(s) 725, 730
BseJI GATNNNNATC 3 cut(s) 102, 156, 882
BseMI GCAATG 3 cut(s) 540, 1118, 1220
BseMII CTCAG 1 cut(s) 522
BseNI ACTGG 4 cut(s) 205, 419, 853, 932
BseRI GAGGAG 1 cut(s) 821
BseXI GCAGC 6 cut(s) 433, 532, 562, 584, 701, 774
BseYI CCCAGC 1 cut(s) 515
Bsh1236I CGCG 1 cut(s) 374
BshFI GGCC 1 cut(s) 5
BsiHKAI GWGCWC 1 cut(s) 491
BsiSI CCGG 2 cut(s) 479, 1095
BsmAI GTCTC 1 cut(s) 393
BsmI GAATGC 1 cut(s) 937
BsnI GGCC 1 cut(s) 5
Bsp1286I GDGCHC 2 cut(s) 491, 830
Bsp1407I TGTACA 1 cut(s) 1017
Bsp143I GATC 5 cut(s) 97, 298, 668, 877, 1137
Bsp19I CCATGG 1 cut(s) 1007
BspACI CCGC 3 cut(s) 365, 374, 592
BspANI GGCC 1 cut(s) 5
BspCNI CTCAG 1 cut(s) 523
BspFNI CGCG 1 cut(s) 374
BspLI GGNNCC 2 cut(s) 1055, 1192
BspPI GGATC 3 cut(s) 105, 872, 1145
BsrDI GCAATG 3 cut(s) 540, 1118, 1220
BsrGI TGTACA 1 cut(s) 1017
BsrI ACTGG 4 cut(s) 205, 419, 853, 932
BssECI CCNNGG 5 cut(s) 55, 909, 974, 1007, 1093
BssMI GATC 5 cut(s) 97, 298, 668, 877, 1137
BssNAI GTATAC 1 cut(s) 858
BssT1I CCWWGG 3 cut(s) 909, 974, 1007
Bst1107I GTATAC 1 cut(s) 858
Bst2UI CCWGG 1 cut(s) 57
Bst4CI ACNGT 3 cut(s) 94, 110, 486
Bst6I CTCTTC 1 cut(s) 1113
BstAPI GCANNNNNTGC 1 cut(s) 941
BstAUI TGTACA 1 cut(s) 1017
BstBAI YACGTR 1 cut(s) 871
BstDEI CTNAG 2 cut(s) 531, 792
BstDSI CCRYGG 1 cut(s) 1007
BstF5I GGATG 2 cut(s) 725, 730
BstFNI CGCG 1 cut(s) 374
BstKTI GATC 5 cut(s) 100, 301, 671, 880, 1140
BstMAI GTCTC 1 cut(s) 393
BstMBI GATC 5 cut(s) 97, 298, 668, 877, 1137
BstMWI GCNNNNNNNGC 3 cut(s) 371, 698, 941
BstNI CCWGG 1 cut(s) 57
BstNSI RCATGY 1 cut(s) 572
BstSCI CCNGG 2 cut(s) 55, 1093
BstSFI CTRYAG 1 cut(s) 1147
BstUI CGCG 1 cut(s) 374
BstV1I GCAGC 6 cut(s) 433, 532, 562, 584, 701, 774
BstV2I GAAGAC 1 cut(s) 126
BstZ17I GTATAC 1 cut(s) 858
BsuI GTATCC 3 cut(s) 31, 762, 908
BsuRI GGCC 1 cut(s) 5
BtgI CCRYGG 1 cut(s) 1007
BtsCI GGATG 2 cut(s) 725, 730
BtsIMutI CAGTG 1 cut(s) 99
CaiI CAGNNNCTG 2 cut(s) 530, 578
Cfr13I GGNCC 3 cut(s) 23, 177, 971
Csp6I GTAC 5 cut(s) 198, 652, 1004, 1018, 1033
CviAII CATG 7 cut(s) 133, 174, 569, 713, 1008, 1049, 1084
CviQI GTAC 5 cut(s) 198, 652, 1004, 1018, 1033
DdeI CTNAG 2 cut(s) 531, 792
DpnI GATC 5 cut(s) 99, 300, 670, 879, 1139
DpnII GATC 5 cut(s) 97, 298, 668, 877, 1137
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 1113
EarI CTCTTC 1 cut(s) 1113
Eco130I CCWWGG 3 cut(s) 909, 974, 1007
Eco24I GRGCYC 1 cut(s) 830
Eco32I GATATC 1 cut(s) 130
Eco47I GGWCC 3 cut(s) 23, 177, 971
Eco57I CTGAAG 1 cut(s) 1190
EcoRI GAATTC 1 cut(s) 520
EcoRII CCWGG 1 cut(s) 55
EcoRV GATATC 1 cut(s) 130
EcoT14I CCWWGG 3 cut(s) 909, 974, 1007
EcoT38I GRGCYC 1 cut(s) 830
ErhI CCWWGG 3 cut(s) 909, 974, 1007
FaeI CATG 7 cut(s) 136, 177, 572, 716, 1011, 1052, 1087
FatI CATG 7 cut(s) 132, 173, 568, 712, 1007, 1048, 1083
FblI GTMKAC 1 cut(s) 857
Fnu4HI GCNGC 6 cut(s) 447, 546, 573, 576, 690, 788
FokI GGATG 2 cut(s) 717, 732
FriOI GRGCYC 1 cut(s) 830
Fsp4HI GCNGC 6 cut(s) 447, 546, 573, 576, 690, 788
FspBI CTAG 4 cut(s) 27, 308, 435, 975
GluI GCNGC 6 cut(s) 447, 546, 573, 576, 690, 788
GsaI CCCAGC 1 cut(s) 519
GsuI CTGGAG 1 cut(s) 1181
HaeIII GGCC 1 cut(s) 5
HapII CCGG 2 cut(s) 479, 1095
Hin1II CATG 7 cut(s) 136, 177, 572, 716, 1011, 1052, 1087
HincII GTYRAC 2 cut(s) 420, 1282
HindII GTYRAC 2 cut(s) 420, 1282
HindIII AAGCTT 1 cut(s) 495
HinfI GANTC 3 cut(s) 183, 405, 1105
HpaII CCGG 2 cut(s) 479, 1095
HphI GGTGA 4 cut(s) 98, 364, 832, 1279
Hpy166II GTNNAC 5 cut(s) 23, 420, 798, 858, 1282
Hpy188I TCNGA 4 cut(s) 585, 606, 756, 1075
Hpy188III TCNNGA 7 cut(s) 180, 388, 409, 525, 1160, 1297, 1330
Hpy8I GTNNAC 5 cut(s) 23, 420, 798, 858, 1282
HpyAV CCTTC 4 cut(s) 8, 349, 1168, 1330
HpyCH4III ACNGT 3 cut(s) 94, 110, 486
HpyCH4IV ACGT 2 cut(s) 870, 1031
HpyF10VI GCNNNNNNNGC 3 cut(s) 371, 698, 941
HpyF3I CTNAG 2 cut(s) 531, 792
HpySE526I ACGT 2 cut(s) 870, 1031
Hsp92II CATG 7 cut(s) 136, 177, 572, 716, 1011, 1052, 1087
Kzo9I GATC 5 cut(s) 97, 298, 668, 877, 1137
LmnI GCTCC 4 cut(s) 481, 494, 1162, 1190
Lsp1109I GCAGC 6 cut(s) 433, 532, 562, 584, 701, 774
LweI GCATC 3 cut(s) 142, 855, 1054
MaeI CTAG 4 cut(s) 27, 308, 435, 975
MaeII ACGT 2 cut(s) 870, 1031
MaeIII GTNAC 5 cut(s) 88, 110, 341, 564, 1250
MalI GATC 5 cut(s) 99, 300, 670, 879, 1139
MboI GATC 5 cut(s) 97, 298, 668, 877, 1137
MboII GAAGA 5 cut(s) 131, 178, 293, 1100, 1183
MfeI CAATTG 1 cut(s) 735
MhlI GDGCHC 2 cut(s) 491, 830
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 9 cut(s) 145, 211, 243, 283, 377, 505, 520, 735, 938
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 2 cut(s) 414, 1099
MmeI TCCRAC 1 cut(s) 697
MnlI CCTC 6 cut(s) 257, 669, 799, 802, 1180, 1304
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MseI TTAA 6 cut(s) 48, 242, 246, 258, 338, 813
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 2 cut(s) 515, 575
MspI CCGG 2 cut(s) 479, 1095
MspR9I CCNGG 2 cut(s) 57, 1095
MunI CAATTG 1 cut(s) 735
Mva1269I GAATGC 1 cut(s) 937
MvaI CCWGG 1 cut(s) 57
MvnI CGCG 1 cut(s) 374
MwoI GCNNNNNNNGC 3 cut(s) 371, 698, 941
NciI CCSGG 1 cut(s) 1095
NcoI CCATGG 1 cut(s) 1007
NdeII GATC 5 cut(s) 97, 298, 668, 877, 1137
NlaIII CATG 7 cut(s) 136, 177, 572, 716, 1011, 1052, 1087
NlaIV GGNNCC 2 cut(s) 1055, 1192
NmuCI GTSAC 2 cut(s) 341, 564
NspI RCATGY 1 cut(s) 572
PacI TTAATTAA 1 cut(s) 246
PctI GAATGC 1 cut(s) 937
PfeI GAWTC 1 cut(s) 183
PflFI GACNNNGTC 1 cut(s) 404
PkrI GCNGC 6 cut(s) 448, 547, 574, 577, 691, 789
PleI GAGTC 2 cut(s) 413, 1099
PpsI GAGTC 2 cut(s) 413, 1099
Ppu21I YACGTR 1 cut(s) 871
Psp6I CCWGG 1 cut(s) 55
PspFI CCCAGC 1 cut(s) 515
PspGI CCWGG 1 cut(s) 55
PspN4I GGNNCC 2 cut(s) 1055, 1192
PspPI GGNCC 3 cut(s) 23, 177, 971
PstNI CAGNNNCTG 2 cut(s) 530, 578
PsyI GACNNNGTC 1 cut(s) 404
PvuII CAGCTG 2 cut(s) 515, 575
RsaI GTAC 5 cut(s) 199, 653, 1005, 1019, 1034
RsaNI GTAC 5 cut(s) 198, 652, 1004, 1018, 1033
SaqAI TTAA 6 cut(s) 48, 242, 246, 258, 338, 813
SatI GCNGC 6 cut(s) 447, 546, 573, 576, 690, 788
Sau3AI GATC 5 cut(s) 97, 298, 668, 877, 1137
Sau96I GGNCC 3 cut(s) 23, 177, 971
SchI GAGTC 2 cut(s) 414, 1099
ScrFI CCNGG 2 cut(s) 57, 1095
SduI GDGCHC 2 cut(s) 491, 830
SfaNI GCATC 3 cut(s) 142, 855, 1054
SfcI CTRYAG 1 cut(s) 1147
SinI GGWCC 3 cut(s) 23, 177, 971
SmlI CTYRAG 2 cut(s) 314, 1295
SmoI CTYRAG 2 cut(s) 314, 1295
Sse9I AATT 9 cut(s) 145, 211, 243, 283, 377, 505, 520, 735, 938
SsiI CCGC 3 cut(s) 365, 374, 592
SspI AATATT 1 cut(s) 772
SspMI CTAG 4 cut(s) 27, 308, 435, 975
StyD4I CCNGG 2 cut(s) 55, 1093
StyI CCWWGG 3 cut(s) 909, 974, 1007
TaaI ACNGT 3 cut(s) 94, 110, 486
TaiI ACGT 2 cut(s) 873, 1034
TaqI TCGA 1 cut(s) 1227
TasI AATT 9 cut(s) 145, 211, 243, 283, 377, 505, 520, 735, 938
TatI WGTACW 1 cut(s) 1017
TfiI GAWTC 1 cut(s) 183
Tru1I TTAA 6 cut(s) 48, 242, 246, 258, 338, 813
Tru9I TTAA 6 cut(s) 48, 242, 246, 258, 338, 813
TscAI CASTG 1 cut(s) 99
TseFI GTSAC 2 cut(s) 341, 564
TseI GCWGC 6 cut(s) 446, 545, 572, 575, 689, 787
Tsp45I GTSAC 2 cut(s) 341, 564
TspDTI ATGAA 3 cut(s) 701, 715, 719
TspRI CASTG 1 cut(s) 99
Tth111I GACNNNGTC 1 cut(s) 404
VpaK11BI GGWCC 3 cut(s) 23, 177, 971
XapI RAATTY 5 cut(s) 145, 283, 377, 520, 938
XceI RCATGY 1 cut(s) 572
XmaJI CCTAGG 1 cut(s) 974
XmiI GTMKAC 1 cut(s) 857
XspI CTAG 4 cut(s) 27, 308, 435, 975
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.