RchiOBHm_Chr6g0273621

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0003550
Physical Location & Seq
Reverse (-)
34489380 .. 34501141
11762 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1317 bp
ATGGACGTAACCACTGTCGTCGACTCCCTCCGGCATAGAGTTCAGGAATTAGAGGCATTAAATGCCAAGTTGTCATCTCAACTCGCAGTTTGTCACTGCCATCAGCAACAGGACAAGACTGAAGTCTCTTCTGTAAGTTCTGATAATTTAGTTGAGAAAAGCGGGAAATCGAGCTTTCAAAGTAAGAACACCACCAAGGAGAAACTTAAAGGGAAATTGCCAGGTTACGACACAAGGATCATGAATCACCACAGCAAGAGATATGTTGCTTTGAAAGTCATGTATTTTGGCCAAAGGTTCTATGGTTTTGCTGCTGAGGCACAGATGGATCCAACTATTGAGTCTGAAATTTTCAAAGCTCTTGAGAAGACAAGACTTTTGATCGGTGATAAGAAGGAATCACATTACTCAAGATGTGGTAGGACAGACAAGGGAGTTTCTGCTGTTGGGCAAGTGATTGCTCTCTATTTAAGATCAAACCTCAAGGAAGCATGTGAAATCAGTGAAGATCCTAGCAACCAAGAACAATATGAAGGTGAAATCGATTATGTGAGGGTGCTGAATCGAGTCCTTCCGGATGATATTCGAGTTTTTGGTTGGTATCCTGTACCATTGGGTTTCAGTGCGAGGTTTAGCTGTCTAAGCAGGGAGTATTATTATTTATTTTGGGGAGAAAATCTGAATTTCTTGGCTATGGAGACTGCTGGTAGGAAATTTGTTGGTGAACATGACTTCAGAAACTTCTGTAAGATGGATGCTCTTAATGTGCACAATTACAGGAGGAAAATCACTTCATTTGCAATGTCGCCTTGTGATGTGAGGTTTGAGGGGAACCAGCTTTGGGCATTTAAAATCAAAGGTAGTGCTTTCCTTTGGCATCAGGTCCGATGCATGGTTGCTGTACTACTCTTGATTGGCCAAGGTCATGAATCTCCTGATGTTATAGATGCATTACTGGATACTGACAGAATTCCGAGAAAACCTCAATATGGCATGGCGCCAGAGATTCCGTTGGTACTTCAATCCTGTGAATTTGAGGGTCTCAAGTTCATTTGCTCTTCAGATGCCAGACAAGCTTTGCGCATACACTTGGCTCATGAATGTCGAAACTATCATCTCCAAGCTGCAATTTTTAATGAGGCTCTACAATGCTGTTTTCCAGTAGAAAAAGGTGCTGAAGATCAGCGCTCCTTGGATAATGGAACGATGAAGAAGAAATCTTCCCATGTTCCACTCATGTCGCGCCCAACTGAGCCATCGTATGAAGAGAGACGTGCGAAATTAAACACAAGAGCGTGCAGACTGAAGAGTTTATGA

Protein Analysis

438

Amino Acids

50.14

Weight (kDa)

8.63

Isoelectric Point (pI)

48.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_1 PF01416 237 - 346 5.8e-30 tRNA pseudouridine synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 1082
AccB1I GGYRCC 1 cut(s) 997
AccI GTMKAC 1 cut(s) 21
AccII CGCG 1 cut(s) 1243
AccIII TCCGGA 1 cut(s) 574
AciI CCGC 1 cut(s) 162
AclWI GGATC 4 cut(s) 245, 323, 336, 503
AcoI YGGCCR 2 cut(s) 289, 916
AcsI RAATTY 5 cut(s) 348, 682, 713, 969, 1031
AcuI CTGAAG 4 cut(s) 141, 718, 1044, 1197
AcyI GRCGYC 1 cut(s) 998
AfaI GTAC 3 cut(s) 609, 903, 1017
AfeI AGCGCT 1 cut(s) 1187
AfiI CCNNNNNNNGG 3 cut(s) 841, 892, 989
AgsI TTSAA 4 cut(s) 179, 274, 355, 1022
AjiI CACGTC 1 cut(s) 1274
AjnI CCWGG 1 cut(s) 220
AluBI AGCT 6 cut(s) 174, 359, 636, 838, 1076, 1124
AluI AGCT 6 cut(s) 174, 359, 636, 838, 1076, 1124
Alw21I GWGCWC 1 cut(s) 771
Alw26I GTCTC 4 cut(s) 130, 692, 1046, 1264
Alw44I GTGCAC 1 cut(s) 767
AlwI GGATC 4 cut(s) 245, 323, 336, 503
Aor13HI TCCGGA 1 cut(s) 574
Aor51HI AGCGCT 1 cut(s) 1187
AoxI GGCC 2 cut(s) 289, 916
ApaLI GTGCAC 1 cut(s) 767
ApeKI GCWGC 2 cut(s) 311, 1124
ApoI RAATTY 5 cut(s) 348, 682, 713, 969, 1031
ArsI GACNNNNNNTTYG 2 cut(s) 361, 393
AspLEI GCGC 4 cut(s) 1000, 1083, 1188, 1245
AspS9I GGNCC 1 cut(s) 883
AsuHPI GGTGA 4 cut(s) 239, 398, 548, 734
AvaII GGWCC 1 cut(s) 883
BaeGI GKGCMC 1 cut(s) 771
BalI TGGCCA 2 cut(s) 291, 918
BamHI GGATCC 1 cut(s) 328
BanI GGYRCC 1 cut(s) 997
BbsI GAAGAC 1 cut(s) 374
Bbv12I GWGCWC 1 cut(s) 771
BbvCI CCTCAGC 1 cut(s) 315
BbvI GCAGC 2 cut(s) 298, 1111
BccI CCATC 4 cut(s) 108, 319, 745, 1264
BciT130I CCWGG 1 cut(s) 222
BciVI GTATCC 2 cut(s) 612, 952
BcoDI GTCTC 4 cut(s) 130, 692, 1046, 1264
BfaI CTAG 1 cut(s) 513
BfoI RGCGCY 2 cut(s) 1001, 1189
BfuI GTATCC 2 cut(s) 612, 952
BisI GCNGC 2 cut(s) 312, 1125
BlsI GCNGC 2 cut(s) 313, 1126
Bme1390I CCNGG 1 cut(s) 222
Bme18I GGWCC 1 cut(s) 883
BmgBI CACGTC 1 cut(s) 1274
BmgT120I GGNCC 1 cut(s) 883
BmiI GGNNCC 3 cut(s) 330, 833, 999
BmrFI CCNGG 1 cut(s) 222
BmsI GCATC 5 cut(s) 745, 878, 886, 937, 1054
BoxI GACNNNNGTC 1 cut(s) 122
BpiI GAAGAC 1 cut(s) 374
BplI GAGNNNNNCTC 2 cut(s) 967, 999
Bpu10I CCTNAGC 1 cut(s) 315
BpuEI CTTGAG 4 cut(s) 383, 394, 467, 1028
Bsa29I ATCGAT 1 cut(s) 543
BsaHI GRCGYC 1 cut(s) 998
BsaI GGTCTC 1 cut(s) 1046
BsaJI CCNNGG 3 cut(s) 195, 919, 1191
BsaWI WCCGGW 1 cut(s) 574
Bsc4I CCNNNNNNNGG 3 cut(s) 841, 892, 989
Bse1I ACTGG 2 cut(s) 960, 1160
Bse3DI GCAATG 1 cut(s) 807
BseAI TCCGGA 1 cut(s) 574
BseBI CCWGG 1 cut(s) 222
BseCI ATCGAT 1 cut(s) 543
BseDI CCNNGG 3 cut(s) 195, 919, 1191
BseGI GGATG 2 cut(s) 583, 760
BseLI CCNNNNNNNGG 3 cut(s) 841, 892, 989
BseMI GCAATG 1 cut(s) 807
BseMII CTCAG 2 cut(s) 306, 1242
BseNI ACTGG 2 cut(s) 960, 1160
BseSI GKGCMC 1 cut(s) 771
BseXI GCAGC 2 cut(s) 298, 1111
Bsh1236I CGCG 1 cut(s) 1243
BshFI GGCC 2 cut(s) 291, 918
BshNI GGYRCC 1 cut(s) 997
BshVI ATCGAT 1 cut(s) 543
BsiHKAI GWGCWC 1 cut(s) 771
BsiSI CCGG 2 cut(s) 31, 575
BslI CCNNNNNNNGG 3 cut(s) 841, 892, 989
BsmAI GTCTC 4 cut(s) 130, 692, 1046, 1264
BsmBI CGTCTC 1 cut(s) 1264
BsnI GGCC 2 cut(s) 291, 918
Bso31I GGTCTC 1 cut(s) 1046
Bsp1286I GDGCHC 1 cut(s) 771
Bsp13I TCCGGA 1 cut(s) 574
Bsp143I GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
BspACI CCGC 1 cut(s) 162
BspANI GGCC 2 cut(s) 291, 918
BspCNI CTCAG 2 cut(s) 307, 1243
BspDI ATCGAT 1 cut(s) 543
BspEI TCCGGA 1 cut(s) 574
BspFNI CGCG 1 cut(s) 1243
BspHI TCATGA 3 cut(s) 240, 925, 1096
BspLI GGNNCC 3 cut(s) 330, 833, 999
BspPI GGATC 4 cut(s) 245, 323, 336, 503
BspQI GCTCTTC 1 cut(s) 1063
BspT107I GGYRCC 1 cut(s) 997
BspTNI GGTCTC 1 cut(s) 1046
BsrDI GCAATG 1 cut(s) 807
BsrI ACTGG 2 cut(s) 960, 1160
BssECI CCNNGG 3 cut(s) 195, 919, 1191
BssMI GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
BssNI GRCGYC 1 cut(s) 998
BssT1I CCWWGG 3 cut(s) 195, 919, 1191
Bst2UI CCWGG 1 cut(s) 222
Bst4CI ACNGT 1 cut(s) 16
Bst6I CTCTTC 4 cut(s) 133, 1063, 1260, 1301
BstACI GRCGYC 1 cut(s) 998
BstAPI GCANNNNNTGC 1 cut(s) 62
BstC8I GCNNGC 1 cut(s) 1297
BstDEI CTNAG 3 cut(s) 315, 641, 1251
BstF5I GGATG 2 cut(s) 583, 760
BstFNI CGCG 1 cut(s) 1243
BstH2I RGCGCY 2 cut(s) 1001, 1189
BstHHI GCGC 4 cut(s) 1000, 1083, 1188, 1245
BstKTI GATC 6 cut(s) 240, 331, 384, 476, 511, 1183
BstMAI GTCTC 4 cut(s) 130, 692, 1046, 1264
BstMBI GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
BstMWI GCNNNNNNNGC 4 cut(s) 62, 317, 642, 1073
BstNI CCWGG 1 cut(s) 222
BstNSI RCATGY 1 cut(s) 495
BstPAI GACNNNNGTC 1 cut(s) 122
BstSCI CCNGG 1 cut(s) 220
BstSLI GKGCMC 1 cut(s) 771
BstUI CGCG 1 cut(s) 1243
BstV1I GCAGC 2 cut(s) 298, 1111
BstV2I GAAGAC 1 cut(s) 374
BstX2I RGATCY 2 cut(s) 328, 508
BstYI RGATCY 2 cut(s) 328, 508
Bsu15I ATCGAT 1 cut(s) 543
BsuI GTATCC 2 cut(s) 612, 952
BsuRI GGCC 2 cut(s) 291, 918
BsuTUI ATCGAT 1 cut(s) 543
BtrI CACGTC 1 cut(s) 1274
BtsCI GGATG 2 cut(s) 583, 760
BtsI GCAGTG 1 cut(s) 94
BtsIMutI CAGTG 4 cut(s) 12, 94, 508, 628
Cac8I GCNNGC 1 cut(s) 1297
CciI TCATGA 3 cut(s) 240, 925, 1096
CfoI GCGC 4 cut(s) 1000, 1083, 1188, 1245
Cfr13I GGNCC 1 cut(s) 883
ClaI ATCGAT 1 cut(s) 543
Csp6I GTAC 3 cut(s) 608, 902, 1016
CviQI GTAC 3 cut(s) 608, 902, 1016
DdeI CTNAG 3 cut(s) 315, 641, 1251
DinI GGCGCC 1 cut(s) 999
DpnI GATC 6 cut(s) 239, 330, 383, 475, 510, 1182
DpnII GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
DraI TTTAAA 1 cut(s) 850
EaeI YGGCCR 2 cut(s) 289, 916
Eam1104I CTCTTC 4 cut(s) 133, 1063, 1260, 1301
EarI CTCTTC 4 cut(s) 133, 1063, 1260, 1301
Eco130I CCWWGG 3 cut(s) 195, 919, 1191
Eco31I GGTCTC 1 cut(s) 1046
Eco47I GGWCC 1 cut(s) 883
Eco47III AGCGCT 1 cut(s) 1187
Eco57I CTGAAG 4 cut(s) 141, 718, 1044, 1197
EcoRI GAATTC 1 cut(s) 969
EcoRII CCWGG 1 cut(s) 220
EcoT14I CCWWGG 3 cut(s) 195, 919, 1191
EcoT22I ATGCAT 2 cut(s) 893, 952
EgeI GGCGCC 1 cut(s) 999
EheI GGCGCC 1 cut(s) 999
ErhI CCWWGG 3 cut(s) 195, 919, 1191
Esp3I CGTCTC 1 cut(s) 1264
FauI CCCGC 1 cut(s) 155
FblI GTMKAC 1 cut(s) 21
Fnu4HI GCNGC 2 cut(s) 312, 1125
FokI GGATG 2 cut(s) 590, 767
Fsp4HI GCNGC 2 cut(s) 312, 1125
FspBI CTAG 1 cut(s) 513
FspI TGCGCA 1 cut(s) 1082
GlaI GCGC 4 cut(s) 999, 1082, 1187, 1244
GluI GCNGC 2 cut(s) 312, 1125
HaeII RGCGCY 2 cut(s) 1001, 1189
HaeIII GGCC 2 cut(s) 291, 918
HapII CCGG 2 cut(s) 31, 575
HhaI GCGC 4 cut(s) 1000, 1083, 1188, 1245
Hin1I GRCGYC 1 cut(s) 998
Hin6I GCGC 4 cut(s) 998, 1081, 1186, 1243
HinP1I GCGC 4 cut(s) 998, 1081, 1186, 1243
HincII GTYRAC 1 cut(s) 22
HindII GTYRAC 1 cut(s) 22
HindIII AAGCTT 1 cut(s) 1074
HinfI GANTC 8 cut(s) 23, 244, 341, 398, 562, 567, 929, 1006
HpaII CCGG 2 cut(s) 31, 575
HphI GGTGA 4 cut(s) 239, 398, 548, 734
Hpy166II GTNNAC 3 cut(s) 22, 725, 769
Hpy188I TCNGA 7 cut(s) 142, 346, 681, 737, 887, 975, 1063
Hpy188III TCNNGA 9 cut(s) 44, 241, 362, 411, 575, 910, 926, 935, 1097
Hpy8I GTNNAC 3 cut(s) 22, 725, 769
Hpy99I CGWCG 1 cut(s) 23
HpyAV CCTTC 3 cut(s) 388, 527, 581
HpyCH4III ACNGT 1 cut(s) 16
HpyCH4IV ACGT 2 cut(s) 6, 1273
HpyCH4V TGCA 6 cut(s) 769, 800, 891, 950, 1127, 1299
HpyF10VI GCNNNNNNNGC 4 cut(s) 62, 317, 642, 1073
HpyF3I CTNAG 3 cut(s) 315, 641, 1251
HpySE526I ACGT 2 cut(s) 6, 1273
Hsp92I GRCGYC 1 cut(s) 998
HspAI GCGC 4 cut(s) 998, 1081, 1186, 1243
KasI GGCGCC 1 cut(s) 997
Kpn2I TCCGGA 1 cut(s) 574
Kzo9I GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
LguI GCTCTTC 1 cut(s) 1063
LmnI GCTCC 1 cut(s) 1193
Lsp1109I GCAGC 2 cut(s) 298, 1111
LweI GCATC 5 cut(s) 745, 878, 886, 937, 1054
MaeI CTAG 1 cut(s) 513
MaeII ACGT 2 cut(s) 6, 1273
MaeIII GTNAC 3 cut(s) 7, 92, 224
MalI GATC 6 cut(s) 239, 330, 383, 475, 510, 1182
MboI GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
MboII GAAGA 9 cut(s) 120, 379, 518, 1050, 1190, 1212, 1222, 1225, 1277
MflI RGATCY 2 cut(s) 328, 508
MhlI GDGCHC 1 cut(s) 771
MlsI TGGCCA 2 cut(s) 291, 918
MluNI TGGCCA 2 cut(s) 291, 918
Mly113I GGCGCC 1 cut(s) 998
MlyI GAGTC 3 cut(s) 17, 350, 576
MmeI TCCRAC 1 cut(s) 356
Mox20I TGGCCA 2 cut(s) 291, 918
Mph1103I ATGCAT 2 cut(s) 893, 952
MroI TCCGGA 1 cut(s) 574
MscI TGGCCA 2 cut(s) 291, 918
MseI TTAA 7 cut(s) 59, 207, 470, 762, 849, 1134, 1283
Msp20I TGGCCA 2 cut(s) 291, 918
MspI CCGG 2 cut(s) 31, 575
MspR9I CCNGG 1 cut(s) 222
MvaI CCWGG 1 cut(s) 222
MvnI CGCG 1 cut(s) 1243
MwoI GCNNNNNNNGC 4 cut(s) 62, 317, 642, 1073
NarI GGCGCC 1 cut(s) 998
NdeII GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
NlaIV GGNNCC 3 cut(s) 330, 833, 999
NmuCI GTSAC 1 cut(s) 92
NsbI TGCGCA 1 cut(s) 1082
NsiI ATGCAT 2 cut(s) 893, 952
NspI RCATGY 1 cut(s) 495
PagI TCATGA 3 cut(s) 240, 925, 1096
PciSI GCTCTTC 1 cut(s) 1063
PfeI GAWTC 5 cut(s) 244, 398, 562, 929, 1006
PkrI GCNGC 2 cut(s) 313, 1126
PleI GAGTC 3 cut(s) 17, 349, 575
PluTI GGCGCC 1 cut(s) 1001
PpsI GAGTC 3 cut(s) 17, 349, 575
PshAI GACNNNNGTC 1 cut(s) 122
Psp6I CCWGG 1 cut(s) 220
PspGI CCWGG 1 cut(s) 220
PspN4I GGNNCC 3 cut(s) 330, 833, 999
PspPI GGNCC 1 cut(s) 883
PsuI RGATCY 2 cut(s) 328, 508
RsaI GTAC 3 cut(s) 609, 903, 1017
RsaNI GTAC 3 cut(s) 608, 902, 1016
SalI GTCGAC 1 cut(s) 20
SapI GCTCTTC 1 cut(s) 1063
SaqAI TTAA 7 cut(s) 59, 207, 470, 762, 849, 1134, 1283
SatI GCNGC 2 cut(s) 312, 1125
Sau3AI GATC 6 cut(s) 237, 328, 381, 473, 508, 1180
Sau96I GGNCC 1 cut(s) 883
SchI GAGTC 3 cut(s) 17, 350, 576
ScrFI CCNGG 1 cut(s) 222
SduI GDGCHC 1 cut(s) 771
SfaNI GCATC 5 cut(s) 745, 878, 886, 937, 1054
SfoI GGCGCC 1 cut(s) 999
SinI GGWCC 1 cut(s) 883
SmlI CTYRAG 4 cut(s) 362, 409, 482, 1043
SmoI CTYRAG 4 cut(s) 362, 409, 482, 1043
SsiI CCGC 1 cut(s) 162
SspDI GGCGCC 1 cut(s) 997
SspMI CTAG 1 cut(s) 513
StyD4I CCNGG 1 cut(s) 220
StyI CCWWGG 3 cut(s) 195, 919, 1191
TaaI ACNGT 1 cut(s) 16
TaiI ACGT 2 cut(s) 9, 1276
TaqI TCGA 6 cut(s) 21, 170, 543, 565, 586, 1105
TatI WGTACW 1 cut(s) 901
TfiI GAWTC 5 cut(s) 244, 398, 562, 929, 1006
Tru1I TTAA 7 cut(s) 59, 207, 470, 762, 849, 1134, 1283
Tru9I TTAA 7 cut(s) 59, 207, 470, 762, 849, 1134, 1283
TscAI CASTG 4 cut(s) 19, 101, 508, 628
TseFI GTSAC 1 cut(s) 92
TseI GCWGC 2 cut(s) 311, 1124
Tsp45I GTSAC 1 cut(s) 92
TspDTI ATGAA 8 cut(s) 257, 546, 783, 942, 1039, 1113, 1223, 1278
TspGWI ACGGA 1 cut(s) 999
TspRI CASTG 4 cut(s) 19, 101, 508, 628
VneI GTGCAC 1 cut(s) 767
VpaK11BI GGWCC 1 cut(s) 883
XapI RAATTY 5 cut(s) 348, 682, 713, 969, 1031
XceI RCATGY 1 cut(s) 495
XcmI CCANNNNNNNNNTGG 1 cut(s) 299
XmiI GTMKAC 1 cut(s) 21
XspI CTAG 1 cut(s) 513
Zsp2I ATGCAT 2 cut(s) 893, 952
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.