Rw3G006680

synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0009298
Physical Location & Seq
Reverse (-)
6247354 .. 6248814
1461 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G006680.1

Sequence Viewer

Length: 1047 bp
ATGTCCTTCCCTCTTATTCTTCAACCCGCCAATGTCTTCTTCACCCCTAAAACCCTCACCAACTTCCCCAAAGCCTTGAGCTCAATTTCAATGTCAGACCCACCCGAATCCACAAAACCCACTTCCCAAAATGCCCTCCAAGTCACACAGAATTACCCTGTGCCCCTCTCCCCGCCTCTCCCACCCATCTCAAAGAACATAGAGCTGGCGAGAGCCATGTCCGCCTCTTCCAAATCCAGCCTCTTTGCTCTGTCGCGGGACGACGTCGTTTACGAGGACCAGTGGCTCATTGTTGTCAACAAGCCTCAGGGGATTTACTGTGAGACTGTGCTGGAATCGATCCCTAAGCTTCTCTTTGACTCGGCCGAGTCAGTTGCAGGGACTGAAGCTATAGTGCCAGAGCTCCATCTTGCAAACCGTCTTGATCGGGACACTAGTGGAGTAATGATAATAACCAAGTCACATAAAGTAGCTGCCAAACTTGTTAAGGCATTTACTGATCATAAAGTTTCCAAGACGTACATTGCACGCTGCATTGGCTCAGCTCCGAAATGGGAAAGAATCACTGTTAGATCGGGTCATGGTCGGTCAAAGTTTGGGGCCTGGAGGGTGTATGCTGCTTCAGATGTAGGCCGGACACTTCCAGGTGGATCAGTAGTCAGAGACATGGAAACATCATTTGAGGTAATATCAATAAATGGACAAGGGATCTTCAAAGAGCCATCTGAGTTTAGAACAGATGAAGATAATATTGTAGTTGTTGAAGAAAAATCTGTAGTAGATGGAGATGCAAAGAAGGATGAGATTCTGGTGAGAGCACGTCCTCGGAGTGGAAGGACGCACCAAATCCGCTTGCATTGCCAGTATCTTGGAATTTCGATAAGAGGGGATGTTAAGTATGAGGGTGTCTACGAGTGGAAAGGGACAACATATGAAGGCCATGAACTTCATGCAGAAAGCTTGTCTTTGGAGCACCCTATTACTGGTCTTCCTGTATTATTTCGAGCACCCCTACCATCTTGGGCCGGCCAGACGTTGCAGCCATAG

Protein Analysis

348

Amino Acids

38.44

Weight (kDa)

7.74

Isoelectric Point (pI)

41.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_2 PF00849 96 - 288 2.8e-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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 267
AccI GTMKAC 1 cut(s) 909
AccII CGCG 1 cut(s) 256
AciI CCGC 5 cut(s) 27, 173, 222, 256, 850
AclWI GGATC 3 cut(s) 334, 658, 716
AcoI YGGCCR 2 cut(s) 363, 1027
AcsI RAATTY 1 cut(s) 873
AcuI CTGAAG 2 cut(s) 405, 606
AcyI GRCGYC 1 cut(s) 264
AfaI GTAC 1 cut(s) 521
AfiI CCNNNNNNNGG 2 cut(s) 830, 983
AgsI TTSAA 4 cut(s) 23, 90, 715, 764
AhlI ACTAGT 1 cut(s) 434
AjiI CACGTC 1 cut(s) 821
AjnI CCWGG 2 cut(s) 602, 643
AjuI GAANNNNNNNTTGG 2 cut(s) 23, 55
AluBI AGCT 8 cut(s) 81, 205, 349, 389, 403, 473, 545, 960
AluI AGCT 8 cut(s) 81, 205, 349, 389, 403, 473, 545, 960
Alw21I GWGCWC 5 cut(s) 83, 405, 820, 975, 1009
Alw26I GTCTC 2 cut(s) 317, 657
AlwI GGATC 3 cut(s) 334, 658, 716
AlwNI CAGNNNCTG 1 cut(s) 383
AoxI GGCC 6 cut(s) 363, 600, 631, 937, 1023, 1027
ApeKI GCWGC 4 cut(s) 473, 531, 617, 1039
ApoI RAATTY 1 cut(s) 873
AspS9I GGNCC 3 cut(s) 277, 600, 1023
AsuHPI GGTGA 3 cut(s) 34, 49, 823
AvaII GGWCC 1 cut(s) 277
AxyI CCTNAGG 1 cut(s) 306
BaeGI GKGCMC 1 cut(s) 165
BanII GRGCYC 2 cut(s) 83, 405
BbsI GAAGAC 2 cut(s) 28, 980
Bbv12I GWGCWC 5 cut(s) 83, 405, 820, 975, 1009
BbvI GCAGC 3 cut(s) 460, 518, 604
BccI CCATC 5 cut(s) 194, 414, 730, 776, 1024
BcgI CGANNNNNNTGC 2 cut(s) 356, 390
BciT130I CCWGG 2 cut(s) 604, 645
BclI TGATCA 1 cut(s) 499
BcoDI GTCTC 2 cut(s) 317, 657
BcuI ACTAGT 1 cut(s) 434
BfaI CTAG 1 cut(s) 435
BfmI CTRYAG 2 cut(s) 390, 774
BisI GCNGC 4 cut(s) 474, 532, 618, 1040
BlpI GCTNAGC 1 cut(s) 541
BlsI GCNGC 4 cut(s) 475, 533, 619, 1041
Bme1390I CCNGG 2 cut(s) 604, 645
Bme18I GGWCC 1 cut(s) 277
BmgBI CACGTC 1 cut(s) 821
BmgT120I GGNCC 3 cut(s) 277, 600, 1023
BmiI GGNNCC 1 cut(s) 601
BmrFI CCNGG 2 cut(s) 604, 645
BmsI GCATC 1 cut(s) 778
BpiI GAAGAC 2 cut(s) 28, 980
BpmI CTGGAG 1 cut(s) 625
Bpu10I CCTNAGC 1 cut(s) 345
Bpu1102I GCTNAGC 1 cut(s) 541
BpuEI CTTGAG 1 cut(s) 97
Bsa29I ATCGAT 1 cut(s) 338
BsaHI GRCGYC 1 cut(s) 264
BsaJI CCNNGG 1 cut(s) 824
Bsc4I CCNNNNNNNGG 2 cut(s) 830, 983
Bse118I RCCGGY 1 cut(s) 1025
Bse1I ACTGG 3 cut(s) 280, 862, 988
Bse21I CCTNAGG 1 cut(s) 306
Bse3DI GCAATG 2 cut(s) 522, 856
BseBI CCWGG 2 cut(s) 604, 645
BseCI ATCGAT 1 cut(s) 338
BseDI CCNNGG 1 cut(s) 824
BseGI GGATG 2 cut(s) 805, 895
BseLI CCNNNNNNNGG 2 cut(s) 830, 983
BseMI GCAATG 2 cut(s) 522, 856
BseMII CTCAG 3 cut(s) 320, 555, 717
BseNI ACTGG 3 cut(s) 280, 862, 988
BseSI GKGCMC 1 cut(s) 165
BseX3I CGGCCG 1 cut(s) 363
BseXI GCAGC 3 cut(s) 460, 518, 604
Bsh1236I CGCG 1 cut(s) 256
Bsh1285I CGRYCG 1 cut(s) 366
BshFI GGCC 6 cut(s) 365, 602, 633, 939, 1025, 1029
BshVI ATCGAT 1 cut(s) 338
BsiEI CGRYCG 1 cut(s) 366
BsiHKAI GWGCWC 5 cut(s) 83, 405, 820, 975, 1009
BsiSI CCGG 2 cut(s) 634, 1026
BslFI GGGAC 4 cut(s) 272, 394, 443, 937
BslI CCNNNNNNNGG 2 cut(s) 830, 983
BsmAI GTCTC 2 cut(s) 317, 657
BsmFI GGGAC 4 cut(s) 272, 394, 443, 937
BsnI GGCC 6 cut(s) 365, 602, 633, 939, 1025, 1029
Bsp1286I GDGCHC 6 cut(s) 83, 165, 405, 820, 975, 1009
Bsp143I GATC 6 cut(s) 339, 424, 499, 572, 650, 708
Bsp1720I GCTNAGC 1 cut(s) 541
BspACI CCGC 5 cut(s) 27, 173, 222, 256, 850
BspANI GGCC 6 cut(s) 365, 602, 633, 939, 1025, 1029
BspCNI CTCAG 3 cut(s) 319, 554, 718
BspDI ATCGAT 1 cut(s) 338
BspFNI CGCG 1 cut(s) 256
BspLI GGNNCC 1 cut(s) 601
BspPI GGATC 3 cut(s) 334, 658, 716
BsrDI GCAATG 2 cut(s) 522, 856
BsrFI RCCGGY 1 cut(s) 1025
BsrI ACTGG 3 cut(s) 280, 862, 988
BssAI RCCGGY 1 cut(s) 1025
BssECI CCNNGG 1 cut(s) 824
BssMI GATC 6 cut(s) 339, 424, 499, 572, 650, 708
BssNI GRCGYC 1 cut(s) 264
Bst2UI CCWGG 2 cut(s) 604, 645
Bst4CI ACNGT 4 cut(s) 320, 328, 419, 568
Bst6I CTCTTC 1 cut(s) 232
BstACI GRCGYC 1 cut(s) 264
BstC8I GCNNGC 4 cut(s) 207, 529, 854, 1027
BstDEI CTNAG 4 cut(s) 306, 345, 541, 726
BstF5I GGATG 2 cut(s) 805, 895
BstFNI CGCG 1 cut(s) 256
BstKTI GATC 6 cut(s) 342, 427, 502, 575, 653, 711
BstMAI GTCTC 2 cut(s) 317, 657
BstMBI GATC 6 cut(s) 339, 424, 499, 572, 650, 708
BstMCI CGRYCG 1 cut(s) 366
BstMWI GCNNNNNNNGC 3 cut(s) 221, 537, 858
BstNI CCWGG 2 cut(s) 604, 645
BstSCI CCNGG 2 cut(s) 602, 643
BstSFI CTRYAG 2 cut(s) 390, 774
BstSLI GKGCMC 1 cut(s) 165
BstUI CGCG 1 cut(s) 256
BstV1I GCAGC 3 cut(s) 460, 518, 604
BstV2I GAAGAC 2 cut(s) 28, 980
BstX2I RGATCY 1 cut(s) 708
BstXI CCANNNNNNTGG 1 cut(s) 869
BstYI RGATCY 1 cut(s) 708
BstZI CGGCCG 1 cut(s) 363
Bsu15I ATCGAT 1 cut(s) 338
Bsu36I CCTNAGG 1 cut(s) 306
BsuRI GGCC 6 cut(s) 365, 602, 633, 939, 1025, 1029
BsuTUI ATCGAT 1 cut(s) 338
BtrI CACGTC 1 cut(s) 821
BtsCI GGATG 2 cut(s) 805, 895
BtsIMutI CAGTG 2 cut(s) 287, 564
Cac8I GCNNGC 4 cut(s) 207, 529, 854, 1027
CaiI CAGNNNCTG 1 cut(s) 383
Cfr10I RCCGGY 1 cut(s) 1025
Cfr13I GGNCC 3 cut(s) 277, 600, 1023
ClaI ATCGAT 1 cut(s) 338
CseI GACGC 1 cut(s) 847
Csp6I GTAC 1 cut(s) 520
CviAII CATG 5 cut(s) 217, 581, 667, 941, 950
CviQI GTAC 1 cut(s) 520
DdeI CTNAG 4 cut(s) 306, 345, 541, 726
DpnI GATC 6 cut(s) 341, 426, 501, 574, 652, 710
DpnII GATC 6 cut(s) 339, 424, 499, 572, 650, 708
EaeI YGGCCR 2 cut(s) 363, 1027
EagI CGGCCG 1 cut(s) 363
Eam1104I CTCTTC 1 cut(s) 232
EarI CTCTTC 1 cut(s) 232
EciI GGCGGA 1 cut(s) 211
Ecl136II GAGCTC 2 cut(s) 81, 403
EclXI CGGCCG 1 cut(s) 363
Eco24I GRGCYC 2 cut(s) 83, 405
Eco47I GGWCC 1 cut(s) 277
Eco52I CGGCCG 1 cut(s) 363
Eco53kI GAGCTC 2 cut(s) 81, 403
Eco57I CTGAAG 2 cut(s) 405, 606
Eco81I CCTNAGG 1 cut(s) 306
EcoICRI GAGCTC 2 cut(s) 81, 403
EcoO109I RGGNCCY 1 cut(s) 600
EcoRII CCWGG 2 cut(s) 602, 643
EcoT38I GRGCYC 2 cut(s) 83, 405
FaeI CATG 5 cut(s) 220, 584, 670, 944, 953
FalI AAGNNNNNCTT 4 cut(s) 338, 370, 949, 981
FaqI GGGAC 4 cut(s) 272, 394, 443, 937
FatI CATG 5 cut(s) 216, 580, 666, 940, 949
FauI CCCGC 3 cut(s) 34, 180, 249
FauNDI CATATG 1 cut(s) 931
FbaI TGATCA 1 cut(s) 499
FblI GTMKAC 1 cut(s) 909
Fnu4HI GCNGC 4 cut(s) 474, 532, 618, 1040
FokI GGATG 2 cut(s) 812, 902
FriOI GRGCYC 2 cut(s) 83, 405
FseI GGCCGGCC 1 cut(s) 1029
Fsp4HI GCNGC 4 cut(s) 474, 532, 618, 1040
FspBI CTAG 1 cut(s) 435
GluI GCNGC 4 cut(s) 474, 532, 618, 1040
GsuI CTGGAG 1 cut(s) 625
HaeIII GGCC 6 cut(s) 365, 602, 633, 939, 1025, 1029
HapII CCGG 2 cut(s) 634, 1026
HgaI GACGC 1 cut(s) 847
Hin1I GRCGYC 1 cut(s) 264
Hin1II CATG 5 cut(s) 220, 584, 670, 944, 953
HincII GTYRAC 1 cut(s) 298
HindII GTYRAC 1 cut(s) 298
HindIII AAGCTT 2 cut(s) 347, 958
HinfI GANTC 6 cut(s) 107, 335, 359, 368, 561, 805
HpaII CCGG 2 cut(s) 634, 1026
HphI GGTGA 3 cut(s) 34, 49, 823
Hpy166II GTNNAC 3 cut(s) 271, 298, 910
Hpy188I TCNGA 6 cut(s) 97, 549, 625, 662, 727, 828
Hpy188III TCNNGA 2 cut(s) 422, 428
Hpy8I GTNNAC 3 cut(s) 271, 298, 910
Hpy99I CGWCG 2 cut(s) 266, 269
HpyAV CCTTC 4 cut(s) 16, 790, 828, 929
HpyCH4III ACNGT 4 cut(s) 320, 328, 419, 568
HpyCH4IV ACGT 4 cut(s) 264, 518, 820, 1034
HpyCH4V TGCA 8 cut(s) 377, 413, 527, 534, 791, 856, 953, 1039
HpyF10VI GCNNNNNNNGC 3 cut(s) 221, 537, 858
HpyF3I CTNAG 4 cut(s) 306, 345, 541, 726
HpySE526I ACGT 4 cut(s) 264, 518, 820, 1034
Hsp92I GRCGYC 1 cut(s) 264
Hsp92II CATG 5 cut(s) 220, 584, 670, 944, 953
KroI GCCGGC 1 cut(s) 1025
KroNI GCCGGC 1 cut(s) 1027
Ksp22I TGATCA 1 cut(s) 499
Kzo9I GATC 6 cut(s) 339, 424, 499, 572, 650, 708
LmnI GCTCC 3 cut(s) 408, 550, 970
Lsp1109I GCAGC 3 cut(s) 460, 518, 604
LweI GCATC 1 cut(s) 778
MaeI CTAG 1 cut(s) 435
MaeII ACGT 4 cut(s) 264, 518, 820, 1034
MaeIII GTNAC 2 cut(s) 142, 459
MalI GATC 6 cut(s) 341, 426, 501, 574, 652, 710
MboI GATC 6 cut(s) 339, 424, 499, 572, 650, 708
MboII GAAGA 8 cut(s) 11, 28, 31, 219, 703, 755, 776, 980
MflI RGATCY 1 cut(s) 708
MhlI GDGCHC 6 cut(s) 83, 165, 405, 820, 975, 1009
MluCI AATT 3 cut(s) 84, 151, 873
MlyI GAGTC 2 cut(s) 353, 377
MroNI GCCGGC 1 cut(s) 1025
MseI TTAA 2 cut(s) 486, 894
MspI CCGG 2 cut(s) 634, 1026
MspR9I CCNGG 2 cut(s) 604, 645
MvaI CCWGG 2 cut(s) 604, 645
MvnI CGCG 1 cut(s) 256
MwoI GCNNNNNNNGC 3 cut(s) 221, 537, 858
NaeI GCCGGC 1 cut(s) 1027
NdeI CATATG 1 cut(s) 931
NdeII GATC 6 cut(s) 339, 424, 499, 572, 650, 708
NgoMIV GCCGGC 1 cut(s) 1025
NlaIII CATG 5 cut(s) 220, 584, 670, 944, 953
NlaIV GGNNCC 1 cut(s) 601
NmeAIII GCCGAG 2 cut(s) 341, 391
NmuCI GTSAC 2 cut(s) 142, 459
PcsI WCGNNNNNNNCGW 1 cut(s) 270
PdiI GCCGGC 1 cut(s) 1027
PfeI GAWTC 4 cut(s) 107, 335, 561, 805
PflFI GACNNNGTC 1 cut(s) 263
PkrI GCNGC 4 cut(s) 475, 533, 619, 1041
PleI GAGTC 2 cut(s) 353, 376
PpsI GAGTC 2 cut(s) 353, 376
Psp124BI GAGCTC 2 cut(s) 83, 405
Psp6I CCWGG 2 cut(s) 602, 643
PspGI CCWGG 2 cut(s) 602, 643
PspN4I GGNNCC 1 cut(s) 601
PspPI GGNCC 3 cut(s) 277, 600, 1023
PstNI CAGNNNCTG 1 cut(s) 383
PsuI RGATCY 1 cut(s) 708
PsyI GACNNNGTC 1 cut(s) 263
RigI GGCCGGCC 1 cut(s) 1029
RsaI GTAC 1 cut(s) 521
RsaNI GTAC 1 cut(s) 520
SacI GAGCTC 2 cut(s) 83, 405
SaqAI TTAA 2 cut(s) 486, 894
SatI GCNGC 4 cut(s) 474, 532, 618, 1040
Sau3AI GATC 6 cut(s) 339, 424, 499, 572, 650, 708
Sau96I GGNCC 3 cut(s) 277, 600, 1023
SchI GAGTC 2 cut(s) 353, 377
ScrFI CCNGG 2 cut(s) 604, 645
SduI GDGCHC 6 cut(s) 83, 165, 405, 820, 975, 1009
SfaNI GCATC 1 cut(s) 778
SfcI CTRYAG 2 cut(s) 390, 774
SinI GGWCC 1 cut(s) 277
SmlI CTYRAG 1 cut(s) 76
SmoI CTYRAG 1 cut(s) 76
SpeI ACTAGT 1 cut(s) 434
Sse9I AATT 3 cut(s) 84, 151, 873
SsiI CCGC 5 cut(s) 27, 173, 222, 256, 850
SspI AATATT 1 cut(s) 751
SspMI CTAG 1 cut(s) 435
SstI GAGCTC 2 cut(s) 83, 405
StyD4I CCNGG 2 cut(s) 602, 643
TaaI ACNGT 4 cut(s) 320, 328, 419, 568
TaiI ACGT 4 cut(s) 267, 521, 823, 1037
TaqI TCGA 3 cut(s) 338, 878, 1003
TaqII GACCGA 1 cut(s) 576
TasI AATT 3 cut(s) 84, 151, 873
TfiI GAWTC 4 cut(s) 107, 335, 561, 805
Tru1I TTAA 2 cut(s) 486, 894
Tru9I TTAA 2 cut(s) 486, 894
TscAI CASTG 2 cut(s) 287, 571
TseFI GTSAC 2 cut(s) 142, 459
TseI GCWGC 4 cut(s) 473, 531, 617, 1039
Tsp45I GTSAC 2 cut(s) 142, 459
TspDTI ATGAA 4 cut(s) 756, 938, 948, 957
TspRI CASTG 2 cut(s) 287, 571
Tth111I GACNNNGTC 1 cut(s) 263
VpaK11BI GGWCC 1 cut(s) 277
XapI RAATTY 1 cut(s) 873
XmiI GTMKAC 1 cut(s) 909
XspI CTAG 1 cut(s) 435
ZraI GACGTC 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.