Rroxscaffold_6G00422300

synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0009298
Physical Location & Seq
Forward (+)
43248068 .. 43250168
2101 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00422300.1

Sequence Viewer

Length: 957 bp
ATGTCAGACCAACCAGAATCCACAAAACCCACTTCCCAAAATGCCCTCCAAGCCACACAGAATTACCCTGTGCCCCTCTCCCCGCCTCTCCCACCCATCTCAAAGAATATAGAGCTGGCGAGAGCCATGTCCGCCTCTTCCAAATCCAGCCTCTTTTCTCTGTCGCGGGACGACGTCGTTTACGAGGACCAGTGGCTCATTGTTGTCAACAAGCCTCAGGGGATTTACTGTGAGAATGTGCTGGAATCGGTCCCTAAGCTTCTCTTTGACTCGGCCGAGTCAGTTGCAGGGACTGAAGCTAAAGTGCCAGAGCTCCATCTTGCAAACCGTCTTGATCGTGACACTAGTGGAGTAATGATAATAACCAAGTCACATAAAGTAGCTGCCAAACTTGTTAAGGCATTCACTGATCATAAAGTTTCCAAAACGTACATTGCACGCTGCATTGGTTCAGTTCCGAAATGGGAAAGAATCACTGTTAGATCAGGTCATGGTCGGTCAAAGTTTGGGGCCTGGAGGGTGTATGCTGCTTCAGATGTAGGCCGGACACTTCCAGGTGGATCAGTAGTCAGAGACATGGAAACATCATTTGAAGTAATATCAATAAATGGACAAGGGATCTTCAAAGAGCCATCTGAGTTTAGAACAGATGAAGATAATATTGTAGTAGTTGAAGAAAAATCTGTAGTAGATGGAGATGCAAAGAAGGATGAGATTCTGATGAGAGCACGTCCTCGGAGTGGAAGAACGCACCAAATCCGCTTGCATTGCCAGTATCTTGGAATTTCGATAAGAGGGGATGTTAAGTATGAGGGTGTCTACGAGTGGAAAGGGACAACATATGAAGGCCATGAACTTCATGCAGAAAGCTTGTCTTTGGAGCACCCTATTACTGGTCTTCCTGTATTATTTCAAGCACCCCTACCATATTGGGCCAGCCAGGCGATGCAGCCATAG

Protein Analysis

318

Amino Acids

35.3

Weight (kDa)

6.77

Isoelectric Point (pI)

38.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_2 PF00849 66 - 258 1.3e-22 RNA pseudouridylate 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)
AatII GACGTC 1 cut(s) 177
AccI GTMKAC 1 cut(s) 819
AccII CGCG 1 cut(s) 166
AciI CCGC 4 cut(s) 83, 132, 166, 760
AclWI GGATC 2 cut(s) 568, 626
AcoI YGGCCR 1 cut(s) 273
AcsI RAATTY 1 cut(s) 783
AcuI CTGAAG 2 cut(s) 315, 516
AcyI GRCGYC 1 cut(s) 174
AfaI GTAC 1 cut(s) 431
AfiI CCNNNNNNNGG 2 cut(s) 740, 893
AgsI TTSAA 4 cut(s) 593, 625, 674, 914
AhlI ACTAGT 1 cut(s) 344
AjiI CACGTC 1 cut(s) 731
AjnI CCWGG 3 cut(s) 512, 553, 939
AluBI AGCT 6 cut(s) 115, 259, 299, 313, 383, 870
AluI AGCT 6 cut(s) 115, 259, 299, 313, 383, 870
Alw21I GWGCWC 3 cut(s) 315, 730, 885
Alw26I GTCTC 1 cut(s) 567
AlwI GGATC 2 cut(s) 568, 626
AlwNI CAGNNNCTG 1 cut(s) 293
AoxI GGCC 5 cut(s) 273, 510, 541, 847, 933
ApeKI GCWGC 4 cut(s) 383, 441, 527, 949
ApoI RAATTY 1 cut(s) 783
AspS9I GGNCC 4 cut(s) 187, 250, 510, 933
AvaII GGWCC 2 cut(s) 187, 250
AxyI CCTNAGG 1 cut(s) 216
BaeGI GKGCMC 1 cut(s) 75
BanII GRGCYC 1 cut(s) 315
BbsI GAAGAC 1 cut(s) 890
Bbv12I GWGCWC 3 cut(s) 315, 730, 885
BbvI GCAGC 3 cut(s) 370, 428, 514
BccI CCATC 4 cut(s) 104, 324, 640, 686
BcgI CGANNNNNNTGC 2 cut(s) 266, 300
BciT130I CCWGG 3 cut(s) 514, 555, 941
BclI TGATCA 1 cut(s) 409
BcoDI GTCTC 1 cut(s) 567
BcuI ACTAGT 1 cut(s) 344
BfaI CTAG 1 cut(s) 345
BfmI CTRYAG 1 cut(s) 684
BglI GCCNNNNNGGC 1 cut(s) 941
BisI GCNGC 4 cut(s) 384, 442, 528, 950
BlsI GCNGC 4 cut(s) 385, 443, 529, 951
Bme1390I CCNGG 3 cut(s) 514, 555, 941
Bme18I GGWCC 2 cut(s) 187, 250
BmgBI CACGTC 1 cut(s) 731
BmgT120I GGNCC 4 cut(s) 187, 250, 510, 933
BmiI GGNNCC 2 cut(s) 252, 511
BmrFI CCNGG 3 cut(s) 514, 555, 941
BmsI GCATC 2 cut(s) 688, 936
BpiI GAAGAC 1 cut(s) 890
BpmI CTGGAG 1 cut(s) 535
Bpu10I CCTNAGC 1 cut(s) 255
BsaHI GRCGYC 1 cut(s) 174
BsaJI CCNNGG 1 cut(s) 734
Bsc4I CCNNNNNNNGG 2 cut(s) 740, 893
Bse1I ACTGG 3 cut(s) 190, 772, 898
Bse21I CCTNAGG 1 cut(s) 216
Bse3DI GCAATG 2 cut(s) 432, 766
BseBI CCWGG 3 cut(s) 514, 555, 941
BseDI CCNNGG 1 cut(s) 734
BseGI GGATG 2 cut(s) 715, 805
BseLI CCNNNNNNNGG 2 cut(s) 740, 893
BseMI GCAATG 2 cut(s) 432, 766
BseMII CTCAG 2 cut(s) 230, 627
BseNI ACTGG 3 cut(s) 190, 772, 898
BseSI GKGCMC 1 cut(s) 75
BseX3I CGGCCG 1 cut(s) 273
BseXI GCAGC 3 cut(s) 370, 428, 514
Bsh1236I CGCG 1 cut(s) 166
Bsh1285I CGRYCG 1 cut(s) 276
BshFI GGCC 5 cut(s) 275, 512, 543, 849, 935
BsiEI CGRYCG 1 cut(s) 276
BsiHKAI GWGCWC 3 cut(s) 315, 730, 885
BsiSI CCGG 1 cut(s) 544
BslFI GGGAC 4 cut(s) 182, 236, 304, 847
BslI CCNNNNNNNGG 2 cut(s) 740, 893
BsmAI GTCTC 1 cut(s) 567
BsmFI GGGAC 4 cut(s) 182, 236, 304, 847
BsmI GAATGC 1 cut(s) 401
BsnI GGCC 5 cut(s) 275, 512, 543, 849, 935
Bsp1286I GDGCHC 4 cut(s) 75, 315, 730, 885
Bsp143I GATC 5 cut(s) 334, 409, 482, 560, 618
BspACI CCGC 4 cut(s) 83, 132, 166, 760
BspANI GGCC 5 cut(s) 275, 512, 543, 849, 935
BspCNI CTCAG 2 cut(s) 229, 628
BspFNI CGCG 1 cut(s) 166
BspLI GGNNCC 2 cut(s) 252, 511
BspPI GGATC 2 cut(s) 568, 626
BsrDI GCAATG 2 cut(s) 432, 766
BsrI ACTGG 3 cut(s) 190, 772, 898
BssECI CCNNGG 1 cut(s) 734
BssMI GATC 5 cut(s) 334, 409, 482, 560, 618
BssNI GRCGYC 1 cut(s) 174
Bst2UI CCWGG 3 cut(s) 514, 555, 941
Bst4CI ACNGT 3 cut(s) 230, 329, 478
Bst6I CTCTTC 1 cut(s) 142
BstACI GRCGYC 1 cut(s) 174
BstC8I GCNNGC 4 cut(s) 117, 439, 764, 937
BstDEI CTNAG 3 cut(s) 216, 255, 636
BstF5I GGATG 2 cut(s) 715, 805
BstFNI CGCG 1 cut(s) 166
BstKTI GATC 5 cut(s) 337, 412, 485, 563, 621
BstMAI GTCTC 1 cut(s) 567
BstMBI GATC 5 cut(s) 334, 409, 482, 560, 618
BstMCI CGRYCG 1 cut(s) 276
BstMWI GCNNNNNNNGC 4 cut(s) 50, 131, 768, 941
BstNI CCWGG 3 cut(s) 514, 555, 941
BstSCI CCNGG 3 cut(s) 512, 553, 939
BstSFI CTRYAG 1 cut(s) 684
BstSLI GKGCMC 1 cut(s) 75
BstUI CGCG 1 cut(s) 166
BstV1I GCAGC 3 cut(s) 370, 428, 514
BstV2I GAAGAC 1 cut(s) 890
BstX2I RGATCY 1 cut(s) 618
BstXI CCANNNNNNTGG 1 cut(s) 779
BstYI RGATCY 1 cut(s) 618
BstZI CGGCCG 1 cut(s) 273
Bsu36I CCTNAGG 1 cut(s) 216
BsuRI GGCC 5 cut(s) 275, 512, 543, 849, 935
BtrI CACGTC 1 cut(s) 731
BtsCI GGATG 2 cut(s) 715, 805
BtsIMutI CAGTG 3 cut(s) 197, 405, 474
Cac8I GCNNGC 4 cut(s) 117, 439, 764, 937
CaiI CAGNNNCTG 1 cut(s) 293
Cfr13I GGNCC 4 cut(s) 187, 250, 510, 933
Csp6I GTAC 1 cut(s) 430
CviAII CATG 5 cut(s) 127, 491, 577, 851, 860
CviQI GTAC 1 cut(s) 430
DdeI CTNAG 3 cut(s) 216, 255, 636
DpnI GATC 5 cut(s) 336, 411, 484, 562, 620
DpnII GATC 5 cut(s) 334, 409, 482, 560, 618
EaeI YGGCCR 1 cut(s) 273
EagI CGGCCG 1 cut(s) 273
Eam1104I CTCTTC 1 cut(s) 142
EarI CTCTTC 1 cut(s) 142
EciI GGCGGA 1 cut(s) 121
Ecl136II GAGCTC 1 cut(s) 313
EclXI CGGCCG 1 cut(s) 273
Eco24I GRGCYC 1 cut(s) 315
Eco47I GGWCC 2 cut(s) 187, 250
Eco52I CGGCCG 1 cut(s) 273
Eco53kI GAGCTC 1 cut(s) 313
Eco57I CTGAAG 2 cut(s) 315, 516
Eco81I CCTNAGG 1 cut(s) 216
EcoICRI GAGCTC 1 cut(s) 313
EcoO109I RGGNCCY 1 cut(s) 510
EcoRII CCWGG 3 cut(s) 512, 553, 939
EcoT38I GRGCYC 1 cut(s) 315
FaeI CATG 5 cut(s) 130, 494, 580, 854, 863
FalI AAGNNNNNCTT 4 cut(s) 248, 280, 859, 891
FaqI GGGAC 4 cut(s) 182, 236, 304, 847
FatI CATG 5 cut(s) 126, 490, 576, 850, 859
FauI CCCGC 2 cut(s) 90, 159
FauNDI CATATG 1 cut(s) 841
FbaI TGATCA 1 cut(s) 409
FblI GTMKAC 1 cut(s) 819
Fnu4HI GCNGC 4 cut(s) 384, 442, 528, 950
FokI GGATG 2 cut(s) 722, 812
FriOI GRGCYC 1 cut(s) 315
Fsp4HI GCNGC 4 cut(s) 384, 442, 528, 950
FspBI CTAG 1 cut(s) 345
GluI GCNGC 4 cut(s) 384, 442, 528, 950
GsuI CTGGAG 1 cut(s) 535
HaeIII GGCC 5 cut(s) 275, 512, 543, 849, 935
HapII CCGG 1 cut(s) 544
Hin1I GRCGYC 1 cut(s) 174
Hin1II CATG 5 cut(s) 130, 494, 580, 854, 863
HincII GTYRAC 1 cut(s) 208
HindII GTYRAC 1 cut(s) 208
HindIII AAGCTT 2 cut(s) 257, 868
HinfI GANTC 6 cut(s) 17, 245, 269, 278, 471, 715
HpaII CCGG 1 cut(s) 544
Hpy166II GTNNAC 3 cut(s) 181, 208, 820
Hpy188I TCNGA 7 cut(s) 7, 459, 535, 572, 637, 720, 738
Hpy188III TCNNGA 2 cut(s) 332, 338
Hpy8I GTNNAC 3 cut(s) 181, 208, 820
Hpy99I CGWCG 2 cut(s) 176, 179
HpyAV CCTTC 2 cut(s) 700, 839
HpyCH4III ACNGT 3 cut(s) 230, 329, 478
HpyCH4IV ACGT 3 cut(s) 174, 428, 730
HpyCH4V TGCA 8 cut(s) 287, 323, 437, 444, 701, 766, 863, 949
HpyF10VI GCNNNNNNNGC 4 cut(s) 50, 131, 768, 941
HpyF3I CTNAG 3 cut(s) 216, 255, 636
HpySE526I ACGT 3 cut(s) 174, 428, 730
Hsp92I GRCGYC 1 cut(s) 174
Hsp92II CATG 5 cut(s) 130, 494, 580, 854, 863
Ksp22I TGATCA 1 cut(s) 409
Kzo9I GATC 5 cut(s) 334, 409, 482, 560, 618
LmnI GCTCC 2 cut(s) 318, 880
Lsp1109I GCAGC 3 cut(s) 370, 428, 514
LweI GCATC 2 cut(s) 688, 936
MaeI CTAG 1 cut(s) 345
MaeII ACGT 3 cut(s) 174, 428, 730
MaeIII GTNAC 2 cut(s) 338, 369
MalI GATC 5 cut(s) 336, 411, 484, 562, 620
MboI GATC 5 cut(s) 334, 409, 482, 560, 618
MboII GAAGA 6 cut(s) 129, 613, 665, 686, 756, 890
MflI RGATCY 1 cut(s) 618
MhlI GDGCHC 4 cut(s) 75, 315, 730, 885
MluCI AATT 2 cut(s) 61, 783
MlyI GAGTC 2 cut(s) 263, 287
MseI TTAA 2 cut(s) 396, 804
MspI CCGG 1 cut(s) 544
MspR9I CCNGG 3 cut(s) 514, 555, 941
Mva1269I GAATGC 1 cut(s) 401
MvaI CCWGG 3 cut(s) 514, 555, 941
MvnI CGCG 1 cut(s) 166
MwoI GCNNNNNNNGC 4 cut(s) 50, 131, 768, 941
NdeI CATATG 1 cut(s) 841
NdeII GATC 5 cut(s) 334, 409, 482, 560, 618
NlaIII CATG 5 cut(s) 130, 494, 580, 854, 863
NlaIV GGNNCC 2 cut(s) 252, 511
NmeAIII GCCGAG 2 cut(s) 251, 301
NmuCI GTSAC 2 cut(s) 338, 369
PcsI WCGNNNNNNNCGW 1 cut(s) 180
PctI GAATGC 1 cut(s) 401
PfeI GAWTC 4 cut(s) 17, 245, 471, 715
PflFI GACNNNGTC 1 cut(s) 173
PkrI GCNGC 4 cut(s) 385, 443, 529, 951
PleI GAGTC 2 cut(s) 263, 286
PpsI GAGTC 2 cut(s) 263, 286
Psp124BI GAGCTC 1 cut(s) 315
Psp6I CCWGG 3 cut(s) 512, 553, 939
PspGI CCWGG 3 cut(s) 512, 553, 939
PspN4I GGNNCC 2 cut(s) 252, 511
PspPI GGNCC 4 cut(s) 187, 250, 510, 933
PstNI CAGNNNCTG 1 cut(s) 293
PsuI RGATCY 1 cut(s) 618
PsyI GACNNNGTC 1 cut(s) 173
RsaI GTAC 1 cut(s) 431
RsaNI GTAC 1 cut(s) 430
SacI GAGCTC 1 cut(s) 315
SaqAI TTAA 2 cut(s) 396, 804
SatI GCNGC 4 cut(s) 384, 442, 528, 950
Sau3AI GATC 5 cut(s) 334, 409, 482, 560, 618
Sau96I GGNCC 4 cut(s) 187, 250, 510, 933
SchI GAGTC 2 cut(s) 263, 287
ScrFI CCNGG 3 cut(s) 514, 555, 941
SduI GDGCHC 4 cut(s) 75, 315, 730, 885
SfaNI GCATC 2 cut(s) 688, 936
SfcI CTRYAG 1 cut(s) 684
SinI GGWCC 2 cut(s) 187, 250
SpeI ACTAGT 1 cut(s) 344
Sse9I AATT 2 cut(s) 61, 783
SsiI CCGC 4 cut(s) 83, 132, 166, 760
SspI AATATT 1 cut(s) 661
SspMI CTAG 1 cut(s) 345
SstI GAGCTC 1 cut(s) 315
StyD4I CCNGG 3 cut(s) 512, 553, 939
TaaI ACNGT 3 cut(s) 230, 329, 478
TaiI ACGT 3 cut(s) 177, 431, 733
TaqI TCGA 1 cut(s) 788
TaqII GACCGA 2 cut(s) 238, 486
TasI AATT 2 cut(s) 61, 783
TfiI GAWTC 4 cut(s) 17, 245, 471, 715
Tru1I TTAA 2 cut(s) 396, 804
Tru9I TTAA 2 cut(s) 396, 804
TscAI CASTG 3 cut(s) 197, 412, 481
TseFI GTSAC 2 cut(s) 338, 369
TseI GCWGC 4 cut(s) 383, 441, 527, 949
Tsp45I GTSAC 2 cut(s) 338, 369
TspDTI ATGAA 4 cut(s) 666, 848, 858, 867
TspRI CASTG 3 cut(s) 197, 412, 481
Tth111I GACNNNGTC 1 cut(s) 173
VpaK11BI GGWCC 2 cut(s) 187, 250
XapI RAATTY 1 cut(s) 783
XmiI GTMKAC 1 cut(s) 819
XspI CTAG 1 cut(s) 345
ZraI GACGTC 1 cut(s) 175
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.