RchiOBHm_Chr3g0456981

synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0009298
Physical Location & Seq
Reverse (-)
6269821 .. 6271485
1665 bp
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UTR
Exon/CDS
Intron
PRQ42375

Sequence Viewer

Length: 831 bp
ATGTCCGCCTCTTCCAAATCCAGCCTCTTTTCTCTGTCGCGGGACGACGTCGTTTACGAGGACCAGTGGCTCATTGTTGTCAACAAGCCTCAGGGGATTTACTGTGAGACTGTGCTGGAATCGGTCCCTAAGCTTCTCTTTGACTCGGCCGAGTCAGTTGCAGGGACTGAAGCTATAGTGCCAGAGCTCCATCTTGCAAACCGTCTTGATCGGGACACTAGTGGAGTAATGATAATAACCAAGTCACATAAAGTAGCTGCCAAACTTGTTAAGGCATTTACTGATCATAAAGTTTCCAAAACGTACATTGCACGCTGCATTGGCTCAGCTCCGAAATGGGAAAGAATCACTGTTAGATCGGGTCATGGTCGGTCAAAGTTTGGGGCCTGGAGGGTGTATGCTGCTTCAGATGTAGGCCGGACACTTCCAGGTGGATCAGTAGTCAGAGACATGGAAACATCATTTGAAGTAATATCAATAAATGGACAAGGGATCTTCAAAGAGCCATCTGAGTTTAGAACAGATGAAGATAATATTGTAGTTGTTGAAGAAAAATCTGTAGTAGATGGAGATGCAAAGAAGGATGAGATTCTGGCGAGAGCACGTCCTCGGAGTGGAAGGACGCACCAAATCCGCTTGCATTGCCAGTATCTTGGAATTTCGATAAGAGGGGATGTTAAGTATGAGGGTGTCTACGAGTGGAAAGGGACAACATATGAAGGCCATGAACTTCATGCAGAAAGCTTGTCTTTGGAGCACCCTATTACTGGTCTTCCTGTATTATTTCGAGCACCCCTACCATCTTGGGCCAGCCAGACGTCGCAGCCATAG

Protein Analysis

276

Amino Acids

30.61

Weight (kDa)

6.76

Isoelectric Point (pI)

32.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_2 PF00849 24 - 216 7e-22 RNA pseudouridylate synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 2 cut(s) 51, 821
AccI GTMKAC 1 cut(s) 693
AccII CGCG 1 cut(s) 40
AciI CCGC 3 cut(s) 6, 40, 634
AclWI GGATC 2 cut(s) 442, 500
AcoI YGGCCR 1 cut(s) 147
AcsI RAATTY 1 cut(s) 657
AcuI CTGAAG 2 cut(s) 189, 390
AcyI GRCGYC 2 cut(s) 48, 818
AfaI GTAC 1 cut(s) 305
AfiI CCNNNNNNNGG 2 cut(s) 614, 767
AgsI TTSAA 3 cut(s) 467, 499, 548
AhlI ACTAGT 1 cut(s) 218
AjiI CACGTC 1 cut(s) 605
AjnI CCWGG 2 cut(s) 386, 427
AluBI AGCT 6 cut(s) 133, 173, 187, 257, 329, 744
AluI AGCT 6 cut(s) 133, 173, 187, 257, 329, 744
Alw21I GWGCWC 4 cut(s) 189, 604, 759, 793
Alw26I GTCTC 2 cut(s) 101, 441
AlwI GGATC 2 cut(s) 442, 500
AlwNI CAGNNNCTG 1 cut(s) 167
AoxI GGCC 5 cut(s) 147, 384, 415, 721, 807
ApeKI GCWGC 4 cut(s) 257, 315, 401, 823
ApoI RAATTY 1 cut(s) 657
AspS9I GGNCC 4 cut(s) 61, 124, 384, 807
AvaII GGWCC 2 cut(s) 61, 124
AxyI CCTNAGG 1 cut(s) 90
BanII GRGCYC 1 cut(s) 189
BbsI GAAGAC 1 cut(s) 764
Bbv12I GWGCWC 4 cut(s) 189, 604, 759, 793
BbvI GCAGC 3 cut(s) 244, 302, 388
BccI CCATC 4 cut(s) 198, 514, 560, 808
BcgI CGANNNNNNTGC 2 cut(s) 140, 174
BciT130I CCWGG 2 cut(s) 388, 429
BclI TGATCA 1 cut(s) 283
BcoDI GTCTC 2 cut(s) 101, 441
BcuI ACTAGT 1 cut(s) 218
BfaI CTAG 1 cut(s) 219
BfmI CTRYAG 2 cut(s) 174, 558
BisI GCNGC 4 cut(s) 258, 316, 402, 824
BlpI GCTNAGC 1 cut(s) 325
BlsI GCNGC 4 cut(s) 259, 317, 403, 825
Bme1390I CCNGG 2 cut(s) 388, 429
Bme18I GGWCC 2 cut(s) 61, 124
BmgBI CACGTC 1 cut(s) 605
BmgT120I GGNCC 4 cut(s) 61, 124, 384, 807
BmiI GGNNCC 2 cut(s) 126, 385
BmrFI CCNGG 2 cut(s) 388, 429
BmsI GCATC 1 cut(s) 562
BpiI GAAGAC 1 cut(s) 764
BpmI CTGGAG 1 cut(s) 409
Bpu10I CCTNAGC 1 cut(s) 129
Bpu1102I GCTNAGC 1 cut(s) 325
BsaHI GRCGYC 2 cut(s) 48, 818
BsaJI CCNNGG 1 cut(s) 608
Bsc4I CCNNNNNNNGG 2 cut(s) 614, 767
Bse1I ACTGG 3 cut(s) 64, 646, 772
Bse21I CCTNAGG 1 cut(s) 90
Bse3DI GCAATG 2 cut(s) 306, 640
BseBI CCWGG 2 cut(s) 388, 429
BseDI CCNNGG 1 cut(s) 608
BseGI GGATG 2 cut(s) 589, 679
BseLI CCNNNNNNNGG 2 cut(s) 614, 767
BseMI GCAATG 2 cut(s) 306, 640
BseMII CTCAG 3 cut(s) 104, 339, 501
BseNI ACTGG 3 cut(s) 64, 646, 772
BseX3I CGGCCG 1 cut(s) 147
BseXI GCAGC 3 cut(s) 244, 302, 388
Bsh1236I CGCG 1 cut(s) 40
Bsh1285I CGRYCG 1 cut(s) 150
BshFI GGCC 5 cut(s) 149, 386, 417, 723, 809
BsiEI CGRYCG 1 cut(s) 150
BsiHKAI GWGCWC 4 cut(s) 189, 604, 759, 793
BsiSI CCGG 1 cut(s) 418
BslFI GGGAC 5 cut(s) 56, 110, 178, 227, 721
BslI CCNNNNNNNGG 2 cut(s) 614, 767
BsmAI GTCTC 2 cut(s) 101, 441
BsmFI GGGAC 5 cut(s) 56, 110, 178, 227, 721
BsnI GGCC 5 cut(s) 149, 386, 417, 723, 809
Bsp1286I GDGCHC 4 cut(s) 189, 604, 759, 793
Bsp143I GATC 5 cut(s) 208, 283, 356, 434, 492
Bsp1720I GCTNAGC 1 cut(s) 325
BspACI CCGC 3 cut(s) 6, 40, 634
BspANI GGCC 5 cut(s) 149, 386, 417, 723, 809
BspCNI CTCAG 3 cut(s) 103, 338, 502
BspFNI CGCG 1 cut(s) 40
BspLI GGNNCC 2 cut(s) 126, 385
BspPI GGATC 2 cut(s) 442, 500
BsrDI GCAATG 2 cut(s) 306, 640
BsrI ACTGG 3 cut(s) 64, 646, 772
BssECI CCNNGG 1 cut(s) 608
BssMI GATC 5 cut(s) 208, 283, 356, 434, 492
BssNI GRCGYC 2 cut(s) 48, 818
Bst2UI CCWGG 2 cut(s) 388, 429
Bst4CI ACNGT 4 cut(s) 104, 112, 203, 352
Bst6I CTCTTC 1 cut(s) 16
BstACI GRCGYC 2 cut(s) 48, 818
BstC8I GCNNGC 3 cut(s) 313, 638, 811
BstDEI CTNAG 4 cut(s) 90, 129, 325, 510
BstF5I GGATG 2 cut(s) 589, 679
BstFNI CGCG 1 cut(s) 40
BstKTI GATC 5 cut(s) 211, 286, 359, 437, 495
BstMAI GTCTC 2 cut(s) 101, 441
BstMBI GATC 5 cut(s) 208, 283, 356, 434, 492
BstMCI CGRYCG 1 cut(s) 150
BstMWI GCNNNNNNNGC 2 cut(s) 321, 642
BstNI CCWGG 2 cut(s) 388, 429
BstSCI CCNGG 2 cut(s) 386, 427
BstSFI CTRYAG 2 cut(s) 174, 558
BstUI CGCG 1 cut(s) 40
BstV1I GCAGC 3 cut(s) 244, 302, 388
BstV2I GAAGAC 1 cut(s) 764
BstX2I RGATCY 1 cut(s) 492
BstXI CCANNNNNNTGG 1 cut(s) 653
BstYI RGATCY 1 cut(s) 492
BstZI CGGCCG 1 cut(s) 147
Bsu36I CCTNAGG 1 cut(s) 90
BsuRI GGCC 5 cut(s) 149, 386, 417, 723, 809
BtrI CACGTC 1 cut(s) 605
BtsCI GGATG 2 cut(s) 589, 679
BtsIMutI CAGTG 2 cut(s) 71, 348
Cac8I GCNNGC 3 cut(s) 313, 638, 811
CaiI CAGNNNCTG 1 cut(s) 167
Cfr13I GGNCC 4 cut(s) 61, 124, 384, 807
CseI GACGC 1 cut(s) 631
Csp6I GTAC 1 cut(s) 304
CviAII CATG 4 cut(s) 365, 451, 725, 734
CviQI GTAC 1 cut(s) 304
DdeI CTNAG 4 cut(s) 90, 129, 325, 510
DpnI GATC 5 cut(s) 210, 285, 358, 436, 494
DpnII GATC 5 cut(s) 208, 283, 356, 434, 492
EaeI YGGCCR 1 cut(s) 147
EagI CGGCCG 1 cut(s) 147
Eam1104I CTCTTC 1 cut(s) 16
EarI CTCTTC 1 cut(s) 16
Ecl136II GAGCTC 1 cut(s) 187
EclXI CGGCCG 1 cut(s) 147
Eco24I GRGCYC 1 cut(s) 189
Eco47I GGWCC 2 cut(s) 61, 124
Eco52I CGGCCG 1 cut(s) 147
Eco53kI GAGCTC 1 cut(s) 187
Eco57I CTGAAG 2 cut(s) 189, 390
Eco81I CCTNAGG 1 cut(s) 90
EcoICRI GAGCTC 1 cut(s) 187
EcoO109I RGGNCCY 1 cut(s) 384
EcoRII CCWGG 2 cut(s) 386, 427
EcoT38I GRGCYC 1 cut(s) 189
FaeI CATG 4 cut(s) 368, 454, 728, 737
FalI AAGNNNNNCTT 4 cut(s) 122, 154, 733, 765
FaqI GGGAC 5 cut(s) 56, 110, 178, 227, 721
FatI CATG 4 cut(s) 364, 450, 724, 733
FauI CCCGC 1 cut(s) 33
FauNDI CATATG 1 cut(s) 715
FbaI TGATCA 1 cut(s) 283
FblI GTMKAC 1 cut(s) 693
Fnu4HI GCNGC 4 cut(s) 258, 316, 402, 824
FokI GGATG 2 cut(s) 596, 686
FriOI GRGCYC 1 cut(s) 189
Fsp4HI GCNGC 4 cut(s) 258, 316, 402, 824
FspBI CTAG 1 cut(s) 219
GluI GCNGC 4 cut(s) 258, 316, 402, 824
GsuI CTGGAG 1 cut(s) 409
HaeIII GGCC 5 cut(s) 149, 386, 417, 723, 809
HapII CCGG 1 cut(s) 418
HgaI GACGC 1 cut(s) 631
Hin1I GRCGYC 2 cut(s) 48, 818
Hin1II CATG 4 cut(s) 368, 454, 728, 737
HincII GTYRAC 1 cut(s) 82
HindII GTYRAC 1 cut(s) 82
HindIII AAGCTT 2 cut(s) 131, 742
HinfI GANTC 5 cut(s) 119, 143, 152, 345, 589
HpaII CCGG 1 cut(s) 418
Hpy166II GTNNAC 3 cut(s) 55, 82, 694
Hpy188I TCNGA 5 cut(s) 333, 409, 446, 511, 612
Hpy188III TCNNGA 2 cut(s) 206, 212
Hpy8I GTNNAC 3 cut(s) 55, 82, 694
Hpy99I CGWCG 3 cut(s) 50, 53, 823
HpyAV CCTTC 3 cut(s) 574, 612, 713
HpyCH4III ACNGT 4 cut(s) 104, 112, 203, 352
HpyCH4IV ACGT 4 cut(s) 48, 302, 604, 818
HpyCH4V TGCA 7 cut(s) 161, 197, 311, 318, 575, 640, 737
HpyF10VI GCNNNNNNNGC 2 cut(s) 321, 642
HpyF3I CTNAG 4 cut(s) 90, 129, 325, 510
HpySE526I ACGT 4 cut(s) 48, 302, 604, 818
Hsp92I GRCGYC 2 cut(s) 48, 818
Hsp92II CATG 4 cut(s) 368, 454, 728, 737
Ksp22I TGATCA 1 cut(s) 283
Kzo9I GATC 5 cut(s) 208, 283, 356, 434, 492
LmnI GCTCC 3 cut(s) 192, 334, 754
Lsp1109I GCAGC 3 cut(s) 244, 302, 388
LweI GCATC 1 cut(s) 562
MaeI CTAG 1 cut(s) 219
MaeII ACGT 4 cut(s) 48, 302, 604, 818
MaeIII GTNAC 1 cut(s) 243
MalI GATC 5 cut(s) 210, 285, 358, 436, 494
MboI GATC 5 cut(s) 208, 283, 356, 434, 492
MboII GAAGA 5 cut(s) 3, 487, 539, 560, 764
MflI RGATCY 1 cut(s) 492
MhlI GDGCHC 4 cut(s) 189, 604, 759, 793
MluCI AATT 1 cut(s) 657
MlyI GAGTC 2 cut(s) 137, 161
MnlI CCTC 8 cut(s) 19, 35, 52, 99, 384, 618, 662, 679
MseI TTAA 2 cut(s) 270, 678
MspI CCGG 1 cut(s) 418
MspR9I CCNGG 2 cut(s) 388, 429
MvaI CCWGG 2 cut(s) 388, 429
MvnI CGCG 1 cut(s) 40
MwoI GCNNNNNNNGC 2 cut(s) 321, 642
NdeI CATATG 1 cut(s) 715
NdeII GATC 5 cut(s) 208, 283, 356, 434, 492
NlaIII CATG 4 cut(s) 368, 454, 728, 737
NlaIV GGNNCC 2 cut(s) 126, 385
NmeAIII GCCGAG 2 cut(s) 125, 175
NmuCI GTSAC 1 cut(s) 243
PcsI WCGNNNNNNNCGW 1 cut(s) 54
PfeI GAWTC 3 cut(s) 119, 345, 589
PflFI GACNNNGTC 1 cut(s) 47
PkrI GCNGC 4 cut(s) 259, 317, 403, 825
PleI GAGTC 2 cut(s) 137, 160
PpsI GAGTC 2 cut(s) 137, 160
Psp124BI GAGCTC 1 cut(s) 189
Psp6I CCWGG 2 cut(s) 386, 427
PspGI CCWGG 2 cut(s) 386, 427
PspN4I GGNNCC 2 cut(s) 126, 385
PspPI GGNCC 4 cut(s) 61, 124, 384, 807
PstNI CAGNNNCTG 1 cut(s) 167
PsuI RGATCY 1 cut(s) 492
PsyI GACNNNGTC 1 cut(s) 47
RsaI GTAC 1 cut(s) 305
RsaNI GTAC 1 cut(s) 304
SacI GAGCTC 1 cut(s) 189
SaqAI TTAA 2 cut(s) 270, 678
SatI GCNGC 4 cut(s) 258, 316, 402, 824
Sau3AI GATC 5 cut(s) 208, 283, 356, 434, 492
Sau96I GGNCC 4 cut(s) 61, 124, 384, 807
SchI GAGTC 2 cut(s) 137, 161
ScrFI CCNGG 2 cut(s) 388, 429
SduI GDGCHC 4 cut(s) 189, 604, 759, 793
SfaNI GCATC 1 cut(s) 562
SfcI CTRYAG 2 cut(s) 174, 558
SinI GGWCC 2 cut(s) 61, 124
SpeI ACTAGT 1 cut(s) 218
Sse9I AATT 1 cut(s) 657
SsiI CCGC 3 cut(s) 6, 40, 634
SspI AATATT 1 cut(s) 535
SspMI CTAG 1 cut(s) 219
SstI GAGCTC 1 cut(s) 189
StyD4I CCNGG 2 cut(s) 386, 427
TaaI ACNGT 4 cut(s) 104, 112, 203, 352
TaiI ACGT 4 cut(s) 51, 305, 607, 821
TaqI TCGA 2 cut(s) 662, 787
TaqII GACCGA 2 cut(s) 112, 360
TasI AATT 1 cut(s) 657
TfiI GAWTC 3 cut(s) 119, 345, 589
Tru1I TTAA 2 cut(s) 270, 678
Tru9I TTAA 2 cut(s) 270, 678
TscAI CASTG 2 cut(s) 71, 355
TseFI GTSAC 1 cut(s) 243
TseI GCWGC 4 cut(s) 257, 315, 401, 823
Tsp45I GTSAC 1 cut(s) 243
TspDTI ATGAA 4 cut(s) 540, 722, 732, 741
TspRI CASTG 2 cut(s) 71, 355
Tth111I GACNNNGTC 1 cut(s) 47
VpaK11BI GGWCC 2 cut(s) 61, 124
XapI RAATTY 1 cut(s) 657
XmiI GTMKAC 1 cut(s) 693
XspI CTAG 1 cut(s) 219
ZraI GACGTC 2 cut(s) 49, 819
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.