Rroxscaffold_2G00121200

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0009141
Physical Location & Seq
Reverse (-)
53701548 .. 53719230
17683 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00121200.1

Sequence Viewer

Length: 618 bp
ATGTTTGCGAGAAGATACTGGTCCTCCATTGGTTGGTGGTCGAAGAATCAGAATCGTTTCATGACCACCAGTAATCGTGTGCAGGACAGGAGCAAATTGAAGAGGGTTCATGATCTTGAAATTGTCACTGAGAAATGGAAGATAGCTTCCAAGGTGCTCTTTTTGATGGAATTACTAAAGAAGGAGCCGGAAATGATAATTCCGGTGAGGTCATTGGACAAGTTCCGGGGGAGTTTTATGTGTGGGATGACTGAGCAAGCTGAGGAGTTGGTAGAGGAGGAGGATAGGTTACTTAAGCAGCATCAAGATAAGGCTGCTGAGTATGTTACTCGTTTTCTTATGATGTCTGTTGATAAGCGGCTTCGAGTTGACGAGATTGCTCATTATAGGAGAGACTTTGCTCTTCCAAATGATTTTAGGACTACCTGGGTGCACAAGTATCCCCAACACTTTAGGCTGGTAAGGGATAATGAGGATATCGATGCGAGATGCAGAGCTGTCCGTACACTAGGTCCGGGCAAGCTAAACTTGGCTGGAAAACTGAACCCGGAAGCCGTCGAGTCATTTTGCTTCAGATCAAAAGGATTGGTCGAGGAGGCCACTGGCACCTTGCGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PORR

Protein Analysis

205

Amino Acids

24.33

Weight (kDa)

9.48

Isoelectric Point (pI)

40.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 80 - 158 5.2e-25 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 605
AccB7I CCANNNNNTGG 1 cut(s) 33
AciI CCGC 1 cut(s) 358
AcuI CTGAAG 1 cut(s) 556
AfaI GTAC 1 cut(s) 505
AfiI CCNNNNNNNGG 1 cut(s) 33
AflII CTTAAG 1 cut(s) 293
AgsI TTSAA 2 cut(s) 100, 119
AjnI CCWGG 1 cut(s) 425
AluBI AGCT 4 cut(s) 146, 260, 497, 523
AluI AGCT 4 cut(s) 146, 260, 497, 523
Alw21I GWGCWC 2 cut(s) 159, 435
Alw26I GTCTC 1 cut(s) 387
Alw44I GTGCAC 1 cut(s) 431
AoxI GGCC 1 cut(s) 597
ApaLI GTGCAC 1 cut(s) 431
ApeKI GCWGC 2 cut(s) 298, 314
Asp700I GAANNNNTTC 1 cut(s) 56
AspLEI GCGC 1 cut(s) 615
AspS9I GGNCC 2 cut(s) 21, 512
AsuC2I CCSGG 3 cut(s) 227, 516, 548
AsuHPI GGTGA 1 cut(s) 217
AvaII GGWCC 2 cut(s) 21, 512
BaeGI GKGCMC 1 cut(s) 435
BanI GGYRCC 1 cut(s) 605
Bbv12I GWGCWC 2 cut(s) 159, 435
BbvCI CCTCAGC 1 cut(s) 261
BbvI GCAGC 2 cut(s) 301, 310
BccI CCATC 1 cut(s) 160
BceAI ACGGC 1 cut(s) 539
BciT130I CCWGG 1 cut(s) 427
BciVI GTATCC 1 cut(s) 450
BcnI CCSGG 3 cut(s) 227, 516, 548
BcoDI GTCTC 1 cut(s) 387
BfaI CTAG 2 cut(s) 509, 616
BfrI CTTAAG 1 cut(s) 293
BfuI GTATCC 1 cut(s) 450
BisI GCNGC 3 cut(s) 299, 315, 359
BlsI GCNGC 3 cut(s) 300, 316, 360
Bme1390I CCNGG 4 cut(s) 227, 427, 516, 548
Bme18I GGWCC 2 cut(s) 21, 512
BmgT120I GGNCC 2 cut(s) 21, 512
BmiI GGNNCC 2 cut(s) 186, 607
BmrFI CCNGG 4 cut(s) 227, 427, 516, 548
BmsI GCATC 3 cut(s) 310, 472, 479
Bpu10I CCTNAGC 1 cut(s) 261
BpuMI CCSGG 3 cut(s) 227, 516, 548
Bsa29I ATCGAT 1 cut(s) 480
BsaJI CCNNGG 3 cut(s) 150, 226, 426
BsaWI WCCGGW 1 cut(s) 202
BsaXI ACNNNNNCTCC 4 cut(s) 8, 38, 272, 302
Bsc4I CCNNNNNNNGG 1 cut(s) 33
Bse1I ACTGG 3 cut(s) 23, 69, 607
BseBI CCWGG 1 cut(s) 427
BseCI ATCGAT 1 cut(s) 480
BseDI CCNNGG 3 cut(s) 150, 226, 426
BseGI GGATG 1 cut(s) 252
BseLI CCNNNNNNNGG 1 cut(s) 33
BseMII CTCAG 4 cut(s) 120, 243, 252, 309
BseNI ACTGG 3 cut(s) 23, 69, 607
BseRI GAGGAG 4 cut(s) 278, 290, 293, 608
BseSI GKGCMC 1 cut(s) 435
BseXI GCAGC 2 cut(s) 301, 310
BsgI GTGCAG 1 cut(s) 101
BshFI GGCC 1 cut(s) 599
BshNI GGYRCC 1 cut(s) 605
BshVI ATCGAT 1 cut(s) 480
BsiHKAI GWGCWC 2 cut(s) 159, 435
BsiSI CCGG 5 cut(s) 188, 203, 226, 515, 548
BslI CCNNNNNNNGG 1 cut(s) 33
BsmAI GTCTC 1 cut(s) 387
BsnI GGCC 1 cut(s) 599
Bsp1286I GDGCHC 2 cut(s) 159, 435
Bsp143I GATC 2 cut(s) 112, 575
BspACI CCGC 1 cut(s) 358
BspANI GGCC 1 cut(s) 599
BspCNI CTCAG 4 cut(s) 121, 244, 253, 310
BspDI ATCGAT 1 cut(s) 480
BspHI TCATGA 2 cut(s) 60, 109
BspLI GGNNCC 2 cut(s) 186, 607
BspQI GCTCTTC 1 cut(s) 408
BspT107I GGYRCC 1 cut(s) 605
BspTI CTTAAG 1 cut(s) 293
BsrI ACTGG 3 cut(s) 23, 69, 607
BssECI CCNNGG 3 cut(s) 150, 226, 426
BssMI GATC 2 cut(s) 112, 575
BssT1I CCWWGG 1 cut(s) 150
Bst2UI CCWGG 1 cut(s) 427
Bst6I CTCTTC 2 cut(s) 95, 408
BstAFI CTTAAG 1 cut(s) 293
BstC8I GCNNGC 2 cut(s) 258, 521
BstDEI CTNAG 4 cut(s) 129, 252, 261, 318
BstF5I GGATG 1 cut(s) 252
BstHHI GCGC 1 cut(s) 615
BstKTI GATC 2 cut(s) 115, 578
BstMAI GTCTC 1 cut(s) 387
BstMBI GATC 2 cut(s) 112, 575
BstMWI GCNNNNNNNGC 1 cut(s) 612
BstNI CCWGG 1 cut(s) 427
BstSCI CCNGG 4 cut(s) 225, 425, 514, 546
BstSLI GKGCMC 1 cut(s) 435
BstV1I GCAGC 2 cut(s) 301, 310
Bsu15I ATCGAT 1 cut(s) 480
BsuI GTATCC 1 cut(s) 450
BsuRI GGCC 1 cut(s) 599
BsuTUI ATCGAT 1 cut(s) 480
BtsCI GGATG 1 cut(s) 252
BtsIMutI CAGTG 2 cut(s) 126, 600
Cac8I GCNNGC 2 cut(s) 258, 521
CciI TCATGA 2 cut(s) 60, 109
CfoI GCGC 1 cut(s) 615
Cfr13I GGNCC 2 cut(s) 21, 512
ClaI ATCGAT 1 cut(s) 480
Csp6I GTAC 1 cut(s) 504
CviAII CATG 2 cut(s) 61, 110
CviQI GTAC 1 cut(s) 504
DdeI CTNAG 4 cut(s) 129, 252, 261, 318
DpnI GATC 2 cut(s) 114, 577
DpnII GATC 2 cut(s) 112, 575
Eam1104I CTCTTC 2 cut(s) 95, 408
EarI CTCTTC 2 cut(s) 95, 408
Eco130I CCWWGG 1 cut(s) 150
Eco32I GATATC 1 cut(s) 478
Eco47I GGWCC 2 cut(s) 21, 512
Eco57I CTGAAG 1 cut(s) 556
EcoRII CCWGG 1 cut(s) 425
EcoRV GATATC 1 cut(s) 478
EcoT14I CCWWGG 1 cut(s) 150
ErhI CCWWGG 1 cut(s) 150
FaeI CATG 2 cut(s) 64, 113
FaiI YATR 6 cut(s) 62, 111, 239, 324, 341, 387
FalI AAGNNNNNCTT 4 cut(s) 143, 175, 512, 544
FatI CATG 2 cut(s) 60, 109
Fnu4HI GCNGC 3 cut(s) 299, 315, 359
FokI GGATG 1 cut(s) 259
Fsp4HI GCNGC 3 cut(s) 299, 315, 359
FspBI CTAG 2 cut(s) 509, 616
GlaI GCGC 1 cut(s) 614
GluI GCNGC 3 cut(s) 299, 315, 359
HaeIII GGCC 1 cut(s) 599
HapII CCGG 5 cut(s) 188, 203, 226, 515, 548
HhaI GCGC 1 cut(s) 615
Hin1II CATG 2 cut(s) 64, 113
Hin6I GCGC 1 cut(s) 613
HinP1I GCGC 1 cut(s) 613
HincII GTYRAC 1 cut(s) 370
HindII GTYRAC 1 cut(s) 370
HinfI GANTC 3 cut(s) 46, 52, 560
HpaII CCGG 5 cut(s) 188, 203, 226, 515, 548
HphI GGTGA 1 cut(s) 217
Hpy166II GTNNAC 3 cut(s) 370, 433, 506
Hpy188I TCNGA 2 cut(s) 51, 575
Hpy188III TCNNGA 4 cut(s) 61, 110, 116, 305
Hpy8I GTNNAC 3 cut(s) 370, 433, 506
Hpy99I CGWCG 1 cut(s) 560
HpyAV CCTTC 1 cut(s) 175
HpyCH4V TGCA 3 cut(s) 82, 433, 492
HpyF10VI GCNNNNNNNGC 1 cut(s) 612
HpyF3I CTNAG 4 cut(s) 129, 252, 261, 318
Hsp92II CATG 2 cut(s) 64, 113
HspAI GCGC 1 cut(s) 613
Kzo9I GATC 2 cut(s) 112, 575
LguI GCTCTTC 1 cut(s) 408
LmnI GCTCC 2 cut(s) 90, 184
Lsp1109I GCAGC 2 cut(s) 301, 310
LweI GCATC 3 cut(s) 310, 472, 479
MaeI CTAG 2 cut(s) 509, 616
MaeIII GTNAC 3 cut(s) 124, 288, 325
MalI GATC 2 cut(s) 114, 577
MboI GATC 2 cut(s) 112, 575
MboII GAAGA 5 cut(s) 24, 55, 112, 151, 395
MhlI GDGCHC 2 cut(s) 159, 435
MluCI AATT 4 cut(s) 95, 120, 170, 198
MlyI GAGTC 1 cut(s) 569
MroXI GAANNNNTTC 1 cut(s) 56
MseI TTAA 1 cut(s) 294
MspCI CTTAAG 1 cut(s) 293
MspI CCGG 5 cut(s) 188, 203, 226, 515, 548
MspR9I CCNGG 4 cut(s) 227, 427, 516, 548
MvaI CCWGG 1 cut(s) 427
MwoI GCNNNNNNNGC 1 cut(s) 612
NciI CCSGG 3 cut(s) 227, 516, 548
NdeII GATC 2 cut(s) 112, 575
NlaIII CATG 2 cut(s) 64, 113
NlaIV GGNNCC 2 cut(s) 186, 607
NmuCI GTSAC 1 cut(s) 124
PagI TCATGA 2 cut(s) 60, 109
PciSI GCTCTTC 1 cut(s) 408
PdmI GAANNNNTTC 1 cut(s) 56
PfeI GAWTC 2 cut(s) 46, 52
PflMI CCANNNNNTGG 1 cut(s) 33
PkrI GCNGC 3 cut(s) 300, 316, 360
PleI GAGTC 1 cut(s) 568
PpsI GAGTC 1 cut(s) 568
Psp6I CCWGG 1 cut(s) 425
PspGI CCWGG 1 cut(s) 425
PspN4I GGNNCC 2 cut(s) 186, 607
PspPI GGNCC 2 cut(s) 21, 512
RsaI GTAC 1 cut(s) 505
RsaNI GTAC 1 cut(s) 504
SapI GCTCTTC 1 cut(s) 408
SaqAI TTAA 1 cut(s) 294
SatI GCNGC 3 cut(s) 299, 315, 359
Sau3AI GATC 2 cut(s) 112, 575
Sau96I GGNCC 2 cut(s) 21, 512
SchI GAGTC 1 cut(s) 569
ScrFI CCNGG 4 cut(s) 227, 427, 516, 548
SduI GDGCHC 2 cut(s) 159, 435
SfaNI GCATC 3 cut(s) 310, 472, 479
SinI GGWCC 2 cut(s) 21, 512
SmlI CTYRAG 1 cut(s) 293
SmoI CTYRAG 1 cut(s) 293
Sse9I AATT 4 cut(s) 95, 120, 170, 198
SsiI CCGC 1 cut(s) 358
SspMI CTAG 2 cut(s) 509, 616
StyD4I CCNGG 4 cut(s) 225, 425, 514, 546
StyI CCWWGG 1 cut(s) 150
TaqI TCGA 5 cut(s) 41, 364, 480, 558, 591
TasI AATT 4 cut(s) 95, 120, 170, 198
TauI GCSGC 1 cut(s) 361
TfiI GAWTC 2 cut(s) 46, 52
Tru1I TTAA 1 cut(s) 294
Tru9I TTAA 1 cut(s) 294
TscAI CASTG 2 cut(s) 133, 607
TseFI GTSAC 1 cut(s) 124
TseI GCWGC 2 cut(s) 298, 314
Tsp45I GTSAC 1 cut(s) 124
TspDTI ATGAA 2 cut(s) 49, 98
TspGWI ACGGA 1 cut(s) 491
TspRI CASTG 2 cut(s) 133, 607
Van91I CCANNNNNTGG 1 cut(s) 33
Vha464I CTTAAG 1 cut(s) 293
VneI GTGCAC 1 cut(s) 431
VpaK11BI GGWCC 2 cut(s) 21, 512
XmnI GAANNNNTTC 1 cut(s) 56
XspI CTAG 2 cut(s) 509, 616
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.