Rw3G003450

Double-stranded RNA binding motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0019904
Physical Location & Seq
Forward (+)
2939407 .. 2941807
2401 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G003450.1

Sequence Viewer

Length: 711 bp
ATGGGTCTGACATCTGAGAGAGACATGTATAAGAACCGATTGCAAGAGGAGGCTCAGAAAAGACGTTTAAATTTTCCCTCGTATTCATCCACCCGGGAAAGACCGGATCATGCCCCACGATTCAAAGCAACCGTCAACTTCGATGGAAAGCCTTTTGAAAGTCCTAACTTTTACTCTACTCTTCGAGAGGCAGAGAATGCTGCAGCAGAAGTAGCATTGAACAAAGGTAAAAAAGGAGGGCATAAGGCCGCAGTACTGGTGAGTAGCAAAAACCGTAGTGCATACATGTTTAAGAACCGATTGCAAGAGAAGGCTCAGAAAAGTCGTTTAAAATTTCCCTCGTATTCACACACCCGGAAAGGACCGGATCATGCCCCACGATTCAAAGCAACCGTCAACTTCGATGGAAAAACTTTTGAAAGTCCTACCTTTTACCCTACTCTTAGAGAGGCAGAGAATGCTGCAGCAGAAGTAGCATTGAACACAGTTGAAAAAAGAGGGCATAACCTAGCATTGGCCGCAGTACTGTACTGTGCTTCTAATGCAGGCTGTCCTATTCATATTTCTACATGCATGGCTGTATCCCGAGTCCACGAGAGAACCCTGAAACGGGAGCAAACCGCCCTTCCACCTTTCTCGAGTGCTGCAGGAGTAAACGTCTTTGGAGCTTCTCAACAGGAAAATCATCGATTTTGTTGTTCAGTGTTATAG
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
dsrm

Protein Analysis

236

Amino Acids

26.34

Weight (kDa)

9.79

Isoelectric Point (pI)

54.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 10 - 75 2e-12 Double-stranded RNA binding motif
dsrm PF00035 98 - 161 9.3e-14 Double-stranded RNA binding motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019904)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0452621
rosa_multiflora Rmu_sc0011540.1_g000001
rosa_roxburghii Rroxscaffold_6G00429660
rosa_rugosa Rorug02G0641800
rosa_samantha Rh3AG044300 Rh3BG046600
rosa_wichuraiana Rw3G003450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 249, 519, 621
AclWI GGATC 2 cut(s) 114, 375
AcoI YGGCCR 1 cut(s) 516
AcsI RAATTY 2 cut(s) 70, 332
AfaI GTAC 3 cut(s) 255, 525, 530
AfiI CCNNNNNNNGG 3 cut(s) 514, 609, 610
AflIII ACRYGT 2 cut(s) 24, 285
AgsI TTSAA 7 cut(s) 124, 158, 220, 385, 419, 481, 491
AluBI AGCT 1 cut(s) 668
AluI AGCT 1 cut(s) 668
Alw26I GTCTC 1 cut(s) 15
AlwI GGATC 2 cut(s) 114, 375
Ama87I CYCGRG 3 cut(s) 93, 585, 637
AoxI GGCC 2 cut(s) 246, 516
ApeKI GCWGC 5 cut(s) 200, 203, 461, 464, 644
ApoI RAATTY 2 cut(s) 70, 332
ArsI GACNNNNNNTTYG 4 cut(s) 117, 149, 378, 410
AspS9I GGNCC 1 cut(s) 362
AsuC2I CCSGG 3 cut(s) 94, 95, 355
AsuHPI GGTGA 1 cut(s) 271
AvaI CYCGRG 3 cut(s) 93, 585, 637
AvaII GGWCC 1 cut(s) 362
BauI CACGAG 1 cut(s) 593
BbvI GCAGC 5 cut(s) 187, 215, 448, 476, 631
BccI CCATC 2 cut(s) 137, 398
BciVI GTATCC 1 cut(s) 592
BcnI CCSGG 3 cut(s) 94, 95, 355
BcoDI GTCTC 1 cut(s) 15
BfaI CTAG 1 cut(s) 509
BfmI CTRYAG 3 cut(s) 201, 462, 645
BfuI GTATCC 1 cut(s) 592
BisI GCNGC 7 cut(s) 201, 204, 249, 462, 465, 519, 645
BlsI GCNGC 7 cut(s) 202, 205, 250, 463, 466, 520, 646
BmcAI AGTACT 2 cut(s) 255, 525
Bme1390I CCNGG 3 cut(s) 94, 95, 355
Bme18I GGWCC 1 cut(s) 362
BmeT110I CYCGRG 3 cut(s) 93, 585, 637
BmgT120I GGNCC 1 cut(s) 362
BmrFI CCNGG 3 cut(s) 94, 95, 355
BpuMI CCSGG 3 cut(s) 94, 95, 355
Bsa29I ATCGAT 1 cut(s) 688
BsaJI CCNNGG 1 cut(s) 93
BsaWI WCCGGW 2 cut(s) 103, 364
BsaXI ACNNNNNCTCC 2 cut(s) 642, 672
Bsc4I CCNNNNNNNGG 3 cut(s) 514, 609, 610
Bse1I ACTGG 1 cut(s) 261
BseCI ATCGAT 1 cut(s) 688
BseDI CCNNGG 1 cut(s) 93
BseGI GGATG 1 cut(s) 86
BseLI CCNNNNNNNGG 3 cut(s) 514, 609, 610
BseMII CTCAG 3 cut(s) 6, 68, 329
BseNI ACTGG 1 cut(s) 261
BseRI GAGGAG 1 cut(s) 62
BseXI GCAGC 5 cut(s) 187, 215, 448, 476, 631
BshFI GGCC 2 cut(s) 248, 518
BshVI ATCGAT 1 cut(s) 688
BsiHKCI CYCGRG 3 cut(s) 93, 585, 637
BsiSI CCGG 4 cut(s) 94, 104, 355, 365
BslI CCNNNNNNNGG 3 cut(s) 514, 609, 610
BsmAI GTCTC 1 cut(s) 15
BsmI GAATGC 2 cut(s) 202, 463
BsnI GGCC 2 cut(s) 248, 518
BsoBI CYCGRG 3 cut(s) 93, 585, 637
Bsp143I GATC 2 cut(s) 106, 367
BspACI CCGC 3 cut(s) 249, 519, 621
BspANI GGCC 2 cut(s) 248, 518
BspCNI CTCAG 3 cut(s) 7, 67, 328
BspDI ATCGAT 1 cut(s) 688
BspMAI CTGCAG 3 cut(s) 205, 466, 649
BspPI GGATC 2 cut(s) 114, 375
BsrI ACTGG 1 cut(s) 261
BssECI CCNNGG 1 cut(s) 93
BssMI GATC 2 cut(s) 106, 367
BssSI CACGAG 1 cut(s) 593
Bst2BI CACGAG 1 cut(s) 593
Bst4CI ACNGT 6 cut(s) 133, 275, 394, 487, 528, 533
Bst6I CTCTTC 1 cut(s) 186
BstAPI GCANNNNNTGC 2 cut(s) 197, 458
BstC8I GCNNGC 1 cut(s) 547
BstDEI CTNAG 4 cut(s) 15, 54, 315, 443
BstF5I GGATG 1 cut(s) 86
BstKTI GATC 2 cut(s) 109, 370
BstMAI GTCTC 1 cut(s) 15
BstMBI GATC 2 cut(s) 106, 367
BstMWI GCNNNNNNNGC 6 cut(s) 197, 212, 458, 473, 518, 542
BstNSI RCATGY 3 cut(s) 28, 289, 573
BstSCI CCNGG 3 cut(s) 92, 93, 353
BstSFI CTRYAG 3 cut(s) 201, 462, 645
BstV1I GCAGC 5 cut(s) 187, 215, 448, 476, 631
Bsu15I ATCGAT 1 cut(s) 688
BsuI GTATCC 1 cut(s) 592
BsuRI GGCC 2 cut(s) 248, 518
BsuTUI ATCGAT 1 cut(s) 688
BtsCI GGATG 1 cut(s) 86
BtsIMutI CAGTG 1 cut(s) 708
Cac8I GCNNGC 1 cut(s) 547
Cfr13I GGNCC 1 cut(s) 362
Cfr9I CCCGGG 1 cut(s) 93
ClaI ATCGAT 1 cut(s) 688
Csp6I GTAC 3 cut(s) 254, 524, 529
CviAII CATG 6 cut(s) 25, 110, 286, 371, 570, 574
CviJI RGCY 8 cut(s) 53, 151, 248, 314, 518, 549, 578, 668
CviKI_1 RGCY 8 cut(s) 53, 151, 248, 314, 518, 549, 578, 668
CviQI GTAC 3 cut(s) 254, 524, 529
DdeI CTNAG 4 cut(s) 15, 54, 315, 443
DpnI GATC 2 cut(s) 108, 369
DpnII GATC 2 cut(s) 106, 367
DraI TTTAAA 2 cut(s) 69, 330
EaeI YGGCCR 1 cut(s) 516
Eam1104I CTCTTC 1 cut(s) 186
EarI CTCTTC 1 cut(s) 186
Eco47I GGWCC 1 cut(s) 362
Eco88I CYCGRG 3 cut(s) 93, 585, 637
EcoT22I ATGCAT 1 cut(s) 575
FaeI CATG 6 cut(s) 28, 113, 289, 374, 573, 577
FatI CATG 6 cut(s) 24, 109, 285, 370, 569, 573
Fnu4HI GCNGC 7 cut(s) 201, 204, 249, 462, 465, 519, 645
FokI GGATG 1 cut(s) 73
Fsp4HI GCNGC 7 cut(s) 201, 204, 249, 462, 465, 519, 645
FspBI CTAG 1 cut(s) 509
GluI GCNGC 7 cut(s) 201, 204, 249, 462, 465, 519, 645
HaeIII GGCC 2 cut(s) 248, 518
HapII CCGG 4 cut(s) 94, 104, 355, 365
Hin1II CATG 6 cut(s) 28, 113, 289, 374, 573, 577
HincII GTYRAC 2 cut(s) 136, 397
HindII GTYRAC 2 cut(s) 136, 397
HinfI GANTC 3 cut(s) 120, 381, 588
HpaII CCGG 4 cut(s) 94, 104, 355, 365
HphI GGTGA 1 cut(s) 271
Hpy166II GTNNAC 4 cut(s) 136, 397, 592, 655
Hpy188I TCNGA 4 cut(s) 9, 16, 57, 318
Hpy188III TCNNGA 3 cut(s) 185, 585, 637
Hpy8I GTNNAC 4 cut(s) 136, 397, 592, 655
HpyAV CCTTC 2 cut(s) 304, 635
HpyCH4III ACNGT 6 cut(s) 133, 275, 394, 487, 528, 533
HpyCH4IV ACGT 2 cut(s) 64, 657
HpyCH4V TGCA 8 cut(s) 43, 203, 281, 304, 464, 545, 573, 647
HpyF10VI GCNNNNNNNGC 6 cut(s) 197, 212, 458, 473, 518, 542
HpyF3I CTNAG 4 cut(s) 15, 54, 315, 443
HpySE526I ACGT 2 cut(s) 64, 657
Hsp92II CATG 6 cut(s) 28, 113, 289, 374, 573, 577
Kzo9I GATC 2 cut(s) 106, 367
LmnI GCTCC 2 cut(s) 613, 665
LpnPI CCDG 9 cut(s) 107, 117, 242, 368, 378, 531, 617, 633, 662
Lsp1109I GCAGC 5 cut(s) 187, 215, 448, 476, 631
MaeI CTAG 1 cut(s) 509
MaeII ACGT 2 cut(s) 64, 657
MalI GATC 2 cut(s) 108, 369
MboI GATC 2 cut(s) 106, 367
MboII GAAGA 1 cut(s) 173
MluCI AATT 2 cut(s) 70, 332
MlyI GAGTC 1 cut(s) 597
MnlI CCTC 8 cut(s) 40, 43, 88, 181, 230, 349, 442, 491
Mph1103I ATGCAT 1 cut(s) 575
MseI TTAA 3 cut(s) 68, 291, 329
MspI CCGG 4 cut(s) 94, 104, 355, 365
MspR9I CCNGG 3 cut(s) 94, 95, 355
Mva1269I GAATGC 2 cut(s) 202, 463
MwoI GCNNNNNNNGC 6 cut(s) 197, 212, 458, 473, 518, 542
NciI CCSGG 3 cut(s) 94, 95, 355
NdeII GATC 2 cut(s) 106, 367
NlaIII CATG 6 cut(s) 28, 113, 289, 374, 573, 577
NsiI ATGCAT 1 cut(s) 575
NspI RCATGY 3 cut(s) 28, 289, 573
PaeR7I CTCGAG 1 cut(s) 637
PciI ACATGT 2 cut(s) 24, 285
PctI GAATGC 2 cut(s) 202, 463
PfeI GAWTC 2 cut(s) 120, 381
PkrI GCNGC 7 cut(s) 202, 205, 250, 463, 466, 520, 646
PleI GAGTC 1 cut(s) 596
PpsI GAGTC 1 cut(s) 596
PscI ACATGT 2 cut(s) 24, 285
PspPI GGNCC 1 cut(s) 362
PstI CTGCAG 3 cut(s) 205, 466, 649
RsaI GTAC 3 cut(s) 255, 525, 530
RsaNI GTAC 3 cut(s) 254, 524, 529
SaqAI TTAA 3 cut(s) 68, 291, 329
SatI GCNGC 7 cut(s) 201, 204, 249, 462, 465, 519, 645
Sau3AI GATC 2 cut(s) 106, 367
Sau96I GGNCC 1 cut(s) 362
ScaI AGTACT 2 cut(s) 255, 525
SchI GAGTC 1 cut(s) 597
ScrFI CCNGG 3 cut(s) 94, 95, 355
SetI ASST 7 cut(s) 67, 229, 431, 510, 634, 660, 670
SfcI CTRYAG 3 cut(s) 201, 462, 645
Sfr274I CTCGAG 1 cut(s) 637
SinI GGWCC 1 cut(s) 362
SlaI CTCGAG 1 cut(s) 637
SmaI CCCGGG 1 cut(s) 95
SmlI CTYRAG 1 cut(s) 637
SmoI CTYRAG 1 cut(s) 637
Sse9I AATT 2 cut(s) 70, 332
SsiI CCGC 3 cut(s) 249, 519, 621
SspMI CTAG 1 cut(s) 509
StyD4I CCNGG 3 cut(s) 92, 93, 353
TaaI ACNGT 6 cut(s) 133, 275, 394, 487, 528, 533
TaiI ACGT 2 cut(s) 67, 660
TaqI TCGA 5 cut(s) 141, 184, 402, 638, 688
TasI AATT 2 cut(s) 70, 332
TatI WGTACW 3 cut(s) 253, 523, 528
TauI GCSGC 2 cut(s) 251, 521
TfiI GAWTC 2 cut(s) 120, 381
Tru1I TTAA 3 cut(s) 68, 291, 329
Tru9I TTAA 3 cut(s) 68, 291, 329
TscAI CASTG 1 cut(s) 708
TseI GCWGC 5 cut(s) 200, 203, 461, 464, 644
TspDTI ATGAA 2 cut(s) 75, 548
TspMI CCCGGG 1 cut(s) 93
TspRI CASTG 1 cut(s) 708
VpaK11BI GGWCC 1 cut(s) 362
XapI RAATTY 2 cut(s) 70, 332
XceI RCATGY 3 cut(s) 28, 289, 573
XhoI CTCGAG 1 cut(s) 637
XmaI CCCGGG 1 cut(s) 93
XspI CTAG 1 cut(s) 509
ZrmI AGTACT 2 cut(s) 255, 525
Zsp2I ATGCAT 1 cut(s) 575
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.