Rmu_sc0004046.1_g000005

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004046.1
OG0012457
Physical Location & Seq
Reverse (-)
32925 .. 35820
2896 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 648 bp
atggtccacgatactcctccgccaaacaaattaagagtgattgcggaaatgggatccttgaatcctatgcttctcagaggcgtatctctcctccgcgtccgtctccaccgccaccaccggctggggtttgggattgcggcagcgccgagtcgcagggcgtgctgcaccgagtcgattggggcggaggagagtagttcggacaactcctcgacgctaagaggcgtgctgagcgtgaacgaggcacccaagtatccgcggtgggacgacccggactactgcaagtggaaagataaggaaggcgagattctgagggacgtggagcctgtagttttgcttgccaaagagattctccattcggataggtatatggatggtgagcagctaacagttgaagatgaaaaagttgtggtggaaaggcttctggcgtatcatccgcattccgaagataaaattggctgcggaattgattctataatggttgatcggcatccccaattcaaacactcaaggtgcttatttgtcataagaactgatggtgtatggatagacttctcctaccagaagtgtcttcgagcatatatccgagataagtacccaacccatgcagaaagattcattcgagaacattttaaacgtggtagtggctaa
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
DUF3223

Protein Analysis

215

Amino Acids

24.73

Weight (kDa)

7.7

Isoelectric Point (pI)

45.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 114 - 190 1.7e-31 Protein of unknown function (DUF3223)
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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Orthologous Genes (Group: OG0012457)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G46630
fragaria_vesca FvH4_2g33750
malus_domestica MD08G1093000.v1.1 MD08G1093500.v1.1 MD15G1077200.v1.1
prunus_persica Prupe.1G430600_v2.0.a1
pyrus_communis pycom08g07580 pycom08g07600 pycom15g07190
rosa_chinensis RchiOBHm_Chr6g0308801
rosa_laevigata RLG00000010617
rosa_multiflora Rmu_sc0004046.1_g000005
rosa_roxburghii Rroxscaffold_7G00159910
rosa_rugosa Rorug06G0368300
rosa_samantha Rh6AG479600 Rh6BG489100 Rh6CG494600 Rh6DG479900
rosa_wichuraiana Rw6G041810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 241
AccB7I CCANNNNNTGG 1 cut(s) 121
AccII CGCG 2 cut(s) 96, 256
AclWI GGATC 2 cut(s) 48, 61
AfaI GTAC 1 cut(s) 593
AfiI CCNNNNNNNGG 1 cut(s) 121
AgsI TTSAA 3 cut(s) 61, 392, 499
AjiI CACGTC 1 cut(s) 316
AjuI GAANNNNNNNTTGG 2 cut(s) 435, 467
AluBI AGCT 1 cut(s) 382
AluI AGCT 1 cut(s) 382
Alw26I GTCTC 1 cut(s) 107
AlwI GGATC 2 cut(s) 48, 61
ApeKI GCWGC 4 cut(s) 140, 162, 379, 456
Asp700I GAANNNNTTC 2 cut(s) 417, 466
AspLEI GCGC 1 cut(s) 145
AspS9I GGNCC 1 cut(s) 4
AsuC2I CCSGG 1 cut(s) 269
AsuHPI GGTGA 1 cut(s) 386
AvaII GGWCC 1 cut(s) 4
BaeI ACNNNNGTAYC 2 cut(s) 233, 266
BamHI GGATCC 1 cut(s) 53
BanI GGYRCC 1 cut(s) 241
BbsI GAAGAC 1 cut(s) 560
BbvI GCAGC 4 cut(s) 149, 152, 391, 443
BccI CCATC 2 cut(s) 365, 527
BciVI GTATCC 1 cut(s) 261
BcnI CCSGG 1 cut(s) 269
BcoDI GTCTC 1 cut(s) 107
BfmI CTRYAG 1 cut(s) 324
BfoI RGCGCY 1 cut(s) 146
BfuI GTATCC 1 cut(s) 261
BisI GCNGC 5 cut(s) 138, 141, 163, 380, 457
BlpI GCTNAGC 1 cut(s) 227
BlsI GCNGC 5 cut(s) 139, 142, 164, 381, 458
Bme1390I CCNGG 1 cut(s) 269
Bme18I GGWCC 1 cut(s) 4
BmgBI CACGTC 1 cut(s) 316
BmgT120I GGNCC 1 cut(s) 4
BmiI GGNNCC 3 cut(s) 55, 243, 321
BmrFI CCNGG 1 cut(s) 269
BmsI GCATC 1 cut(s) 496
BpiI GAAGAC 1 cut(s) 560
Bpu1102I GCTNAGC 1 cut(s) 227
BpuEI CTTGAG 1 cut(s) 490
BpuMI CCSGG 1 cut(s) 269
BsaBI GATNNNNATC 1 cut(s) 486
BsaJI CCNNGG 1 cut(s) 254
Bsc4I CCNNNNNNNGG 1 cut(s) 121
Bse118I RCCGGY 1 cut(s) 117
Bse8I GATNNNNATC 1 cut(s) 486
BseDI CCNNGG 1 cut(s) 254
BseGI GGATG 3 cut(s) 376, 430, 487
BseJI GATNNNNATC 1 cut(s) 486
BseLI CCNNNNNNNGG 1 cut(s) 121
BseMII CTCAG 3 cut(s) 88, 218, 299
BseRI GAGGAG 4 cut(s) 6, 80, 196, 200
BseXI GCAGC 4 cut(s) 149, 152, 391, 443
BseYI CCCAGC 1 cut(s) 121
BsgI GTGCAG 1 cut(s) 148
Bsh1236I CGCG 2 cut(s) 96, 256
BshNI GGYRCC 1 cut(s) 241
BsiSI CCGG 2 cut(s) 118, 269
BslFI GGGAC 2 cut(s) 275, 326
BslI CCNNNNNNNGG 1 cut(s) 121
BsmAI GTCTC 1 cut(s) 107
BsmBI CGTCTC 1 cut(s) 107
BsmFI GGGAC 2 cut(s) 275, 326
BsmI GAATGC 1 cut(s) 436
Bsp143I GATC 2 cut(s) 53, 481
Bsp1720I GCTNAGC 1 cut(s) 227
BspCNI CTCAG 3 cut(s) 87, 219, 300
BspFNI CGCG 2 cut(s) 96, 256
BspLI GGNNCC 3 cut(s) 55, 243, 321
BspPI GGATC 2 cut(s) 48, 61
BspT107I GGYRCC 1 cut(s) 241
BsrFI RCCGGY 1 cut(s) 117
BssAI RCCGGY 1 cut(s) 117
BssECI CCNNGG 1 cut(s) 254
BssMI GATC 2 cut(s) 53, 481
Bst4CI ACNGT 1 cut(s) 388
BstAPI GCANNNNNTGC 1 cut(s) 159
BstC8I GCNNGC 3 cut(s) 160, 224, 336
BstDEI CTNAG 4 cut(s) 74, 215, 227, 308
BstDSI CCRYGG 1 cut(s) 254
BstF5I GGATG 3 cut(s) 376, 430, 487
BstFNI CGCG 2 cut(s) 96, 256
BstH2I RGCGCY 1 cut(s) 146
BstHHI GCGC 1 cut(s) 145
BstKTI GATC 2 cut(s) 56, 484
BstMAI GTCTC 1 cut(s) 107
BstMBI GATC 2 cut(s) 53, 481
BstMWI GCNNNNNNNGC 2 cut(s) 159, 228
BstSCI CCNGG 1 cut(s) 267
BstSFI CTRYAG 1 cut(s) 324
BstUI CGCG 2 cut(s) 96, 256
BstV1I GCAGC 4 cut(s) 149, 152, 391, 443
BstV2I GAAGAC 1 cut(s) 560
BstX2I RGATCY 1 cut(s) 53
BstYI RGATCY 1 cut(s) 53
BsuI GTATCC 1 cut(s) 261
BtgI CCRYGG 1 cut(s) 254
BtrI CACGTC 1 cut(s) 316
BtsCI GGATG 3 cut(s) 376, 430, 487
Cac8I GCNNGC 3 cut(s) 160, 224, 336
CfoI GCGC 1 cut(s) 145
Cfr10I RCCGGY 1 cut(s) 117
Cfr13I GGNCC 1 cut(s) 4
Cfr42I CCGCGG 1 cut(s) 257
CseI GACGC 2 cut(s) 85, 220
Csp6I GTAC 1 cut(s) 592
CviAII CATG 1 cut(s) 602
CviJI RGCY 6 cut(s) 121, 322, 382, 418, 456, 645
CviKI_1 RGCY 6 cut(s) 121, 322, 382, 418, 456, 645
CviQI GTAC 1 cut(s) 592
DdeI CTNAG 4 cut(s) 74, 215, 227, 308
DpnI GATC 2 cut(s) 55, 483
DpnII GATC 2 cut(s) 53, 481
DraI TTTAAA 1 cut(s) 631
EciI GGCGGA 2 cut(s) 9, 197
Eco47I GGWCC 1 cut(s) 4
Esp3I CGTCTC 1 cut(s) 107
FaeI CATG 1 cut(s) 605
FaiI YATR 9 cut(s) 68, 366, 368, 473, 524, 541, 577, 579, 603
FaqI GGGAC 2 cut(s) 275, 326
FatI CATG 1 cut(s) 601
Fnu4HI GCNGC 5 cut(s) 138, 141, 163, 380, 457
FokI GGATG 3 cut(s) 383, 417, 474
Fsp4HI GCNGC 5 cut(s) 138, 141, 163, 380, 457
GlaI GCGC 1 cut(s) 144
GluI GCNGC 5 cut(s) 138, 141, 163, 380, 457
GsaI CCCAGC 1 cut(s) 125
HaeII RGCGCY 1 cut(s) 146
HapII CCGG 2 cut(s) 118, 269
HgaI GACGC 2 cut(s) 85, 220
HhaI GCGC 1 cut(s) 145
Hin1II CATG 1 cut(s) 605
Hin6I GCGC 1 cut(s) 143
HinP1I GCGC 1 cut(s) 143
HinfI GANTC 7 cut(s) 61, 148, 170, 304, 346, 467, 612
HpaII CCGG 2 cut(s) 118, 269
HphI GGTGA 1 cut(s) 386
Hpy166II GTNNAC 2 cut(s) 7, 235
Hpy188I TCNGA 6 cut(s) 77, 199, 309, 358, 442, 584
Hpy188III TCNNGA 1 cut(s) 620
Hpy8I GTNNAC 2 cut(s) 7, 235
Hpy99I CGWCG 1 cut(s) 214
HpyAV CCTTC 1 cut(s) 290
HpyCH4III ACNGT 1 cut(s) 388
HpyCH4IV ACGT 2 cut(s) 315, 634
HpyCH4V TGCA 3 cut(s) 165, 279, 605
HpyF10VI GCNNNNNNNGC 2 cut(s) 159, 228
HpyF3I CTNAG 4 cut(s) 74, 215, 227, 308
HpySE526I ACGT 2 cut(s) 315, 634
Hsp92II CATG 1 cut(s) 605
HspAI GCGC 1 cut(s) 143
KspI CCGCGG 1 cut(s) 257
Kzo9I GATC 2 cut(s) 53, 481
LmnI GCTCC 1 cut(s) 319
LpnPI CCDG 7 cut(s) 107, 131, 139, 282, 336, 407, 572
Lsp1109I GCAGC 4 cut(s) 149, 152, 391, 443
LweI GCATC 1 cut(s) 496
MaeII ACGT 2 cut(s) 315, 634
MalI GATC 2 cut(s) 55, 483
MboI GATC 2 cut(s) 53, 481
MboII GAAGA 3 cut(s) 404, 455, 560
MflI RGATCY 1 cut(s) 53
MluCI AATT 4 cut(s) 29, 450, 462, 494
MlyI GAGTC 2 cut(s) 157, 179
MnlI CCTC 8 cut(s) 27, 71, 101, 178, 212, 217, 232, 303
MroXI GAANNNNTTC 2 cut(s) 417, 466
MseI TTAA 2 cut(s) 32, 630
MspA1I CMGCKG 1 cut(s) 256
MspI CCGG 2 cut(s) 118, 269
MspR9I CCNGG 1 cut(s) 269
Mva1269I GAATGC 1 cut(s) 436
MvnI CGCG 2 cut(s) 96, 256
MwoI GCNNNNNNNGC 2 cut(s) 159, 228
NciI CCSGG 1 cut(s) 269
NdeII GATC 2 cut(s) 53, 481
NlaIII CATG 1 cut(s) 605
NlaIV GGNNCC 3 cut(s) 55, 243, 321
NmeAIII GCCGAG 1 cut(s) 171
PctI GAATGC 1 cut(s) 436
PdmI GAANNNNTTC 2 cut(s) 417, 466
PfeI GAWTC 5 cut(s) 61, 304, 346, 467, 612
PflMI CCANNNNNTGG 1 cut(s) 121
PkrI GCNGC 5 cut(s) 139, 142, 164, 381, 458
PleI GAGTC 2 cut(s) 156, 178
PpsI GAGTC 2 cut(s) 156, 178
PspFI CCCAGC 1 cut(s) 121
PspN4I GGNNCC 3 cut(s) 55, 243, 321
PspPI GGNCC 1 cut(s) 4
PsuI RGATCY 1 cut(s) 53
RsaI GTAC 1 cut(s) 593
RsaNI GTAC 1 cut(s) 592
SacII CCGCGG 1 cut(s) 257
SaqAI TTAA 2 cut(s) 32, 630
SatI GCNGC 5 cut(s) 138, 141, 163, 380, 457
Sau3AI GATC 2 cut(s) 53, 481
Sau96I GGNCC 1 cut(s) 4
SchI GAGTC 2 cut(s) 157, 179
ScrFI CCNGG 1 cut(s) 269
SetI ASST 5 cut(s) 318, 365, 384, 512, 637
SfaNI GCATC 1 cut(s) 496
SfcI CTRYAG 1 cut(s) 324
Sfr303I CCGCGG 1 cut(s) 257
SgrBI CCGCGG 1 cut(s) 257
SinI GGWCC 1 cut(s) 4
SmlI CTYRAG 1 cut(s) 505
SmoI CTYRAG 1 cut(s) 505
Sse9I AATT 4 cut(s) 29, 450, 462, 494
StyD4I CCNGG 1 cut(s) 267
TaaI ACNGT 1 cut(s) 388
TaiI ACGT 2 cut(s) 318, 637
TaqI TCGA 4 cut(s) 173, 209, 571, 619
TasI AATT 4 cut(s) 29, 450, 462, 494
TauI GCSGC 1 cut(s) 140
TfiI GAWTC 5 cut(s) 61, 304, 346, 467, 612
Tru1I TTAA 2 cut(s) 32, 630
Tru9I TTAA 2 cut(s) 32, 630
TseI GCWGC 4 cut(s) 140, 162, 379, 456
TspDTI ATGAA 2 cut(s) 411, 604
TspGWI ACGGA 1 cut(s) 89
Van91I CCANNNNNTGG 1 cut(s) 121
VpaK11BI GGWCC 1 cut(s) 4
XmnI GAANNNNTTC 2 cut(s) 417, 466
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.