Rh6DG479900

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0012457
Physical Location & Seq
Reverse (-)
64471461 .. 64474483
3023 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG479900.1

Sequence Viewer

Length: 798 bp
ATGGCCCATTTTCAATATTTGGGCCTAGCAAGCTTCATGGGCCTTAAGATTTTCAGAACAAATCAAAATCAAACCGCGAGAACCCCGACTCACGCGCTAGTCAGTAGTCACTACCATGATCCACGATACTCCCTCCTCCGCCAAACAAAGACTGAGCGACTGATTGCCGATATGGGATCCTTGAATCCTATGCTTCTCAGAGGCGTATCTCTCCTCCGCGTCCGTCTCCACCACCACCACCACCGGCTGGGCTTTGGGTTTGGGATTGGGATTGCGGCGGCGCCGAGTCGCAGGGCGTGCTGCACCGAGTCGATTCGGGCGGAGGAGAGTAGTTCGTCCTCTGGGGACAACTCCTCCTCGACGCTAAGAGGCGTGCTGAGCGTGAACGAGGCACCCAAGTATCCGCGGTGGGACGACCCTGACTACTGCAAGTGGAAAGATAAGGAAGGCGAGATTCTGAGGGACGTGGAGCCTATAGTTTTGCTTGCCAAAGAGATTCTCCATTCGGATAGGTATATGGATGGTGAGCAGCTAACACTTGAAGATGAAAAAGTTGTGGTGGAAAGGCTTCTGGCGTATCATCCGCATTCCGAAGATAAAATTGGCTGCGGAATTGATTCTATAATGGTTGATCGGCATCCCCAATTCAAACACTCAAGGTGCCTATTTGTCATAAGAACTGATAGTGTATGGATAGACTTCTCCTACCAGAAGTGTCTTCGAGCATATATCCGAGATAAGTACCCAACCCATGCAGAAAGATTCATTCGAGAACATTTTAAACGTGGTAGTGGCTAA
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

265

Amino Acids

30.52

Weight (kDa)

8.85

Isoelectric Point (pI)

39.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 164 - 240 5.1e-30 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 3 cut(s) 280, 391, 660
AccB7I CCANNNNNTGG 1 cut(s) 247
AccII CGCG 4 cut(s) 77, 95, 219, 406
AclWI GGATC 3 cut(s) 113, 171, 184
AcyI GRCGYC 1 cut(s) 281
AfaI GTAC 1 cut(s) 743
AfiI CCNNNNNNNGG 1 cut(s) 247
AflII CTTAAG 1 cut(s) 44
AgsI TTSAA 4 cut(s) 14, 184, 542, 649
AjiI CACGTC 1 cut(s) 466
AjuI GAANNNNNNNTTGG 2 cut(s) 585, 617
AluBI AGCT 2 cut(s) 33, 532
AluI AGCT 2 cut(s) 33, 532
Alw26I GTCTC 1 cut(s) 230
AlwI GGATC 3 cut(s) 113, 171, 184
AoxI GGCC 3 cut(s) 3, 22, 40
ApeKI GCWGC 3 cut(s) 300, 529, 606
Asp700I GAANNNNTTC 2 cut(s) 567, 616
AspLEI GCGC 2 cut(s) 97, 283
AspS9I GGNCC 3 cut(s) 4, 22, 40
AsuHPI GGTGA 1 cut(s) 536
BaeI ACNNNNGTAYC 2 cut(s) 383, 416
BamHI GGATCC 1 cut(s) 176
BanI GGYRCC 3 cut(s) 280, 391, 660
BbsI GAAGAC 1 cut(s) 710
BbvI GCAGC 3 cut(s) 287, 541, 593
BccI CCATC 1 cut(s) 515
BciVI GTATCC 1 cut(s) 411
BcoDI GTCTC 1 cut(s) 230
BfaI CTAG 2 cut(s) 26, 98
BfmI CTRYAG 1 cut(s) 474
BfoI RGCGCY 1 cut(s) 284
BfrI CTTAAG 1 cut(s) 44
BfuI GTATCC 1 cut(s) 411
BisI GCNGC 5 cut(s) 276, 279, 301, 530, 607
BlpI GCTNAGC 1 cut(s) 377
BlsI GCNGC 5 cut(s) 277, 280, 302, 531, 608
BmgBI CACGTC 1 cut(s) 466
BmgT120I GGNCC 3 cut(s) 4, 22, 40
BmiI GGNNCC 5 cut(s) 178, 282, 393, 471, 662
BmsI GCATC 1 cut(s) 646
BpiI GAAGAC 1 cut(s) 710
Bpu1102I GCTNAGC 1 cut(s) 377
BpuEI CTTGAG 1 cut(s) 640
BsaBI GATNNNNATC 1 cut(s) 636
BsaHI GRCGYC 1 cut(s) 281
BsaJI CCNNGG 1 cut(s) 404
BsaXI ACNNNNNCTCC 2 cut(s) 338, 368
Bsc4I CCNNNNNNNGG 1 cut(s) 247
Bse118I RCCGGY 1 cut(s) 243
Bse8I GATNNNNATC 1 cut(s) 636
BseDI CCNNGG 1 cut(s) 404
BseGI GGATG 3 cut(s) 526, 580, 637
BseJI GATNNNNATC 1 cut(s) 636
BseLI CCNNNNNNNGG 1 cut(s) 247
BseMII CTCAG 4 cut(s) 144, 211, 368, 449
BseRI GAGGAG 5 cut(s) 125, 203, 338, 343, 346
BseXI GCAGC 3 cut(s) 287, 541, 593
BseYI CCCAGC 1 cut(s) 247
BsgI GTGCAG 1 cut(s) 286
Bsh1236I CGCG 4 cut(s) 77, 95, 219, 406
BshFI GGCC 3 cut(s) 5, 24, 42
BshNI GGYRCC 3 cut(s) 280, 391, 660
BsiSI CCGG 1 cut(s) 244
BslFI GGGAC 3 cut(s) 359, 425, 476
BslI CCNNNNNNNGG 1 cut(s) 247
BsmAI GTCTC 1 cut(s) 230
BsmBI CGTCTC 1 cut(s) 230
BsmFI GGGAC 3 cut(s) 359, 425, 476
BsmI GAATGC 1 cut(s) 586
BsnI GGCC 3 cut(s) 5, 24, 42
Bsp143I GATC 3 cut(s) 118, 176, 631
Bsp1720I GCTNAGC 1 cut(s) 377
BspANI GGCC 3 cut(s) 5, 24, 42
BspCNI CTCAG 4 cut(s) 145, 210, 369, 450
BspFNI CGCG 4 cut(s) 77, 95, 219, 406
BspLI GGNNCC 5 cut(s) 178, 282, 393, 471, 662
BspPI GGATC 3 cut(s) 113, 171, 184
BspT107I GGYRCC 3 cut(s) 280, 391, 660
BspTI CTTAAG 1 cut(s) 44
BsrFI RCCGGY 1 cut(s) 243
BssAI RCCGGY 1 cut(s) 243
BssECI CCNNGG 1 cut(s) 404
BssMI GATC 3 cut(s) 118, 176, 631
BssNI GRCGYC 1 cut(s) 281
BstACI GRCGYC 1 cut(s) 281
BstAFI CTTAAG 1 cut(s) 44
BstAPI GCANNNNNTGC 1 cut(s) 297
BstC8I GCNNGC 4 cut(s) 31, 298, 374, 486
BstDEI CTNAG 5 cut(s) 153, 197, 365, 377, 458
BstDSI CCRYGG 1 cut(s) 404
BstF5I GGATG 3 cut(s) 526, 580, 637
BstFNI CGCG 4 cut(s) 77, 95, 219, 406
BstH2I RGCGCY 1 cut(s) 284
BstHHI GCGC 2 cut(s) 97, 283
BstKTI GATC 3 cut(s) 121, 179, 634
BstMAI GTCTC 1 cut(s) 230
BstMBI GATC 3 cut(s) 118, 176, 631
BstMWI GCNNNNNNNGC 4 cut(s) 30, 39, 297, 378
BstSFI CTRYAG 1 cut(s) 474
BstUI CGCG 4 cut(s) 77, 95, 219, 406
BstV1I GCAGC 3 cut(s) 287, 541, 593
BstV2I GAAGAC 1 cut(s) 710
BstX2I RGATCY 1 cut(s) 176
BstYI RGATCY 1 cut(s) 176
BsuI GTATCC 1 cut(s) 411
BsuRI GGCC 3 cut(s) 5, 24, 42
BtgI CCRYGG 1 cut(s) 404
BtrI CACGTC 1 cut(s) 466
BtsCI GGATG 3 cut(s) 526, 580, 637
Cac8I GCNNGC 4 cut(s) 31, 298, 374, 486
CfoI GCGC 2 cut(s) 97, 283
Cfr10I RCCGGY 1 cut(s) 243
Cfr13I GGNCC 3 cut(s) 4, 22, 40
Cfr42I CCGCGG 1 cut(s) 407
CseI GACGC 2 cut(s) 208, 370
Csp6I GTAC 1 cut(s) 742
CviAII CATG 3 cut(s) 37, 116, 752
CviQI GTAC 1 cut(s) 742
DdeI CTNAG 5 cut(s) 153, 197, 365, 377, 458
DinI GGCGCC 1 cut(s) 282
DpnI GATC 3 cut(s) 120, 178, 633
DpnII GATC 3 cut(s) 118, 176, 631
DraI TTTAAA 1 cut(s) 781
EciI GGCGGA 2 cut(s) 128, 335
EgeI GGCGCC 1 cut(s) 282
EheI GGCGCC 1 cut(s) 282
Esp3I CGTCTC 1 cut(s) 230
FaeI CATG 3 cut(s) 40, 119, 755
FaqI GGGAC 3 cut(s) 359, 425, 476
FatI CATG 3 cut(s) 36, 115, 751
Fnu4HI GCNGC 5 cut(s) 276, 279, 301, 530, 607
FokI GGATG 3 cut(s) 533, 567, 624
Fsp4HI GCNGC 5 cut(s) 276, 279, 301, 530, 607
FspBI CTAG 2 cut(s) 26, 98
GlaI GCGC 2 cut(s) 96, 282
GluI GCNGC 5 cut(s) 276, 279, 301, 530, 607
GsaI CCCAGC 1 cut(s) 251
HaeII RGCGCY 1 cut(s) 284
HaeIII GGCC 3 cut(s) 5, 24, 42
HapII CCGG 1 cut(s) 244
HgaI GACGC 2 cut(s) 208, 370
HhaI GCGC 2 cut(s) 97, 283
Hin1I GRCGYC 1 cut(s) 281
Hin1II CATG 3 cut(s) 40, 119, 755
Hin6I GCGC 2 cut(s) 95, 281
HinP1I GCGC 2 cut(s) 95, 281
HindIII AAGCTT 1 cut(s) 31
HinfI GANTC 9 cut(s) 88, 184, 286, 308, 313, 454, 496, 617, 762
HpaII CCGG 1 cut(s) 244
HphI GGTGA 1 cut(s) 536
Hpy166II GTNNAC 1 cut(s) 385
Hpy188I TCNGA 6 cut(s) 56, 200, 459, 508, 592, 734
Hpy188III TCNNGA 1 cut(s) 770
Hpy8I GTNNAC 1 cut(s) 385
Hpy99I CGWCG 1 cut(s) 364
HpyAV CCTTC 1 cut(s) 440
HpyCH4IV ACGT 2 cut(s) 465, 784
HpyCH4V TGCA 3 cut(s) 303, 429, 755
HpyF10VI GCNNNNNNNGC 4 cut(s) 30, 39, 297, 378
HpyF3I CTNAG 5 cut(s) 153, 197, 365, 377, 458
HpySE526I ACGT 2 cut(s) 465, 784
Hsp92I GRCGYC 1 cut(s) 281
Hsp92II CATG 3 cut(s) 40, 119, 755
HspAI GCGC 2 cut(s) 95, 281
KasI GGCGCC 1 cut(s) 280
KspI CCGCGG 1 cut(s) 407
Kzo9I GATC 3 cut(s) 118, 176, 631
LmnI GCTCC 1 cut(s) 469
LpnPI CCDG 7 cut(s) 233, 257, 277, 327, 432, 557, 722
Lsp1109I GCAGC 3 cut(s) 287, 541, 593
LweI GCATC 1 cut(s) 646
MaeI CTAG 2 cut(s) 26, 98
MaeII ACGT 2 cut(s) 465, 784
MaeIII GTNAC 1 cut(s) 107
MalI GATC 3 cut(s) 120, 178, 633
MboI GATC 3 cut(s) 118, 176, 631
MboII GAAGA 3 cut(s) 554, 605, 710
MflI RGATCY 1 cut(s) 176
MluCI AATT 3 cut(s) 600, 612, 644
Mly113I GGCGCC 1 cut(s) 281
MlyI GAGTC 3 cut(s) 82, 295, 317
MroXI GAANNNNTTC 2 cut(s) 567, 616
MseI TTAA 2 cut(s) 45, 780
MslI CAYNNNNRTG 1 cut(s) 114
MspA1I CMGCKG 1 cut(s) 406
MspCI CTTAAG 1 cut(s) 44
MspI CCGG 1 cut(s) 244
Mva1269I GAATGC 1 cut(s) 586
MvnI CGCG 4 cut(s) 77, 95, 219, 406
MwoI GCNNNNNNNGC 4 cut(s) 30, 39, 297, 378
NarI GGCGCC 1 cut(s) 281
NdeII GATC 3 cut(s) 118, 176, 631
NlaIII CATG 3 cut(s) 40, 119, 755
NlaIV GGNNCC 5 cut(s) 178, 282, 393, 471, 662
NmeAIII GCCGAG 1 cut(s) 309
NmuCI GTSAC 1 cut(s) 107
PctI GAATGC 1 cut(s) 586
PdmI GAANNNNTTC 2 cut(s) 567, 616
PfeI GAWTC 6 cut(s) 184, 313, 454, 496, 617, 762
PflMI CCANNNNNTGG 1 cut(s) 247
PkrI GCNGC 5 cut(s) 277, 280, 302, 531, 608
PleI GAGTC 3 cut(s) 82, 294, 316
PluTI GGCGCC 1 cut(s) 284
PpsI GAGTC 3 cut(s) 82, 294, 316
PspFI CCCAGC 1 cut(s) 247
PspN4I GGNNCC 5 cut(s) 178, 282, 393, 471, 662
PspPI GGNCC 3 cut(s) 4, 22, 40
PsuI RGATCY 1 cut(s) 176
RsaI GTAC 1 cut(s) 743
RsaNI GTAC 1 cut(s) 742
RseI CAYNNNNRTG 1 cut(s) 114
SacII CCGCGG 1 cut(s) 407
SaqAI TTAA 2 cut(s) 45, 780
SatI GCNGC 5 cut(s) 276, 279, 301, 530, 607
Sau3AI GATC 3 cut(s) 118, 176, 631
Sau96I GGNCC 3 cut(s) 4, 22, 40
SchI GAGTC 3 cut(s) 82, 295, 317
SetI ASST 6 cut(s) 35, 468, 515, 534, 662, 787
SfaNI GCATC 1 cut(s) 646
SfcI CTRYAG 1 cut(s) 474
SfoI GGCGCC 1 cut(s) 282
Sfr303I CCGCGG 1 cut(s) 407
SgrBI CCGCGG 1 cut(s) 407
SmiMI CAYNNNNRTG 1 cut(s) 114
SmlI CTYRAG 2 cut(s) 44, 655
SmoI CTYRAG 2 cut(s) 44, 655
Sse9I AATT 3 cut(s) 600, 612, 644
SspDI GGCGCC 1 cut(s) 280
SspI AATATT 1 cut(s) 17
SspMI CTAG 2 cut(s) 26, 98
TaiI ACGT 2 cut(s) 468, 787
TaqI TCGA 4 cut(s) 311, 359, 721, 769
TasI AATT 3 cut(s) 600, 612, 644
TauI GCSGC 2 cut(s) 278, 281
TfiI GAWTC 6 cut(s) 184, 313, 454, 496, 617, 762
Tru1I TTAA 2 cut(s) 45, 780
Tru9I TTAA 2 cut(s) 45, 780
TseFI GTSAC 1 cut(s) 107
TseI GCWGC 3 cut(s) 300, 529, 606
Tsp45I GTSAC 1 cut(s) 107
TspDTI ATGAA 3 cut(s) 25, 561, 754
TspGWI ACGGA 1 cut(s) 212
Van91I CCANNNNNTGG 1 cut(s) 247
Vha464I CTTAAG 1 cut(s) 44
XmnI GAANNNNTTC 2 cut(s) 567, 616
XspI CTAG 2 cut(s) 26, 98
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.