Rroxscaffold_7G00159910

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0012457
Physical Location & Seq
Forward (+)
2934488 .. 2937585
3098 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00159910.1

Sequence Viewer

Length: 612 bp
ATGGGATCCTTGAATCCCATGCTTCTCAGAGGCGTATCTCTCCTCCGCGTCCGTCTCCACCACCGCCGGCTGGGCTTTGGGTTTGGGATTGCGGCGGCGCCGAGTCGCAGGGCGTGCTGCACCGAGTCGATTCGGGCGGAGGAGGGTAGTTCGTCCTCTGCGGACAACTCCTCGACGCTAAGAGGCGTGCTGAGCGTGAACGAGGCACCCAAGTATCCGCGGTGGGACGACCCTGACTACTGCAAGTGGAAAGATAAGGAAGGCGAGATTCTGAGGGACGTGGAGCCTATAGTTTTGCTTGCCAAAGAGATTCTCCATTCGGATAGGTATATGGATGGTGAGCAGCTAACACTCGAAGATGAAAAAGTTGTGGTGGAAAGGCTTCTGGCGTATCATCCGCATTCCGAAGATAAAATTGGCTGCGGAATTGATTCTATAATGGTTGATCGGCATCCCCAATTCAAACACTCAAGGTGCCTATTTGTCATAAGAACTGATGGTGTCTGGATAGACTTCTCCTACCAGAAGTGTCTTCGAGCATATATCCGAGATAAGTACCCAACCCATGCAGAAAGATTCATTCGAGAACATTTTAAACGTGGTAGTGGCTAA
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

203

Amino Acids

23.34

Weight (kDa)

8.2

Isoelectric Point (pI)

45.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 102 - 178 1.2e-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 3 cut(s) 97, 205, 474
AccII CGCG 2 cut(s) 48, 220
AclWI GGATC 1 cut(s) 13
AcyI GRCGYC 1 cut(s) 98
AfaI GTAC 1 cut(s) 557
AfiI CCNNNNNNNGG 1 cut(s) 70
AgsI TTSAA 2 cut(s) 13, 463
AjiI CACGTC 1 cut(s) 280
AjuI GAANNNNNNNTTGG 2 cut(s) 399, 431
AluBI AGCT 1 cut(s) 346
AluI AGCT 1 cut(s) 346
Alw26I GTCTC 1 cut(s) 59
AlwI GGATC 1 cut(s) 13
ApeKI GCWGC 3 cut(s) 117, 343, 420
Asp700I GAANNNNTTC 2 cut(s) 381, 430
AspLEI GCGC 1 cut(s) 100
AsuHPI GGTGA 1 cut(s) 350
BaeI ACNNNNGTAYC 2 cut(s) 197, 230
BamHI GGATCC 1 cut(s) 5
BanI GGYRCC 3 cut(s) 97, 205, 474
BbsI GAAGAC 1 cut(s) 524
BbvI GCAGC 3 cut(s) 104, 355, 407
BccI CCATC 2 cut(s) 329, 491
BciVI GTATCC 1 cut(s) 225
BcoDI GTCTC 1 cut(s) 59
BfmI CTRYAG 1 cut(s) 288
BfoI RGCGCY 1 cut(s) 101
BfuI GTATCC 1 cut(s) 225
BglI GCCNNNNNGGC 1 cut(s) 72
BisI GCNGC 5 cut(s) 93, 96, 118, 344, 421
BlpI GCTNAGC 1 cut(s) 191
BlsI GCNGC 5 cut(s) 94, 97, 119, 345, 422
BmgBI CACGTC 1 cut(s) 280
BmiI GGNNCC 5 cut(s) 7, 99, 207, 285, 476
BmsI GCATC 1 cut(s) 460
BpiI GAAGAC 1 cut(s) 524
Bpu1102I GCTNAGC 1 cut(s) 191
BpuEI CTTGAG 1 cut(s) 454
BsaBI GATNNNNATC 1 cut(s) 450
BsaHI GRCGYC 1 cut(s) 98
BsaJI CCNNGG 1 cut(s) 218
Bsc4I CCNNNNNNNGG 1 cut(s) 70
Bse118I RCCGGY 1 cut(s) 66
Bse8I GATNNNNATC 1 cut(s) 450
BseDI CCNNGG 1 cut(s) 218
BseGI GGATG 3 cut(s) 340, 394, 451
BseJI GATNNNNATC 1 cut(s) 450
BseLI CCNNNNNNNGG 1 cut(s) 70
BseMII CTCAG 3 cut(s) 40, 182, 263
BseRI GAGGAG 3 cut(s) 32, 155, 160
BseXI GCAGC 3 cut(s) 104, 355, 407
BseYI CCCAGC 1 cut(s) 70
BsgI GTGCAG 1 cut(s) 103
Bsh1236I CGCG 2 cut(s) 48, 220
BshNI GGYRCC 3 cut(s) 97, 205, 474
BsiSI CCGG 1 cut(s) 67
BslFI GGGAC 2 cut(s) 239, 290
BslI CCNNNNNNNGG 1 cut(s) 70
BsmAI GTCTC 1 cut(s) 59
BsmBI CGTCTC 1 cut(s) 59
BsmFI GGGAC 2 cut(s) 239, 290
BsmI GAATGC 1 cut(s) 400
Bsp143I GATC 2 cut(s) 5, 445
Bsp1720I GCTNAGC 1 cut(s) 191
BspCNI CTCAG 3 cut(s) 39, 183, 264
BspFNI CGCG 2 cut(s) 48, 220
BspLI GGNNCC 5 cut(s) 7, 99, 207, 285, 476
BspPI GGATC 1 cut(s) 13
BspT107I GGYRCC 3 cut(s) 97, 205, 474
BsrFI RCCGGY 1 cut(s) 66
BssAI RCCGGY 1 cut(s) 66
BssECI CCNNGG 1 cut(s) 218
BssMI GATC 2 cut(s) 5, 445
BssNI GRCGYC 1 cut(s) 98
BstACI GRCGYC 1 cut(s) 98
BstAPI GCANNNNNTGC 1 cut(s) 114
BstC8I GCNNGC 4 cut(s) 68, 115, 188, 300
BstDEI CTNAG 4 cut(s) 26, 179, 191, 272
BstDSI CCRYGG 1 cut(s) 218
BstF5I GGATG 3 cut(s) 340, 394, 451
BstFNI CGCG 2 cut(s) 48, 220
BstH2I RGCGCY 1 cut(s) 101
BstHHI GCGC 1 cut(s) 100
BstKTI GATC 2 cut(s) 8, 448
BstMAI GTCTC 1 cut(s) 59
BstMBI GATC 2 cut(s) 5, 445
BstMWI GCNNNNNNNGC 3 cut(s) 72, 114, 192
BstSFI CTRYAG 1 cut(s) 288
BstUI CGCG 2 cut(s) 48, 220
BstV1I GCAGC 3 cut(s) 104, 355, 407
BstV2I GAAGAC 1 cut(s) 524
BstX2I RGATCY 1 cut(s) 5
BstYI RGATCY 1 cut(s) 5
BsuI GTATCC 1 cut(s) 225
BtgI CCRYGG 1 cut(s) 218
BtrI CACGTC 1 cut(s) 280
BtsCI GGATG 3 cut(s) 340, 394, 451
Cac8I GCNNGC 4 cut(s) 68, 115, 188, 300
CfoI GCGC 1 cut(s) 100
Cfr10I RCCGGY 1 cut(s) 66
Cfr42I CCGCGG 1 cut(s) 221
CseI GACGC 2 cut(s) 37, 184
Csp6I GTAC 1 cut(s) 556
CviAII CATG 2 cut(s) 19, 566
CviJI RGCY 7 cut(s) 70, 75, 286, 346, 382, 420, 609
CviKI_1 RGCY 7 cut(s) 70, 75, 286, 346, 382, 420, 609
CviQI GTAC 1 cut(s) 556
DdeI CTNAG 4 cut(s) 26, 179, 191, 272
DinI GGCGCC 1 cut(s) 99
DpnI GATC 2 cut(s) 7, 447
DpnII GATC 2 cut(s) 5, 445
DraI TTTAAA 1 cut(s) 595
EciI GGCGGA 1 cut(s) 152
EgeI GGCGCC 1 cut(s) 99
EheI GGCGCC 1 cut(s) 99
Esp3I CGTCTC 1 cut(s) 59
FaeI CATG 2 cut(s) 22, 569
FaiI YATR 9 cut(s) 20, 290, 330, 332, 437, 488, 541, 543, 567
FaqI GGGAC 2 cut(s) 239, 290
FatI CATG 2 cut(s) 18, 565
Fnu4HI GCNGC 5 cut(s) 93, 96, 118, 344, 421
FokI GGATG 3 cut(s) 347, 381, 438
Fsp4HI GCNGC 5 cut(s) 93, 96, 118, 344, 421
GlaI GCGC 1 cut(s) 99
GluI GCNGC 5 cut(s) 93, 96, 118, 344, 421
GsaI CCCAGC 1 cut(s) 74
HaeII RGCGCY 1 cut(s) 101
HapII CCGG 1 cut(s) 67
HgaI GACGC 2 cut(s) 37, 184
HhaI GCGC 1 cut(s) 100
Hin1I GRCGYC 1 cut(s) 98
Hin1II CATG 2 cut(s) 22, 569
Hin6I GCGC 1 cut(s) 98
HinP1I GCGC 1 cut(s) 98
HinfI GANTC 8 cut(s) 13, 103, 125, 130, 268, 310, 431, 576
HpaII CCGG 1 cut(s) 67
HphI GGTGA 1 cut(s) 350
Hpy166II GTNNAC 1 cut(s) 199
Hpy188I TCNGA 5 cut(s) 29, 273, 322, 406, 548
Hpy188III TCNNGA 2 cut(s) 505, 584
Hpy8I GTNNAC 1 cut(s) 199
Hpy99I CGWCG 1 cut(s) 178
HpyAV CCTTC 1 cut(s) 254
HpyCH4IV ACGT 2 cut(s) 279, 598
HpyCH4V TGCA 3 cut(s) 120, 243, 569
HpyF10VI GCNNNNNNNGC 3 cut(s) 72, 114, 192
HpyF3I CTNAG 4 cut(s) 26, 179, 191, 272
HpySE526I ACGT 2 cut(s) 279, 598
Hsp92I GRCGYC 1 cut(s) 98
Hsp92II CATG 2 cut(s) 22, 569
HspAI GCGC 1 cut(s) 98
KasI GGCGCC 1 cut(s) 97
KroI GCCGGC 1 cut(s) 66
KroNI GCCGGC 1 cut(s) 68
KspI CCGCGG 1 cut(s) 221
Kzo9I GATC 2 cut(s) 5, 445
LmnI GCTCC 1 cut(s) 283
LpnPI CCDG 7 cut(s) 56, 80, 94, 246, 371, 490, 536
Lsp1109I GCAGC 3 cut(s) 104, 355, 407
LweI GCATC 1 cut(s) 460
MaeII ACGT 2 cut(s) 279, 598
MalI GATC 2 cut(s) 7, 447
MboI GATC 2 cut(s) 5, 445
MboII GAAGA 3 cut(s) 368, 419, 524
MflI RGATCY 1 cut(s) 5
MluCI AATT 3 cut(s) 414, 426, 458
Mly113I GGCGCC 1 cut(s) 98
MlyI GAGTC 2 cut(s) 112, 134
MnlI CCTC 9 cut(s) 23, 53, 133, 136, 166, 176, 181, 196, 267
MroNI GCCGGC 1 cut(s) 66
MroXI GAANNNNTTC 2 cut(s) 381, 430
MseI TTAA 1 cut(s) 594
MspA1I CMGCKG 1 cut(s) 220
MspI CCGG 1 cut(s) 67
Mva1269I GAATGC 1 cut(s) 400
MvnI CGCG 2 cut(s) 48, 220
MwoI GCNNNNNNNGC 3 cut(s) 72, 114, 192
NaeI GCCGGC 1 cut(s) 68
NarI GGCGCC 1 cut(s) 98
NdeII GATC 2 cut(s) 5, 445
NgoMIV GCCGGC 1 cut(s) 66
NlaIII CATG 2 cut(s) 22, 569
NlaIV GGNNCC 5 cut(s) 7, 99, 207, 285, 476
NmeAIII GCCGAG 1 cut(s) 126
PctI GAATGC 1 cut(s) 400
PdiI GCCGGC 1 cut(s) 68
PdmI GAANNNNTTC 2 cut(s) 381, 430
PfeI GAWTC 6 cut(s) 13, 130, 268, 310, 431, 576
PkrI GCNGC 5 cut(s) 94, 97, 119, 345, 422
PleI GAGTC 2 cut(s) 111, 133
PluTI GGCGCC 1 cut(s) 101
PpsI GAGTC 2 cut(s) 111, 133
PspFI CCCAGC 1 cut(s) 70
PspN4I GGNNCC 5 cut(s) 7, 99, 207, 285, 476
PsuI RGATCY 1 cut(s) 5
RsaI GTAC 1 cut(s) 557
RsaNI GTAC 1 cut(s) 556
SacII CCGCGG 1 cut(s) 221
SaqAI TTAA 1 cut(s) 594
SatI GCNGC 5 cut(s) 93, 96, 118, 344, 421
Sau3AI GATC 2 cut(s) 5, 445
SchI GAGTC 2 cut(s) 112, 134
SetI ASST 5 cut(s) 282, 329, 348, 476, 601
SfaNI GCATC 1 cut(s) 460
SfcI CTRYAG 1 cut(s) 288
SfoI GGCGCC 1 cut(s) 99
Sfr303I CCGCGG 1 cut(s) 221
SgrBI CCGCGG 1 cut(s) 221
SmlI CTYRAG 1 cut(s) 469
SmoI CTYRAG 1 cut(s) 469
Sse9I AATT 3 cut(s) 414, 426, 458
SspDI GGCGCC 1 cut(s) 97
TaiI ACGT 2 cut(s) 282, 601
TaqI TCGA 5 cut(s) 128, 173, 354, 535, 583
TasI AATT 3 cut(s) 414, 426, 458
TauI GCSGC 2 cut(s) 95, 98
TfiI GAWTC 6 cut(s) 13, 130, 268, 310, 431, 576
Tru1I TTAA 1 cut(s) 594
Tru9I TTAA 1 cut(s) 594
TseI GCWGC 3 cut(s) 117, 343, 420
TspDTI ATGAA 2 cut(s) 375, 568
TspGWI ACGGA 1 cut(s) 41
XmnI GAANNNNTTC 2 cut(s) 381, 430
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.