Rh6AG479600

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0012457
Physical Location & Seq
Reverse (-)
66128334 .. 66133311
4978 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG479600.1

Sequence Viewer

Length: 492 bp
ATGGGATCCTTGAATCCTATGCTTCTCAGAGGCGTATCTCTCCTCCGCGTCCGTCTCCACCACCACCACCACCACCGGCTGGGGTTTGGGTTTGGGTTTGGGATTGCGGCGGCGCCGAGTCGCAGGGCGTGCTGCACCGAGTCGATTCGGGCGGAGGAGAGTAGTTCGGACAACTCCTCGACGCTAAGAGGCGTGCTGAGCGTGAACGAGGCACCCAAGTATCCGCGGTGGGACGACCCGGACTACTGCAAGTGGAAAGATAAGGAAGGCGAGATTCTGAGGGACGTGGAGCCTGTAGTTTTGCTTGCCAAAGAGATTCTCCATTCGGATAGGTATATGGATGGCGAGCAGCTAACAGTTGAAGATGAAAAAGTCGTGGTGGAAAGGCTTCTGGCGTATCATCCGCATTCCGAAGATAAAATTGGCTGCGGAATTGATTCTATAATGGTAAGATGCACACTTCACTATTCACTGTCGCACATTCTTTGTTAG
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

163

Amino Acids

18.47

Weight (kDa)

6.24

Isoelectric Point (pI)

58.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 104 - 152 2.5e-13 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 2 cut(s) 112, 211
AccB7I CCANNNNNTGG 1 cut(s) 79
AccII CGCG 2 cut(s) 48, 226
AciI CCGC 8 cut(s) 46, 107, 110, 152, 224, 226, 404, 429
AclWI GGATC 1 cut(s) 13
AcyI GRCGYC 1 cut(s) 113
AfiI CCNNNNNNNGG 1 cut(s) 79
AgsI TTSAA 2 cut(s) 13, 362
AjiI CACGTC 1 cut(s) 286
AjuI GAANNNNNNNTTGG 2 cut(s) 405, 437
AluBI AGCT 1 cut(s) 352
AluI AGCT 1 cut(s) 352
Alw26I GTCTC 1 cut(s) 59
AlwI GGATC 1 cut(s) 13
ApeKI GCWGC 3 cut(s) 132, 349, 426
Asp700I GAANNNNTTC 2 cut(s) 387, 436
AspLEI GCGC 1 cut(s) 115
AsuC2I CCSGG 1 cut(s) 239
BaeI ACNNNNGTAYC 2 cut(s) 203, 236
BamHI GGATCC 1 cut(s) 5
BanI GGYRCC 2 cut(s) 112, 211
BbvI GCAGC 3 cut(s) 119, 361, 413
BccI CCATC 1 cut(s) 335
BciVI GTATCC 1 cut(s) 231
BcnI CCSGG 1 cut(s) 239
BcoDI GTCTC 1 cut(s) 59
BfmI CTRYAG 1 cut(s) 294
BfoI RGCGCY 1 cut(s) 116
BfuI GTATCC 1 cut(s) 231
BisI GCNGC 5 cut(s) 108, 111, 133, 350, 427
BlpI GCTNAGC 1 cut(s) 197
BlsI GCNGC 5 cut(s) 109, 112, 134, 351, 428
Bme1390I CCNGG 1 cut(s) 239
BmgBI CACGTC 1 cut(s) 286
BmiI GGNNCC 4 cut(s) 7, 114, 213, 291
BmrFI CCNGG 1 cut(s) 239
BmsI GCATC 1 cut(s) 443
Bpu1102I GCTNAGC 1 cut(s) 197
BpuMI CCSGG 1 cut(s) 239
BsaHI GRCGYC 1 cut(s) 113
BsaJI CCNNGG 1 cut(s) 224
Bsc4I CCNNNNNNNGG 1 cut(s) 79
Bse118I RCCGGY 1 cut(s) 75
BseDI CCNNGG 1 cut(s) 224
BseGI GGATG 2 cut(s) 346, 400
BseLI CCNNNNNNNGG 1 cut(s) 79
BseMII CTCAG 3 cut(s) 40, 188, 269
BseRI GAGGAG 3 cut(s) 32, 166, 170
BseXI GCAGC 3 cut(s) 119, 361, 413
BseYI CCCAGC 1 cut(s) 79
BsgI GTGCAG 1 cut(s) 118
Bsh1236I CGCG 2 cut(s) 48, 226
BshNI GGYRCC 2 cut(s) 112, 211
BsiSI CCGG 2 cut(s) 76, 239
BslFI GGGAC 2 cut(s) 245, 296
BslI CCNNNNNNNGG 1 cut(s) 79
BsmAI GTCTC 1 cut(s) 59
BsmBI CGTCTC 1 cut(s) 59
BsmFI GGGAC 2 cut(s) 245, 296
BsmI GAATGC 1 cut(s) 406
Bsp143I GATC 1 cut(s) 5
Bsp1720I GCTNAGC 1 cut(s) 197
BspACI CCGC 8 cut(s) 46, 107, 110, 152, 224, 226, 404, 429
BspCNI CTCAG 3 cut(s) 39, 189, 270
BspFNI CGCG 2 cut(s) 48, 226
BspLI GGNNCC 4 cut(s) 7, 114, 213, 291
BspPI GGATC 1 cut(s) 13
BspT107I GGYRCC 2 cut(s) 112, 211
BsrFI RCCGGY 1 cut(s) 75
BssAI RCCGGY 1 cut(s) 75
BssECI CCNNGG 1 cut(s) 224
BssMI GATC 1 cut(s) 5
BssNI GRCGYC 1 cut(s) 113
Bst4CI ACNGT 2 cut(s) 358, 474
BstACI GRCGYC 1 cut(s) 113
BstAPI GCANNNNNTGC 1 cut(s) 129
BstC8I GCNNGC 4 cut(s) 130, 194, 306, 347
BstDEI CTNAG 4 cut(s) 26, 185, 197, 278
BstDSI CCRYGG 1 cut(s) 224
BstF5I GGATG 2 cut(s) 346, 400
BstFNI CGCG 2 cut(s) 48, 226
BstH2I RGCGCY 1 cut(s) 116
BstHHI GCGC 1 cut(s) 115
BstKTI GATC 1 cut(s) 8
BstMAI GTCTC 1 cut(s) 59
BstMBI GATC 1 cut(s) 5
BstMWI GCNNNNNNNGC 2 cut(s) 129, 198
BstSCI CCNGG 1 cut(s) 237
BstSFI CTRYAG 1 cut(s) 294
BstUI CGCG 2 cut(s) 48, 226
BstV1I GCAGC 3 cut(s) 119, 361, 413
BstX2I RGATCY 1 cut(s) 5
BstYI RGATCY 1 cut(s) 5
BsuI GTATCC 1 cut(s) 231
BtgI CCRYGG 1 cut(s) 224
BtrI CACGTC 1 cut(s) 286
BtsCI GGATG 2 cut(s) 346, 400
BtsIMutI CAGTG 1 cut(s) 470
Cac8I GCNNGC 4 cut(s) 130, 194, 306, 347
CfoI GCGC 1 cut(s) 115
Cfr10I RCCGGY 1 cut(s) 75
Cfr42I CCGCGG 1 cut(s) 227
CseI GACGC 2 cut(s) 37, 190
CviJI RGCY 5 cut(s) 79, 292, 352, 388, 426
CviKI_1 RGCY 5 cut(s) 79, 292, 352, 388, 426
DdeI CTNAG 4 cut(s) 26, 185, 197, 278
DinI GGCGCC 1 cut(s) 114
DpnI GATC 1 cut(s) 7
DpnII GATC 1 cut(s) 5
EciI GGCGGA 1 cut(s) 167
EgeI GGCGCC 1 cut(s) 114
EheI GGCGCC 1 cut(s) 114
Esp3I CGTCTC 1 cut(s) 59
FaiI YATR 4 cut(s) 20, 336, 338, 443
FaqI GGGAC 2 cut(s) 245, 296
Fnu4HI GCNGC 5 cut(s) 108, 111, 133, 350, 427
FokI GGATG 2 cut(s) 353, 387
Fsp4HI GCNGC 5 cut(s) 108, 111, 133, 350, 427
GlaI GCGC 1 cut(s) 114
GluI GCNGC 5 cut(s) 108, 111, 133, 350, 427
GsaI CCCAGC 1 cut(s) 83
HaeII RGCGCY 1 cut(s) 116
HapII CCGG 2 cut(s) 76, 239
HgaI GACGC 2 cut(s) 37, 190
HhaI GCGC 1 cut(s) 115
Hin1I GRCGYC 1 cut(s) 113
Hin6I GCGC 1 cut(s) 113
HinP1I GCGC 1 cut(s) 113
HinfI GANTC 7 cut(s) 13, 118, 140, 145, 274, 316, 437
HpaII CCGG 2 cut(s) 76, 239
Hpy166II GTNNAC 1 cut(s) 205
Hpy188I TCNGA 5 cut(s) 29, 169, 279, 328, 412
Hpy8I GTNNAC 1 cut(s) 205
Hpy99I CGWCG 1 cut(s) 184
HpyAV CCTTC 1 cut(s) 260
HpyCH4III ACNGT 2 cut(s) 358, 474
HpyCH4IV ACGT 1 cut(s) 285
HpyCH4V TGCA 3 cut(s) 135, 249, 456
HpyF10VI GCNNNNNNNGC 2 cut(s) 129, 198
HpyF3I CTNAG 4 cut(s) 26, 185, 197, 278
HpySE526I ACGT 1 cut(s) 285
Hsp92I GRCGYC 1 cut(s) 113
HspAI GCGC 1 cut(s) 113
KasI GGCGCC 1 cut(s) 112
KspI CCGCGG 1 cut(s) 227
Kzo9I GATC 1 cut(s) 5
LmnI GCTCC 1 cut(s) 289
LpnPI CCDG 6 cut(s) 65, 89, 109, 252, 306, 377
Lsp1109I GCAGC 3 cut(s) 119, 361, 413
LweI GCATC 1 cut(s) 443
MaeII ACGT 1 cut(s) 285
MalI GATC 1 cut(s) 7
MboI GATC 1 cut(s) 5
MboII GAAGA 2 cut(s) 374, 425
MflI RGATCY 1 cut(s) 5
MluCI AATT 2 cut(s) 420, 432
Mly113I GGCGCC 1 cut(s) 113
MlyI GAGTC 2 cut(s) 127, 149
MnlI CCTC 7 cut(s) 23, 53, 148, 182, 187, 202, 273
MroXI GAANNNNTTC 2 cut(s) 387, 436
MspA1I CMGCKG 1 cut(s) 226
MspI CCGG 2 cut(s) 76, 239
MspR9I CCNGG 1 cut(s) 239
Mva1269I GAATGC 1 cut(s) 406
MvnI CGCG 2 cut(s) 48, 226
MwoI GCNNNNNNNGC 2 cut(s) 129, 198
NarI GGCGCC 1 cut(s) 113
NciI CCSGG 1 cut(s) 239
NdeII GATC 1 cut(s) 5
NlaIV GGNNCC 4 cut(s) 7, 114, 213, 291
NmeAIII GCCGAG 1 cut(s) 141
PctI GAATGC 1 cut(s) 406
PdmI GAANNNNTTC 2 cut(s) 387, 436
PfeI GAWTC 5 cut(s) 13, 145, 274, 316, 437
PflMI CCANNNNNTGG 1 cut(s) 79
PkrI GCNGC 5 cut(s) 109, 112, 134, 351, 428
PleI GAGTC 2 cut(s) 126, 148
PluTI GGCGCC 1 cut(s) 116
PpsI GAGTC 2 cut(s) 126, 148
PspFI CCCAGC 1 cut(s) 79
PspN4I GGNNCC 4 cut(s) 7, 114, 213, 291
PsuI RGATCY 1 cut(s) 5
SacII CCGCGG 1 cut(s) 227
SatI GCNGC 5 cut(s) 108, 111, 133, 350, 427
Sau3AI GATC 1 cut(s) 5
SchI GAGTC 2 cut(s) 127, 149
ScrFI CCNGG 1 cut(s) 239
SetI ASST 3 cut(s) 288, 335, 354
SfaNI GCATC 1 cut(s) 443
SfcI CTRYAG 1 cut(s) 294
SfoI GGCGCC 1 cut(s) 114
Sfr303I CCGCGG 1 cut(s) 227
SgrBI CCGCGG 1 cut(s) 227
Sse9I AATT 2 cut(s) 420, 432
SsiI CCGC 8 cut(s) 46, 107, 110, 152, 224, 226, 404, 429
SspDI GGCGCC 1 cut(s) 112
StyD4I CCNGG 1 cut(s) 237
TaaI ACNGT 2 cut(s) 358, 474
TaiI ACGT 1 cut(s) 288
TaqI TCGA 2 cut(s) 143, 179
TasI AATT 2 cut(s) 420, 432
TauI GCSGC 2 cut(s) 110, 113
TfiI GAWTC 5 cut(s) 13, 145, 274, 316, 437
TscAI CASTG 1 cut(s) 477
TseI GCWGC 3 cut(s) 132, 349, 426
TspDTI ATGAA 1 cut(s) 381
TspGWI ACGGA 1 cut(s) 41
TspRI CASTG 1 cut(s) 477
Van91I CCANNNNNTGG 1 cut(s) 79
XmnI GAANNNNTTC 2 cut(s) 387, 436
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.