Rh6BG489100

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0012457
Physical Location & Seq
Reverse (-)
69324183 .. 69329982
5800 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG489100.1

Sequence Viewer

Length: 495 bp
ATGGGATCCTTGAATCCTATGCTTCTCAGAGGCGTATCTCTCCTCCGCGTCCGTCTCCACCACCACCGGCTGGGCTTTGGGTTTGGGTTTGGGATTGCGGCGGCGCCGAGTCGCAGGGCGTGCTGCACCGAGTCGATTCGGGCGGAGGAGAGTAGTTCGTCCTCTGCGGACAACTCCTCCTCGACGCTAAGAGGCGTGCTGAGCGTGAACGAGGCACCCAAGTATCCGCGGTGGGACGACCCTGACTACTGCAAGTGGAAAGATAAGGAAGGCGAGATTCTGAGGGACGTGGAGCCTATAGTTTTGCTTGCCAAAGAGATTCTCCATTCGGATAGGTATATGGATGGTGAGCAGCTAACACTTGAAGATGAAAAAGTTGTGGTGGAAAGGCTTCTGGCGTATCACCCGCATTCCGAAGATAAAATTGGCTGCGGAATTGATTCTATAATGGTAAGATGCACACTTCACTATTCACTGTCGCAGATTCTTTGTTAG
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

164

Amino Acids

18.41

Weight (kDa)

5.96

Isoelectric Point (pI)

57.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 105 - 153 2e-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) 103, 214
AccB7I CCANNNNNTGG 1 cut(s) 70
AccII CGCG 2 cut(s) 48, 229
AciI CCGC 9 cut(s) 46, 98, 101, 143, 167, 227, 229, 407, 432
AclWI GGATC 1 cut(s) 13
AcyI GRCGYC 1 cut(s) 104
AfiI CCNNNNNNNGG 1 cut(s) 70
AgsI TTSAA 2 cut(s) 13, 365
AjiI CACGTC 1 cut(s) 289
AjuI GAANNNNNNNTTGG 2 cut(s) 408, 440
AluBI AGCT 1 cut(s) 355
AluI AGCT 1 cut(s) 355
Alw26I GTCTC 1 cut(s) 59
AlwI GGATC 1 cut(s) 13
ApeKI GCWGC 3 cut(s) 123, 352, 429
Asp700I GAANNNNTTC 2 cut(s) 390, 439
AspLEI GCGC 1 cut(s) 106
AsuHPI GGTGA 2 cut(s) 359, 395
BaeI ACNNNNGTAYC 2 cut(s) 206, 239
BamHI GGATCC 1 cut(s) 5
BanI GGYRCC 2 cut(s) 103, 214
BbvI GCAGC 3 cut(s) 110, 364, 416
BccI CCATC 1 cut(s) 338
BciVI GTATCC 1 cut(s) 234
BcoDI GTCTC 1 cut(s) 59
BfmI CTRYAG 1 cut(s) 297
BfoI RGCGCY 1 cut(s) 107
BfuI GTATCC 1 cut(s) 234
BisI GCNGC 5 cut(s) 99, 102, 124, 353, 430
BlpI GCTNAGC 1 cut(s) 200
BlsI GCNGC 5 cut(s) 100, 103, 125, 354, 431
BmgBI CACGTC 1 cut(s) 289
BmiI GGNNCC 4 cut(s) 7, 105, 216, 294
BmsI GCATC 1 cut(s) 446
Bpu1102I GCTNAGC 1 cut(s) 200
BsaHI GRCGYC 1 cut(s) 104
BsaJI CCNNGG 1 cut(s) 227
BsaXI ACNNNNNCTCC 2 cut(s) 161, 191
Bsc4I CCNNNNNNNGG 1 cut(s) 70
Bse118I RCCGGY 1 cut(s) 66
BseDI CCNNGG 1 cut(s) 227
BseGI GGATG 1 cut(s) 349
BseLI CCNNNNNNNGG 1 cut(s) 70
BseMII CTCAG 3 cut(s) 40, 191, 272
BseRI GAGGAG 4 cut(s) 32, 161, 166, 169
BseXI GCAGC 3 cut(s) 110, 364, 416
BseYI CCCAGC 1 cut(s) 70
BsgI GTGCAG 1 cut(s) 109
Bsh1236I CGCG 2 cut(s) 48, 229
BshNI GGYRCC 2 cut(s) 103, 214
BsiSI CCGG 1 cut(s) 67
BslFI GGGAC 2 cut(s) 248, 299
BslI CCNNNNNNNGG 1 cut(s) 70
BsmAI GTCTC 1 cut(s) 59
BsmBI CGTCTC 1 cut(s) 59
BsmFI GGGAC 2 cut(s) 248, 299
BsmI GAATGC 1 cut(s) 409
Bsp143I GATC 1 cut(s) 5
Bsp1720I GCTNAGC 1 cut(s) 200
BspACI CCGC 9 cut(s) 46, 98, 101, 143, 167, 227, 229, 407, 432
BspCNI CTCAG 3 cut(s) 39, 192, 273
BspFNI CGCG 2 cut(s) 48, 229
BspLI GGNNCC 4 cut(s) 7, 105, 216, 294
BspPI GGATC 1 cut(s) 13
BspT107I GGYRCC 2 cut(s) 103, 214
BsrFI RCCGGY 1 cut(s) 66
BssAI RCCGGY 1 cut(s) 66
BssECI CCNNGG 1 cut(s) 227
BssMI GATC 1 cut(s) 5
BssNI GRCGYC 1 cut(s) 104
Bst4CI ACNGT 1 cut(s) 477
BstACI GRCGYC 1 cut(s) 104
BstAPI GCANNNNNTGC 1 cut(s) 120
BstC8I GCNNGC 3 cut(s) 121, 197, 309
BstDEI CTNAG 4 cut(s) 26, 188, 200, 281
BstDSI CCRYGG 1 cut(s) 227
BstF5I GGATG 1 cut(s) 349
BstFNI CGCG 2 cut(s) 48, 229
BstH2I RGCGCY 1 cut(s) 107
BstHHI GCGC 1 cut(s) 106
BstKTI GATC 1 cut(s) 8
BstMAI GTCTC 1 cut(s) 59
BstMBI GATC 1 cut(s) 5
BstMWI GCNNNNNNNGC 2 cut(s) 120, 201
BstSFI CTRYAG 1 cut(s) 297
BstUI CGCG 2 cut(s) 48, 229
BstV1I GCAGC 3 cut(s) 110, 364, 416
BstX2I RGATCY 1 cut(s) 5
BstYI RGATCY 1 cut(s) 5
BsuI GTATCC 1 cut(s) 234
BtgI CCRYGG 1 cut(s) 227
BtrI CACGTC 1 cut(s) 289
BtsCI GGATG 1 cut(s) 349
BtsIMutI CAGTG 1 cut(s) 473
Cac8I GCNNGC 3 cut(s) 121, 197, 309
CfoI GCGC 1 cut(s) 106
Cfr10I RCCGGY 1 cut(s) 66
Cfr42I CCGCGG 1 cut(s) 230
CseI GACGC 2 cut(s) 37, 193
CviJI RGCY 6 cut(s) 70, 75, 295, 355, 391, 429
CviKI_1 RGCY 6 cut(s) 70, 75, 295, 355, 391, 429
DdeI CTNAG 4 cut(s) 26, 188, 200, 281
DinI GGCGCC 1 cut(s) 105
DpnI GATC 1 cut(s) 7
DpnII GATC 1 cut(s) 5
EciI GGCGGA 1 cut(s) 158
EgeI GGCGCC 1 cut(s) 105
EheI GGCGCC 1 cut(s) 105
Esp3I CGTCTC 1 cut(s) 59
FaiI YATR 5 cut(s) 20, 299, 339, 341, 446
FaqI GGGAC 2 cut(s) 248, 299
FauI CCCGC 1 cut(s) 414
Fnu4HI GCNGC 5 cut(s) 99, 102, 124, 353, 430
FokI GGATG 1 cut(s) 356
Fsp4HI GCNGC 5 cut(s) 99, 102, 124, 353, 430
GlaI GCGC 1 cut(s) 105
GluI GCNGC 5 cut(s) 99, 102, 124, 353, 430
GsaI CCCAGC 1 cut(s) 74
HaeII RGCGCY 1 cut(s) 107
HapII CCGG 1 cut(s) 67
HgaI GACGC 2 cut(s) 37, 193
HhaI GCGC 1 cut(s) 106
Hin1I GRCGYC 1 cut(s) 104
Hin6I GCGC 1 cut(s) 104
HinP1I GCGC 1 cut(s) 104
HinfI GANTC 8 cut(s) 13, 109, 131, 136, 277, 319, 440, 484
HpaII CCGG 1 cut(s) 67
HphI GGTGA 2 cut(s) 359, 395
Hpy166II GTNNAC 1 cut(s) 208
Hpy188I TCNGA 4 cut(s) 29, 282, 331, 415
Hpy8I GTNNAC 1 cut(s) 208
Hpy99I CGWCG 1 cut(s) 187
HpyAV CCTTC 1 cut(s) 263
HpyCH4III ACNGT 1 cut(s) 477
HpyCH4IV ACGT 1 cut(s) 288
HpyCH4V TGCA 3 cut(s) 126, 252, 459
HpyF10VI GCNNNNNNNGC 2 cut(s) 120, 201
HpyF3I CTNAG 4 cut(s) 26, 188, 200, 281
HpySE526I ACGT 1 cut(s) 288
Hsp92I GRCGYC 1 cut(s) 104
HspAI GCGC 1 cut(s) 104
KasI GGCGCC 1 cut(s) 103
KspI CCGCGG 1 cut(s) 230
Kzo9I GATC 1 cut(s) 5
LmnI GCTCC 1 cut(s) 292
LpnPI CCDG 5 cut(s) 56, 80, 100, 255, 380
Lsp1109I GCAGC 3 cut(s) 110, 364, 416
LweI GCATC 1 cut(s) 446
MaeII ACGT 1 cut(s) 288
MalI GATC 1 cut(s) 7
MboI GATC 1 cut(s) 5
MboII GAAGA 2 cut(s) 377, 428
MflI RGATCY 1 cut(s) 5
MluCI AATT 2 cut(s) 423, 435
Mly113I GGCGCC 1 cut(s) 104
MlyI GAGTC 2 cut(s) 118, 140
MnlI CCTC 9 cut(s) 23, 53, 139, 172, 185, 187, 190, 205, 276
MroXI GAANNNNTTC 2 cut(s) 390, 439
MspA1I CMGCKG 1 cut(s) 229
MspI CCGG 1 cut(s) 67
Mva1269I GAATGC 1 cut(s) 409
MvnI CGCG 2 cut(s) 48, 229
MwoI GCNNNNNNNGC 2 cut(s) 120, 201
NarI GGCGCC 1 cut(s) 104
NdeII GATC 1 cut(s) 5
NlaIV GGNNCC 4 cut(s) 7, 105, 216, 294
NmeAIII GCCGAG 1 cut(s) 132
PctI GAATGC 1 cut(s) 409
PdmI GAANNNNTTC 2 cut(s) 390, 439
PfeI GAWTC 6 cut(s) 13, 136, 277, 319, 440, 484
PflMI CCANNNNNTGG 1 cut(s) 70
PkrI GCNGC 5 cut(s) 100, 103, 125, 354, 431
PleI GAGTC 2 cut(s) 117, 139
PluTI GGCGCC 1 cut(s) 107
PpsI GAGTC 2 cut(s) 117, 139
PspFI CCCAGC 1 cut(s) 70
PspN4I GGNNCC 4 cut(s) 7, 105, 216, 294
PsuI RGATCY 1 cut(s) 5
SacII CCGCGG 1 cut(s) 230
SatI GCNGC 5 cut(s) 99, 102, 124, 353, 430
Sau3AI GATC 1 cut(s) 5
SchI GAGTC 2 cut(s) 118, 140
SetI ASST 3 cut(s) 291, 338, 357
SfaNI GCATC 1 cut(s) 446
SfcI CTRYAG 1 cut(s) 297
SfoI GGCGCC 1 cut(s) 105
Sfr303I CCGCGG 1 cut(s) 230
SgrBI CCGCGG 1 cut(s) 230
Sse9I AATT 2 cut(s) 423, 435
SsiI CCGC 9 cut(s) 46, 98, 101, 143, 167, 227, 229, 407, 432
SspDI GGCGCC 1 cut(s) 103
TaaI ACNGT 1 cut(s) 477
TaiI ACGT 1 cut(s) 291
TaqI TCGA 2 cut(s) 134, 182
TasI AATT 2 cut(s) 423, 435
TauI GCSGC 2 cut(s) 101, 104
TfiI GAWTC 6 cut(s) 13, 136, 277, 319, 440, 484
TscAI CASTG 1 cut(s) 480
TseI GCWGC 3 cut(s) 123, 352, 429
TspDTI ATGAA 1 cut(s) 384
TspGWI ACGGA 1 cut(s) 41
TspRI CASTG 1 cut(s) 480
Van91I CCANNNNNTGG 1 cut(s) 70
XmnI GAANNNNTTC 2 cut(s) 390, 439
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.