RchiOBHm_Chr6g0308801

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0012457
Physical Location & Seq
Reverse (-)
66853535 .. 66857599
4065 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ27768

Sequence Viewer

Length: 618 bp
ATGGGATCCTTGAATCCTATGCTTCTCAGAGGCGTATCTCTCCTCCGCGTCCGTCTCCACCACCACCACCACCACCGGCTGGGGTTTGGGTTTGGGTTTGGGATTGCGGCGGCGCCGAGTCGCAGGGCGTGCTGCACCGAGTCGATTCGGGCGGAGGAGAGTAGTTCGGACAACTCCTCGACGCTAAGAGGCGTGCTGAGCGTGAACGAGGCACCCAAGTATCCGCGGTGGGACGACCCGGACTACTGCAAGTGGAAAGATAAGGAAGGCGAGATTCTGAGGGACGTGGAGCCTGTAGTTTTGCTTGCCAAAGAGATTCTCCATTCGGATAGGTATATGGATGGCGAGCAGCTAACAGTTGAAGATGAAAAAGTCGTGGTGGAAAGGCTTCTGGCGTATCATCCGCATTCCGAAGATAAAATTGGCTGCGGAATTGATTCTATAATGGTTGATCGGCATCCCCAATTCAAACACTCAAGGTGCTTATTTGTCATAAGAACTGATGGTGTATGGATAGACTTCTCCTACCAGAAGTGTCTTCGAGCATATATCCGAGATAAGTACCCAACCCATGCAGAAAGATTCATTCGAGAACATTTTAAACGTGGTAGTGGCTAA
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

205

Amino Acids

23.7

Weight (kDa)

7.73

Isoelectric Point (pI)

44.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 104 - 180 1.5e-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 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
AfaI GTAC 1 cut(s) 563
AfiI CCNNNNNNNGG 1 cut(s) 79
AgsI TTSAA 3 cut(s) 13, 362, 469
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
BbsI GAAGAC 1 cut(s) 530
BbvI GCAGC 3 cut(s) 119, 361, 413
BccI CCATC 2 cut(s) 335, 497
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) 466
BpiI GAAGAC 1 cut(s) 530
Bpu1102I GCTNAGC 1 cut(s) 197
BpuEI CTTGAG 1 cut(s) 460
BpuMI CCSGG 1 cut(s) 239
BsaBI GATNNNNATC 1 cut(s) 456
BsaHI GRCGYC 1 cut(s) 113
BsaJI CCNNGG 1 cut(s) 224
Bsc4I CCNNNNNNNGG 1 cut(s) 79
Bse118I RCCGGY 1 cut(s) 75
Bse8I GATNNNNATC 1 cut(s) 456
BseDI CCNNGG 1 cut(s) 224
BseGI GGATG 3 cut(s) 346, 400, 457
BseJI GATNNNNATC 1 cut(s) 456
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 2 cut(s) 5, 451
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 2 cut(s) 5, 451
BssNI GRCGYC 1 cut(s) 113
Bst4CI ACNGT 1 cut(s) 358
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 3 cut(s) 346, 400, 457
BstFNI CGCG 2 cut(s) 48, 226
BstH2I RGCGCY 1 cut(s) 116
BstHHI GCGC 1 cut(s) 115
BstKTI GATC 2 cut(s) 8, 454
BstMAI GTCTC 1 cut(s) 59
BstMBI GATC 2 cut(s) 5, 451
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
BstV2I GAAGAC 1 cut(s) 530
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 3 cut(s) 346, 400, 457
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
Csp6I GTAC 1 cut(s) 562
CviAII CATG 1 cut(s) 572
CviJI RGCY 6 cut(s) 79, 292, 352, 388, 426, 615
CviKI_1 RGCY 6 cut(s) 79, 292, 352, 388, 426, 615
CviQI GTAC 1 cut(s) 562
DdeI CTNAG 4 cut(s) 26, 185, 197, 278
DinI GGCGCC 1 cut(s) 114
DpnI GATC 2 cut(s) 7, 453
DpnII GATC 2 cut(s) 5, 451
DraI TTTAAA 1 cut(s) 601
EciI GGCGGA 1 cut(s) 167
EgeI GGCGCC 1 cut(s) 114
EheI GGCGCC 1 cut(s) 114
Esp3I CGTCTC 1 cut(s) 59
FaeI CATG 1 cut(s) 575
FaiI YATR 9 cut(s) 20, 336, 338, 443, 494, 511, 547, 549, 573
FaqI GGGAC 2 cut(s) 245, 296
FatI CATG 1 cut(s) 571
Fnu4HI GCNGC 5 cut(s) 108, 111, 133, 350, 427
FokI GGATG 3 cut(s) 353, 387, 444
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
Hin1II CATG 1 cut(s) 575
Hin6I GCGC 1 cut(s) 113
HinP1I GCGC 1 cut(s) 113
HinfI GANTC 8 cut(s) 13, 118, 140, 145, 274, 316, 437, 582
HpaII CCGG 2 cut(s) 76, 239
Hpy166II GTNNAC 1 cut(s) 205
Hpy188I TCNGA 6 cut(s) 29, 169, 279, 328, 412, 554
Hpy188III TCNNGA 1 cut(s) 590
Hpy8I GTNNAC 1 cut(s) 205
Hpy99I CGWCG 1 cut(s) 184
HpyAV CCTTC 1 cut(s) 260
HpyCH4III ACNGT 1 cut(s) 358
HpyCH4IV ACGT 2 cut(s) 285, 604
HpyCH4V TGCA 3 cut(s) 135, 249, 575
HpyF10VI GCNNNNNNNGC 2 cut(s) 129, 198
HpyF3I CTNAG 4 cut(s) 26, 185, 197, 278
HpySE526I ACGT 2 cut(s) 285, 604
Hsp92I GRCGYC 1 cut(s) 113
Hsp92II CATG 1 cut(s) 575
HspAI GCGC 1 cut(s) 113
KasI GGCGCC 1 cut(s) 112
KspI CCGCGG 1 cut(s) 227
Kzo9I GATC 2 cut(s) 5, 451
LmnI GCTCC 1 cut(s) 289
LpnPI CCDG 7 cut(s) 65, 89, 109, 252, 306, 377, 542
Lsp1109I GCAGC 3 cut(s) 119, 361, 413
LweI GCATC 1 cut(s) 466
MaeII ACGT 2 cut(s) 285, 604
MalI GATC 2 cut(s) 7, 453
MboI GATC 2 cut(s) 5, 451
MboII GAAGA 3 cut(s) 374, 425, 530
MflI RGATCY 1 cut(s) 5
MluCI AATT 3 cut(s) 420, 432, 464
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
MseI TTAA 1 cut(s) 600
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 2 cut(s) 5, 451
NlaIII CATG 1 cut(s) 575
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 6 cut(s) 13, 145, 274, 316, 437, 582
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
RsaI GTAC 1 cut(s) 563
RsaNI GTAC 1 cut(s) 562
SacII CCGCGG 1 cut(s) 227
SaqAI TTAA 1 cut(s) 600
SatI GCNGC 5 cut(s) 108, 111, 133, 350, 427
Sau3AI GATC 2 cut(s) 5, 451
SchI GAGTC 2 cut(s) 127, 149
ScrFI CCNGG 1 cut(s) 239
SetI ASST 5 cut(s) 288, 335, 354, 482, 607
SfaNI GCATC 1 cut(s) 466
SfcI CTRYAG 1 cut(s) 294
SfoI GGCGCC 1 cut(s) 114
Sfr303I CCGCGG 1 cut(s) 227
SgrBI CCGCGG 1 cut(s) 227
SmlI CTYRAG 1 cut(s) 475
SmoI CTYRAG 1 cut(s) 475
Sse9I AATT 3 cut(s) 420, 432, 464
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 1 cut(s) 358
TaiI ACGT 2 cut(s) 288, 607
TaqI TCGA 4 cut(s) 143, 179, 541, 589
TasI AATT 3 cut(s) 420, 432, 464
TauI GCSGC 2 cut(s) 110, 113
TfiI GAWTC 6 cut(s) 13, 145, 274, 316, 437, 582
Tru1I TTAA 1 cut(s) 600
Tru9I TTAA 1 cut(s) 600
TseI GCWGC 3 cut(s) 132, 349, 426
TspDTI ATGAA 2 cut(s) 381, 574
TspGWI ACGGA 1 cut(s) 41
Van91I CCANNNNNTGG 1 cut(s) 79
XmnI GAANNNNTTC 2 cut(s) 387, 436
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.