Rroxscaffold_4G00302270

E3 ubiquitin-protein ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0011045
Physical Location & Seq
Reverse (-)
22658576 .. 22661268
2693 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00302270.1

Sequence Viewer

Length: 666 bp
ATGACCCTGATACCTCCATATGAAAGAGATGATATTCTTCTTCCTAGCTCTATAAATTCTCTGAGGGACCTACTTCTTTCTCCCCTTAACACTAACCTTGCACTCTTTGCTTGCCTAGGGAAGAAATTGGCAGTTCTCAGTACGGAGAACAACAACGTCATCGTTTCCTATGATCTACCGGCTGCTGCTTGGACATGCTCATGGGATCTCAACGATTCAAATTATATATATGCCGGATTACGAGTAATGAAGGGACCAATTTTGATCCTTGAAACAGAGAACCAAGGAGTTTGTATATCTCTTTCGTATTGCCCTAGAACAGATGACATTGTTGCTTCCTATCGCCCCGAAGTCGAATTTTCTGATGAGACAGTTCTTACACAACCAACTCCTTCACGTACCATCGGACAAGGAACTGTCGGTTCCCATGTTCTTTTAAAGAGAGCAGGCAGCAGCAGTCATTTTCTAAAGTTGGGATCTTCATTTGGCAACGTGTGTGATATCGGACTAGTTTTAGAAGAGCTGTTGTCTTCTACTACCGTTCGGCGCCTTAACTTACAGCGAAGTCCTGTTCATGATGTGAAGTACACATCTTTCTTGAGGAAAGGTCTCCTCAGTTGTTTGAATGATAACACGCTGCAACACTTCAGTACCAAGCTTTCGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000075 GO:0000077 GO:0000278 GO:0000724 GO:0000725 GO:0002039 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006302 GO:0006310 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007049 GO:0007093 GO:0007346 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009628 GO:0009987 GO:0010212 GO:0010564 GO:0010948 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022402 GO:0031297 GO:0031570 GO:0031571 GO:0031974 GO:0031981 GO:0032446 GO:0033554 GO:0034641 GO:0034645 GO:0036211 GO:0036297 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0044773 GO:0044774 GO:0044783 GO:0044819 GO:0045005 GO:0045786 GO:0045930 GO:0046483 GO:0048519 GO:0048523 GO:0048583 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0051726 GO:0065007 GO:0070013 GO:0070647 GO:0071704 GO:0080134 GO:0080135 GO:0090304 GO:0090734 GO:0097371 GO:0140096 GO:1901360 GO:1901564 GO:1901576 GO:1901976 GO:1901987 GO:1901988 GO:1901990 GO:1901991 GO:1902806 GO:1902807 GO:1903047 GO:2000001 GO:2000045 GO:2000134 GO:2001020
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
zf-RING_2

Protein Analysis

221

Amino Acids

24.34

Weight (kDa)

6.07

Isoelectric Point (pI)

44.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RFWD3 PF23419 19 - 81 5.3e-13 E3 ubiquitin-protein ligase RFWD3 WD40 domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011045)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G03450 AT5G03750
fragaria_vesca FvH4_6g16560 FvH4_6g16560
malus_domestica MD12G1109200.v1.1
prunus_persica Prupe.7G127800_v2.0.a1
pyrus_communis pycom12g10940
rosa_chinensis RchiOBHm_Chr3g0470481
rosa_laevigata RLG00000024263
rosa_multiflora Rmu_sc0002115.1_g000004 Rmu_sc0003381.1_g000011
rosa_roxburghii Rroxscaffold_4G00302270 Rroxscaffold_6G00410770
rosa_rugosa Rorug03G0109400 Rorug03G0109500
rosa_samantha Rh3AG159800 Rh3BG184300 Rh3CG174800 Rh3DG190600
rosa_wichuraiana Rw3G015120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 546
AclWI GGATC 3 cut(s) 213, 259, 484
AcsI RAATTY 2 cut(s) 55, 356
AcuI CTGAAG 1 cut(s) 631
AcyI GRCGYC 1 cut(s) 547
AfaI GTAC 4 cut(s) 142, 400, 587, 652
AflIII ACRYGT 1 cut(s) 492
AgsI TTSAA 3 cut(s) 219, 272, 625
AhlI ACTAGT 1 cut(s) 508
AluBI AGCT 3 cut(s) 48, 523, 658
AluI AGCT 3 cut(s) 48, 523, 658
Alw26I GTCTC 2 cut(s) 362, 614
AlwI GGATC 3 cut(s) 213, 259, 484
ApeKI GCWGC 5 cut(s) 182, 185, 450, 453, 637
ApoI RAATTY 2 cut(s) 55, 356
AspA2I CCTAGG 1 cut(s) 115
AspLEI GCGC 1 cut(s) 549
AspS9I GGNCC 2 cut(s) 67, 254
AvaII GGWCC 2 cut(s) 67, 254
AvrII CCTAGG 1 cut(s) 115
BaeI ACNNNNGTAYC 1 cut(s) 634
BanI GGYRCC 1 cut(s) 546
BbsI GAAGAC 1 cut(s) 522
BbvI GCAGC 5 cut(s) 169, 172, 462, 465, 624
BccI CCATC 1 cut(s) 410
BcoDI GTCTC 2 cut(s) 362, 614
BcuI ACTAGT 1 cut(s) 508
BfaI CTAG 4 cut(s) 45, 116, 315, 509
BfoI RGCGCY 1 cut(s) 550
BisI GCNGC 5 cut(s) 183, 186, 451, 454, 638
BlnI CCTAGG 1 cut(s) 115
BlsI GCNGC 5 cut(s) 184, 187, 452, 455, 639
Bme18I GGWCC 2 cut(s) 67, 254
BmgT120I GGNCC 2 cut(s) 67, 254
BmiI GGNNCC 4 cut(s) 68, 255, 424, 548
BpiI GAAGAC 1 cut(s) 522
BpuEI CTTGAG 1 cut(s) 619
BsaAI YACGTR 1 cut(s) 398
BsaHI GRCGYC 1 cut(s) 547
BsaI GGTCTC 1 cut(s) 614
BsaJI CCNNGG 2 cut(s) 115, 283
Bse118I RCCGGY 1 cut(s) 178
BseDI CCNNGG 2 cut(s) 115, 283
BseMII CTCAG 3 cut(s) 53, 151, 628
BseRI GAGGAG 1 cut(s) 602
BseXI GCAGC 5 cut(s) 169, 172, 462, 465, 624
BshNI GGYRCC 1 cut(s) 546
BsiSI CCGG 2 cut(s) 179, 234
BslFI GGGAC 2 cut(s) 80, 267
BsmAI GTCTC 2 cut(s) 362, 614
BsmFI GGGAC 2 cut(s) 80, 267
Bso31I GGTCTC 1 cut(s) 614
Bsp143I GATC 4 cut(s) 172, 205, 264, 476
BspCNI CTCAG 3 cut(s) 54, 150, 627
BspHI TCATGA 1 cut(s) 574
BspLI GGNNCC 4 cut(s) 68, 255, 424, 548
BspPI GGATC 3 cut(s) 213, 259, 484
BspQI GCTCTTC 1 cut(s) 513
BspT107I GGYRCC 1 cut(s) 546
BspTNI GGTCTC 1 cut(s) 614
BsrFI RCCGGY 1 cut(s) 178
BssAI RCCGGY 1 cut(s) 178
BssECI CCNNGG 2 cut(s) 115, 283
BssMI GATC 4 cut(s) 172, 205, 264, 476
BssNI GRCGYC 1 cut(s) 547
BssT1I CCWWGG 2 cut(s) 115, 283
Bst4CI ACNGT 3 cut(s) 373, 418, 541
Bst6I CTCTTC 1 cut(s) 513
BstACI GRCGYC 1 cut(s) 547
BstAPI GCANNNNNTGC 1 cut(s) 107
BstBAI YACGTR 1 cut(s) 398
BstC8I GCNNGC 2 cut(s) 112, 448
BstDEI CTNAG 3 cut(s) 62, 137, 614
BstH2I RGCGCY 1 cut(s) 550
BstHHI GCGC 1 cut(s) 549
BstKTI GATC 4 cut(s) 175, 208, 267, 479
BstMAI GTCTC 2 cut(s) 362, 614
BstMBI GATC 4 cut(s) 172, 205, 264, 476
BstMWI GCNNNNNNNGC 1 cut(s) 107
BstNSI RCATGY 1 cut(s) 198
BstV1I GCAGC 5 cut(s) 169, 172, 462, 465, 624
BstV2I GAAGAC 1 cut(s) 522
BstX2I RGATCY 2 cut(s) 205, 476
BstYI RGATCY 2 cut(s) 205, 476
Cac8I GCNNGC 2 cut(s) 112, 448
CciI TCATGA 1 cut(s) 574
CfoI GCGC 1 cut(s) 549
Cfr10I RCCGGY 1 cut(s) 178
Cfr13I GGNCC 2 cut(s) 67, 254
Csp6I GTAC 4 cut(s) 141, 399, 586, 651
CviAII CATG 4 cut(s) 195, 201, 428, 575
CviJI RGCY 4 cut(s) 48, 182, 523, 658
CviKI_1 RGCY 4 cut(s) 48, 182, 523, 658
CviQI GTAC 4 cut(s) 141, 399, 586, 651
DdeI CTNAG 3 cut(s) 62, 137, 614
DinI GGCGCC 1 cut(s) 548
DpnI GATC 4 cut(s) 174, 207, 266, 478
DpnII GATC 4 cut(s) 172, 205, 264, 476
DraI TTTAAA 1 cut(s) 438
Eam1104I CTCTTC 1 cut(s) 513
EarI CTCTTC 1 cut(s) 513
Eco130I CCWWGG 2 cut(s) 115, 283
Eco31I GGTCTC 1 cut(s) 614
Eco32I GATATC 1 cut(s) 502
Eco47I GGWCC 2 cut(s) 67, 254
Eco57I CTGAAG 1 cut(s) 631
EcoO109I RGGNCCY 1 cut(s) 67
EcoRV GATATC 1 cut(s) 502
EcoT14I CCWWGG 2 cut(s) 115, 283
EgeI GGCGCC 1 cut(s) 548
EheI GGCGCC 1 cut(s) 548
ErhI CCWWGG 2 cut(s) 115, 283
FaeI CATG 4 cut(s) 198, 204, 431, 578
FaqI GGGAC 2 cut(s) 80, 267
FatI CATG 4 cut(s) 194, 200, 427, 574
FauNDI CATATG 1 cut(s) 19
Fnu4HI GCNGC 5 cut(s) 183, 186, 451, 454, 638
Fsp4HI GCNGC 5 cut(s) 183, 186, 451, 454, 638
FspBI CTAG 4 cut(s) 45, 116, 315, 509
GlaI GCGC 1 cut(s) 548
GluI GCNGC 5 cut(s) 183, 186, 451, 454, 638
HaeII RGCGCY 1 cut(s) 550
HapII CCGG 2 cut(s) 179, 234
HhaI GCGC 1 cut(s) 549
Hin1I GRCGYC 1 cut(s) 547
Hin1II CATG 4 cut(s) 198, 204, 431, 578
Hin6I GCGC 1 cut(s) 547
HinP1I GCGC 1 cut(s) 547
HindIII AAGCTT 1 cut(s) 656
HinfI GANTC 1 cut(s) 215
HpaII CCGG 2 cut(s) 179, 234
Hpy166II GTNNAC 1 cut(s) 588
Hpy188I TCNGA 4 cut(s) 63, 364, 407, 506
Hpy188III TCNNGA 2 cut(s) 575, 598
Hpy8I GTNNAC 1 cut(s) 588
HpyAV CCTTC 2 cut(s) 244, 402
HpyCH4III ACNGT 3 cut(s) 373, 418, 541
HpyCH4IV ACGT 3 cut(s) 156, 397, 492
HpyCH4V TGCA 2 cut(s) 101, 640
HpyF10VI GCNNNNNNNGC 1 cut(s) 107
HpyF3I CTNAG 3 cut(s) 62, 137, 614
HpySE526I ACGT 3 cut(s) 156, 397, 492
Hsp92I GRCGYC 1 cut(s) 547
Hsp92II CATG 4 cut(s) 198, 204, 431, 578
HspAI GCGC 1 cut(s) 547
KasI GGCGCC 1 cut(s) 546
Kzo9I GATC 4 cut(s) 172, 205, 264, 476
LguI GCTCTTC 1 cut(s) 513
LpnPI CCDG 5 cut(s) 20, 192, 247, 432, 582
Lsp1109I GCAGC 5 cut(s) 169, 172, 462, 465, 624
MaeI CTAG 4 cut(s) 45, 116, 315, 509
MaeII ACGT 3 cut(s) 156, 397, 492
MalI GATC 4 cut(s) 174, 207, 266, 478
MboI GATC 4 cut(s) 172, 205, 264, 476
MboII GAAGA 6 cut(s) 29, 32, 133, 471, 522, 530
MflI RGATCY 2 cut(s) 205, 476
MluCI AATT 5 cut(s) 55, 125, 220, 258, 356
Mly113I GGCGCC 1 cut(s) 547
MnlI CCTC 4 cut(s) 24, 57, 594, 623
MseI TTAA 3 cut(s) 87, 437, 552
MslI CAYNNNNRTG 1 cut(s) 199
MspI CCGG 2 cut(s) 179, 234
MwoI GCNNNNNNNGC 1 cut(s) 107
NarI GGCGCC 1 cut(s) 547
NdeI CATATG 1 cut(s) 19
NdeII GATC 4 cut(s) 172, 205, 264, 476
NlaIII CATG 4 cut(s) 198, 204, 431, 578
NlaIV GGNNCC 4 cut(s) 68, 255, 424, 548
NspI RCATGY 1 cut(s) 198
PagI TCATGA 1 cut(s) 574
PciSI GCTCTTC 1 cut(s) 513
PfeI GAWTC 1 cut(s) 215
PkrI GCNGC 5 cut(s) 184, 187, 452, 455, 639
PluTI GGCGCC 1 cut(s) 550
Ppu21I YACGTR 1 cut(s) 398
PpuMI RGGWCCY 1 cut(s) 67
Psp5II RGGWCCY 1 cut(s) 67
PspN4I GGNNCC 4 cut(s) 68, 255, 424, 548
PspPI GGNCC 2 cut(s) 67, 254
PspPPI RGGWCCY 1 cut(s) 67
PsuI RGATCY 2 cut(s) 205, 476
RsaI GTAC 4 cut(s) 142, 400, 587, 652
RsaNI GTAC 4 cut(s) 141, 399, 586, 651
RseI CAYNNNNRTG 1 cut(s) 199
SapI GCTCTTC 1 cut(s) 513
SaqAI TTAA 3 cut(s) 87, 437, 552
SatI GCNGC 5 cut(s) 183, 186, 451, 454, 638
Sau3AI GATC 4 cut(s) 172, 205, 264, 476
Sau96I GGNCC 2 cut(s) 67, 254
SfoI GGCGCC 1 cut(s) 548
SinI GGWCC 2 cut(s) 67, 254
SmiMI CAYNNNNRTG 1 cut(s) 199
SmlI CTYRAG 1 cut(s) 598
SmoI CTYRAG 1 cut(s) 598
SpeI ACTAGT 1 cut(s) 508
Sse9I AATT 5 cut(s) 55, 125, 220, 258, 356
SspDI GGCGCC 1 cut(s) 546
SspMI CTAG 4 cut(s) 45, 116, 315, 509
StyI CCWWGG 2 cut(s) 115, 283
TaaI ACNGT 3 cut(s) 373, 418, 541
TaiI ACGT 3 cut(s) 159, 400, 495
TaqI TCGA 1 cut(s) 354
TasI AATT 5 cut(s) 55, 125, 220, 258, 356
TatI WGTACW 1 cut(s) 585
TfiI GAWTC 1 cut(s) 215
Tru1I TTAA 3 cut(s) 87, 437, 552
Tru9I TTAA 3 cut(s) 87, 437, 552
TseI GCWGC 5 cut(s) 182, 185, 450, 453, 637
TspDTI ATGAA 4 cut(s) 36, 263, 471, 563
TspGWI ACGGA 1 cut(s) 158
VpaK11BI GGWCC 2 cut(s) 67, 254
XapI RAATTY 2 cut(s) 55, 356
XceI RCATGY 1 cut(s) 198
XmaJI CCTAGG 1 cut(s) 115
XspI CTAG 4 cut(s) 45, 116, 315, 509
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.