Rw5G018830

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0017626
Physical Location & Seq
Reverse (-)
24275303 .. 24276547
1245 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G018830.1

Sequence Viewer

Length: 1245 bp
ATGTCTTCTTCTTCCCCAGAAATTGTCCTCACCAGCTCTCCCGACGGCCCCATTGTTGCCTATGAAGCTTCCTCAGGCACCATTGTAGCACAGTTCACTGGCAGCCGCTCGCCGCGTAGAGGCCTCACTGTTGTCGGAAAGGATTTTGGAAAGACTTATATAGCTGCCTCACACATATCCCCAACCACGGCTTCTGGTTCAATCCACCTTTACAACTGGTGGTCTTCGACTGCCTTTCACAGCCTCCCTGTCCCCGAACCGGTTGCACCACTAGCTGCCTCATTTGATGGATTGTACCTCTTTGCTGGTGGCATATCAGGCAGTGTGCATACACTTTCAGTCCCATCAGGGAATATGCTCAAATCACTGCCTGCACATAACAAGCCTGTAACCTGCCTTGGTGTCAATCATGATGAATCTCTTTTGATTTCAGGCAGTGATGATGGAACCATTGCTATTGTCCCTATCTTTCAGCTTGTAGGGGACTCAGGATGCGAGAATGTTGAAGACTTGATATTGCATAAGTTTGCCGCTCATTCTGATTCTATTACTGCCATTGTTTCTGGTACAGGATTATGCTACTCCCAGATTATATCATGCTCAACTGATTCCACATGTAAGTTCTGGAGTCTCCGGCGGGGGACTCACCTGCGTACGGTTGTGTTTCCGTGCACGATTTCTGGGATTGCATTGCACCCCACAGAGCCCGAGTTCTATGCTGCAGGGTTAGATGGATCGGTACACATAGGGTCCTTTATGATTGGAAGCAGAAAACTTGTGATCCAAGGCAATGAATTGATGACATTGCCTCATACACACAGCAGTGCAGTTGTATCTGTCGTGATGCTGAACGAGGGAAGGAACTTAGTTTCGGCTTCAGAAGATGGGAGTGTTTGGATATGGGAAGTTGGTGTAGGTCAGGTGATTATGGCTCTTGGAAATGAGATGGCAAGCCTTAGTGATTTGGTGTCAGCCGCAGGCATAAGTTATAACAAAGGACATAGTTCTGAAGTGGGTAAAAGTAGTGCCAAGGAATCTGCGAAGTGTGATGAGATCGGGTTTTCTTGCAAGGAACTGATCATGAGTATGCCTGCAAGGCAAATGATAGAAATGGAAGATTTGTTGAAAGTGGCAGTAAAAGATAGGAGCAGAGCCATCGATACGCTAGAATCTGCTATTGCAATATATGAGAAGCTCTTGGAACTCATTCTCAAGGAAGCTAAGAAAGGCACTCAACAGCAGTAA
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
WD40

Protein Analysis

414

Amino Acids

43.84

Weight (kDa)

5.68

Isoelectric Point (pI)

47.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 3 - 153 1.1e-07 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 10 - 153 1.9e-08 WDR5 beta-propeller domain
WD40_CDC20-Fz PF24807 59 - 301 2.7e-10 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_2nd PF25172 62 - 163 5.6e-06 WDR3 second beta-propeller domain
WD40_WDHD1_1st PF24817 63 - 220 4.2e-07 WDHD1 first WD40 domain
Beta-prop_EML_2 PF23414 66 - 217 5.1e-06 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 86 - 246 1.2e-14 WDR3 first beta-propeller domain
WD40_Prp19 PF24814 96 - 233 2.8e-10 Prp19 WD40 domain
NBCH_WD40 PF20426 96 - 226 2.3e-11 Neurobeachin beta propeller domain
WD40 PF00400 118 - 152 5.8e-07 WD domain, G-beta repeat
Beta-prop_WDR36-Utp21_2nd PF25168 177 - 339 4e-08 WDR36/Utp21 second beta-propeller domain
Beta-prop_THOC3 PF25174 196 - 308 2.3e-07 THOC3 beta-propeller domain
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: OG0017626)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g17760
malus_domestica MD03G1247800.v1.1
prunus_persica Prupe.4G156700_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0029551
rosa_laevigata RLG00000033178
rosa_multiflora Rmu_sc0000210.1_g000015
rosa_roxburghii Rroxscaffold_1G00050390
rosa_samantha Rh5AG207000 Rh5BG205700 Rh5CG227800 Rh5DG209500
rosa_wichuraiana Rw5G018830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 990
AarI CACCTGC 1 cut(s) 657
Acc36I ACCTGC 2 cut(s) 401, 657
AccB1I GGYRCC 1 cut(s) 77
AccBSI CCGCTC 2 cut(s) 108, 533
AccII CGCG 1 cut(s) 115
AciI CCGC 5 cut(s) 106, 113, 531, 637, 975
AclWI GGATC 2 cut(s) 742, 775
AcuI CTGAAG 2 cut(s) 861, 1029
AfaI GTAC 4 cut(s) 296, 568, 655, 741
AfiI CCNNNNNNNGG 4 cut(s) 119, 187, 259, 655
AflIII ACRYGT 1 cut(s) 614
AgeI ACCGGT 1 cut(s) 259
AgsI TTSAA 3 cut(s) 201, 506, 1126
AjuI GAANNNNNNNTTGG 2 cut(s) 175, 207
AleI CACNNNNGTG 1 cut(s) 822
AluBI AGCT 7 cut(s) 36, 68, 164, 275, 475, 1195, 1220
AluI AGCT 7 cut(s) 36, 68, 164, 275, 475, 1195, 1220
Alw21I GWGCWC 1 cut(s) 674
Alw26I GTCTC 1 cut(s) 635
Alw44I GTGCAC 1 cut(s) 670
AlwI GGATC 2 cut(s) 742, 775
Ama87I CYCGRG 1 cut(s) 707
AoxI GGCC 2 cut(s) 46, 121
ApaLI GTGCAC 1 cut(s) 670
ApeKI GCWGC 4 cut(s) 102, 164, 275, 719
AsiGI ACCGGT 1 cut(s) 259
Asp700I GAANNNNTTC 1 cut(s) 1206
AspS9I GGNCC 2 cut(s) 47, 750
AsuHPI GGTGA 3 cut(s) 22, 638, 934
AvaI CYCGRG 1 cut(s) 707
AvaII GGWCC 1 cut(s) 750
AxyI CCTNAGG 1 cut(s) 73
BaeGI GKGCMC 1 cut(s) 674
BanI GGYRCC 1 cut(s) 77
BanII GRGCYC 1 cut(s) 708
BbsI GAAGAC 2 cut(s) 216, 513
Bbv12I GWGCWC 1 cut(s) 674
BbvI GCAGC 4 cut(s) 114, 151, 262, 706
BccI CCATC 7 cut(s) 281, 352, 437, 725, 878, 940, 1163
BceAI ACGGC 2 cut(s) 61, 204
BcgI CGANNNNNNTGC 6 cut(s) 245, 279, 698, 732, 1138, 1172
BclI TGATCA 1 cut(s) 1077
BcoDI GTCTC 1 cut(s) 635
BfaI CTAG 2 cut(s) 272, 1166
BfmI CTRYAG 1 cut(s) 720
BfuAI ACCTGC 2 cut(s) 401, 657
BglI GCCNNNNNGGC 1 cut(s) 1096
BisI GCNGC 8 cut(s) 103, 106, 113, 165, 276, 531, 720, 975
BlsI GCNGC 8 cut(s) 104, 107, 114, 166, 277, 532, 721, 976
Bme18I GGWCC 1 cut(s) 750
BmeT110I CYCGRG 1 cut(s) 707
BmgT120I GGNCC 2 cut(s) 47, 750
BmiI GGNNCC 4 cut(s) 49, 79, 448, 751
BmsI GCATC 2 cut(s) 482, 834
BpiI GAAGAC 2 cut(s) 216, 513
BpmI CTGGAG 1 cut(s) 646
BpuEI CTTGAG 1 cut(s) 1196
Bsa29I ATCGAT 1 cut(s) 1158
BsaJI CCNNGG 4 cut(s) 186, 397, 784, 1029
BsaWI WCCGGW 1 cut(s) 259
BsaXI ACNNNNNCTCC 2 cut(s) 22, 52
Bsc4I CCNNNNNNNGG 4 cut(s) 119, 187, 259, 655
Bse118I RCCGGY 1 cut(s) 259
Bse1I ACTGG 2 cut(s) 103, 221
Bse21I CCTNAGG 1 cut(s) 73
Bse3DI GCAATG 4 cut(s) 450, 689, 796, 803
BseCI ATCGAT 1 cut(s) 1158
BseDI CCNNGG 4 cut(s) 186, 397, 784, 1029
BseGI GGATG 1 cut(s) 497
BseLI CCNNNNNNNGG 4 cut(s) 119, 187, 259, 655
BseMI GCAATG 4 cut(s) 450, 689, 796, 803
BseMII CTCAG 2 cut(s) 87, 501
BseNI ACTGG 2 cut(s) 103, 221
BseSI GKGCMC 1 cut(s) 674
BseXI GCAGC 4 cut(s) 114, 151, 262, 706
BsgI GTGCAG 2 cut(s) 357, 846
Bsh1236I CGCG 1 cut(s) 115
BshFI GGCC 2 cut(s) 48, 123
BshNI GGYRCC 1 cut(s) 77
BshTI ACCGGT 1 cut(s) 259
BshVI ATCGAT 1 cut(s) 1158
BsiHKAI GWGCWC 1 cut(s) 674
BsiHKCI CYCGRG 1 cut(s) 707
BsiSI CCGG 2 cut(s) 260, 634
BsiWI CGTACG 1 cut(s) 653
BslFI GGGAC 5 cut(s) 236, 326, 446, 497, 655
BslI CCNNNNNNNGG 4 cut(s) 119, 187, 259, 655
BsmAI GTCTC 1 cut(s) 635
BsmFI GGGAC 5 cut(s) 236, 326, 446, 497, 655
BsnI GGCC 2 cut(s) 48, 123
BsoBI CYCGRG 1 cut(s) 707
Bsp1286I GDGCHC 2 cut(s) 674, 708
Bsp143I GATC 4 cut(s) 734, 780, 1053, 1077
BspACI CCGC 5 cut(s) 106, 113, 531, 637, 975
BspANI GGCC 2 cut(s) 48, 123
BspCNI CTCAG 2 cut(s) 86, 500
BspDI ATCGAT 1 cut(s) 1158
BspFNI CGCG 1 cut(s) 115
BspHI TCATGA 2 cut(s) 409, 1080
BspLI GGNNCC 4 cut(s) 49, 79, 448, 751
BspMAI CTGCAG 1 cut(s) 724
BspMI ACCTGC 2 cut(s) 401, 657
BspPI GGATC 2 cut(s) 742, 775
BspT107I GGYRCC 1 cut(s) 77
BsrBI CCGCTC 2 cut(s) 108, 533
BsrDI GCAATG 4 cut(s) 450, 689, 796, 803
BsrFI RCCGGY 1 cut(s) 259
BsrI ACTGG 2 cut(s) 103, 221
BssAI RCCGGY 1 cut(s) 259
BssECI CCNNGG 4 cut(s) 186, 397, 784, 1029
BssMI GATC 4 cut(s) 734, 780, 1053, 1077
BssT1I CCWWGG 3 cut(s) 397, 784, 1029
Bst4CI ACNGT 3 cut(s) 93, 130, 658
BstC8I GCNNGC 5 cut(s) 110, 372, 952, 979, 1092
BstDEI CTNAG 5 cut(s) 73, 487, 865, 956, 1221
BstDSI CCRYGG 1 cut(s) 186
BstF5I GGATG 1 cut(s) 497
BstFNI CGCG 1 cut(s) 115
BstKTI GATC 4 cut(s) 737, 783, 1056, 1080
BstMAI GTCTC 1 cut(s) 635
BstMBI GATC 4 cut(s) 734, 780, 1053, 1077
BstMWI GCNNNNNNNGC 4 cut(s) 65, 272, 318, 1096
BstNSI RCATGY 1 cut(s) 618
BstSFI CTRYAG 1 cut(s) 720
BstSLI GKGCMC 1 cut(s) 674
BstUI CGCG 1 cut(s) 115
BstV1I GCAGC 4 cut(s) 114, 151, 262, 706
BstV2I GAAGAC 2 cut(s) 216, 513
Bsu15I ATCGAT 1 cut(s) 1158
Bsu36I CCTNAGG 1 cut(s) 73
BsuRI GGCC 2 cut(s) 48, 123
BsuTUI ATCGAT 1 cut(s) 1158
BtgI CCRYGG 1 cut(s) 186
BtsCI GGATG 1 cut(s) 497
BtsI GCAGTG 4 cut(s) 328, 365, 442, 829
BtsIMutI CAGTG 6 cut(s) 96, 126, 328, 365, 442, 829
BveI ACCTGC 2 cut(s) 401, 657
Cac8I GCNNGC 5 cut(s) 110, 372, 952, 979, 1092
CciI TCATGA 2 cut(s) 409, 1080
Cfr10I RCCGGY 1 cut(s) 259
Cfr13I GGNCC 2 cut(s) 47, 750
ClaI ATCGAT 1 cut(s) 1158
Csp6I GTAC 4 cut(s) 295, 567, 654, 740
CspAI ACCGGT 1 cut(s) 259
CviAII CATG 4 cut(s) 410, 597, 615, 1081
CviQI GTAC 4 cut(s) 295, 567, 654, 740
DdeI CTNAG 5 cut(s) 73, 487, 865, 956, 1221
DpnI GATC 4 cut(s) 736, 782, 1055, 1079
DpnII GATC 4 cut(s) 734, 780, 1053, 1077
Eco130I CCWWGG 3 cut(s) 397, 784, 1029
Eco147I AGGCCT 1 cut(s) 123
Eco24I GRGCYC 1 cut(s) 708
Eco47I GGWCC 1 cut(s) 750
Eco57I CTGAAG 2 cut(s) 861, 1029
Eco81I CCTNAGG 1 cut(s) 73
Eco88I CYCGRG 1 cut(s) 707
EcoO109I RGGNCCY 1 cut(s) 750
EcoT14I CCWWGG 3 cut(s) 397, 784, 1029
EcoT38I GRGCYC 1 cut(s) 708
ErhI CCWWGG 3 cut(s) 397, 784, 1029
FaeI CATG 4 cut(s) 413, 600, 618, 1084
FaqI GGGAC 5 cut(s) 236, 326, 446, 497, 655
FatI CATG 4 cut(s) 409, 596, 614, 1080
FauI CCCGC 1 cut(s) 630
FbaI TGATCA 1 cut(s) 1077
Fnu4HI GCNGC 8 cut(s) 103, 106, 113, 165, 276, 531, 720, 975
FokI GGATG 1 cut(s) 504
FriOI GRGCYC 1 cut(s) 708
Fsp4HI GCNGC 8 cut(s) 103, 106, 113, 165, 276, 531, 720, 975
FspBI CTAG 2 cut(s) 272, 1166
GluI GCNGC 8 cut(s) 103, 106, 113, 165, 276, 531, 720, 975
GsuI CTGGAG 1 cut(s) 646
HaeIII GGCC 2 cut(s) 48, 123
HapII CCGG 2 cut(s) 260, 634
Hin1II CATG 4 cut(s) 413, 600, 618, 1084
HindIII AAGCTT 1 cut(s) 66
HinfI GANTC 8 cut(s) 416, 485, 542, 608, 628, 643, 1034, 1169
HpaII CCGG 2 cut(s) 260, 634
HphI GGTGA 3 cut(s) 22, 638, 934
Hpy166II GTNNAC 3 cut(s) 96, 672, 742
Hpy188I TCNGA 4 cut(s) 137, 541, 880, 1009
Hpy188III TCNNGA 6 cut(s) 41, 410, 489, 625, 841, 1081
Hpy8I GTNNAC 3 cut(s) 96, 672, 742
Hpy99I CGWCG 1 cut(s) 47
HpyAV CCTTC 1 cut(s) 852
HpyCH4III ACNGT 3 cut(s) 93, 130, 658
HpyF10VI GCNNNNNNNGC 4 cut(s) 65, 272, 318, 1096
HpyF3I CTNAG 5 cut(s) 73, 487, 865, 956, 1221
Hsp92II CATG 4 cut(s) 413, 600, 618, 1084
Ksp22I TGATCA 1 cut(s) 1077
Kzo9I GATC 4 cut(s) 734, 780, 1053, 1077
LmnI GCTCC 1 cut(s) 1146
Lsp1109I GCAGC 4 cut(s) 114, 151, 262, 706
LweI GCATC 2 cut(s) 482, 834
MaeI CTAG 2 cut(s) 272, 1166
MaeIII GTNAC 1 cut(s) 388
MalI GATC 4 cut(s) 736, 782, 1055, 1079
MbiI CCGCTC 2 cut(s) 108, 533
MboI GATC 4 cut(s) 734, 780, 1053, 1077
MboII GAAGA 5 cut(s) 3, 216, 518, 893, 1127
MhlI GDGCHC 2 cut(s) 674, 708
MluCI AATT 2 cut(s) 21, 794
MlyI GAGTC 3 cut(s) 479, 637, 637
MmeI TCCRAC 1 cut(s) 115
MroXI GAANNNNTTC 1 cut(s) 1206
MslI CAYNNNNRTG 2 cut(s) 822, 1085
MspI CCGG 2 cut(s) 260, 634
MvnI CGCG 1 cut(s) 115
MwoI GCNNNNNNNGC 4 cut(s) 65, 272, 318, 1096
NdeII GATC 4 cut(s) 734, 780, 1053, 1077
NlaIII CATG 4 cut(s) 413, 600, 618, 1084
NlaIV GGNNCC 4 cut(s) 49, 79, 448, 751
NspI RCATGY 1 cut(s) 618
OliI CACNNNNGTG 1 cut(s) 822
PagI TCATGA 2 cut(s) 409, 1080
PaqCI CACCTGC 1 cut(s) 657
PceI AGGCCT 1 cut(s) 123
PciI ACATGT 1 cut(s) 614
PdmI GAANNNNTTC 1 cut(s) 1206
PfeI GAWTC 5 cut(s) 416, 542, 608, 1034, 1169
Pfl23II CGTACG 1 cut(s) 653
PinAI ACCGGT 1 cut(s) 259
PkrI GCNGC 8 cut(s) 104, 107, 114, 166, 277, 532, 721, 976
PleI GAGTC 3 cut(s) 479, 636, 637
PpsI GAGTC 3 cut(s) 479, 636, 637
PpuMI RGGWCCY 1 cut(s) 750
PscI ACATGT 1 cut(s) 614
PsiI TTATAA 1 cut(s) 990
Psp5II RGGWCCY 1 cut(s) 750
PspLI CGTACG 1 cut(s) 653
PspN4I GGNNCC 4 cut(s) 49, 79, 448, 751
PspPI GGNCC 2 cut(s) 47, 750
PspPPI RGGWCCY 1 cut(s) 750
PstI CTGCAG 1 cut(s) 724
RsaI GTAC 4 cut(s) 296, 568, 655, 741
RsaNI GTAC 4 cut(s) 295, 567, 654, 740
RseI CAYNNNNRTG 2 cut(s) 822, 1085
SatI GCNGC 8 cut(s) 103, 106, 113, 165, 276, 531, 720, 975
Sau3AI GATC 4 cut(s) 734, 780, 1053, 1077
Sau96I GGNCC 2 cut(s) 47, 750
SchI GAGTC 3 cut(s) 479, 637, 637
SduI GDGCHC 2 cut(s) 674, 708
SfaNI GCATC 2 cut(s) 482, 834
SfcI CTRYAG 1 cut(s) 720
SinI GGWCC 1 cut(s) 750
SmiMI CAYNNNNRTG 2 cut(s) 822, 1085
SmlI CTYRAG 1 cut(s) 1211
SmoI CTYRAG 1 cut(s) 1211
Sse9I AATT 2 cut(s) 21, 794
SseBI AGGCCT 1 cut(s) 123
SsiI CCGC 5 cut(s) 106, 113, 531, 637, 975
SspMI CTAG 2 cut(s) 272, 1166
StuI AGGCCT 1 cut(s) 123
StyI CCWWGG 3 cut(s) 397, 784, 1029
TaaI ACNGT 3 cut(s) 93, 130, 658
TaqI TCGA 2 cut(s) 227, 1158
TasI AATT 2 cut(s) 21, 794
TauI GCSGC 4 cut(s) 108, 115, 533, 977
TfiI GAWTC 5 cut(s) 416, 542, 608, 1034, 1169
TscAI CASTG 6 cut(s) 103, 133, 328, 372, 442, 829
TseI GCWGC 4 cut(s) 102, 164, 275, 719
TspDTI ATGAA 3 cut(s) 78, 429, 807
TspGWI ACGGA 1 cut(s) 657
TspRI CASTG 6 cut(s) 103, 133, 328, 372, 442, 829
VneI GTGCAC 1 cut(s) 670
VpaK11BI GGWCC 1 cut(s) 750
XceI RCATGY 1 cut(s) 618
XmnI GAANNNNTTC 1 cut(s) 1206
XspI CTAG 2 cut(s) 272, 1166
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.