FvH4_3g17760

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0017626
Physical Location & Seq
Reverse (-)
11302194 .. 11303435
1242 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g17760.t1

Sequence Viewer

Length: 1242 bp
ATGTCTTCTTCTTCCCCTGAAATTGTCCTGACCAGCTCTCCGGATGGCCCCATTGTTGCCTATGATGTATCCGCAGGAACCATTGTAGCACAGTTCACCGGCAGCCGCTCACCGCGACGAGGCCTTACTGTTGTTGGAAAGGATTTTGGAAAGAGTTACATCGCTGCCTCACACATATCCCCAACCACGGGTTGTGGTTCAATCCACCTTTACAAATGGTGGTCTTCGACTGCCTTTCACAACCTCCCTCTCCCCGAACCGGTTGCACCACTAGCTGCCTCATTTGATGGCTTGTACCTCTTTGCTGGTGGCATATCAGGCAGTGTGCATACACTTTCAGTCCCATCAGGGAATGTGCTTAAATCACTGCCTACACATAACAAGCCTGTGACCTGCGTTGGTGTCAATCATGACGAGTCTCTTCTGATTTCTGGCAGTGATGATGGAACCATCGCTATTGTCCCTATCTTTCGGCTTGTAGGGGACTCGGAATGTGAGAATGTTGAAGACATAATATTGCACAAGTTTGCTGCTCATTCTGATTCTGTCACTGCCATTGTCTCTGGTTCAGGATTATGCTACTCACAGATTATCTCATGCTCAGCGGATTCCACATGCAAGTTCTGGAGTCTCCGGAGGGGAACCCACCTGCGTACAGTTGTGTTTCCCTGCACGATTTCTGGGATTGCATTACACCCCACAGAGCCCGAGTTCTATGCTGCAGGGTCGGATGGTTCGGTATACATAGGATCCTTTATGGTTGGAAGCAGAAAAAATGTAATCCAAGGCAGTGAACTGATGACATTTCCTCATAAGCACCGTGGTGCAGTTGTATCTGCTGTTCTGGTAAACGCAGGAAGGAACATGGTTTCGGCTTCAGAAGATGGGATTGTTTTGATTTGGGATGTTGGTGAAGGTCAGGTGATTATGGCTTTTGGAAATGAGATGTCAAGCATTAGTGATTTGGTGTCTGCAACAGGGATAAGTTATAACAAAGGGCATAGTTCTGCGGTGGGTAAAAATGTTGCTACAGAGTGTGATATTGCGCTCTCTTGCGAAGAACTGATCAAGACTATGCCTGTAAGGCAGATGATAGAAATGGAAGATCTGTTGAAAGTGGCAGCAGAAGATCGGAGCAGAGCCATCGATACACTTGAATCTGCTATTGCAATATATGAAAAGCTCCTGGAACTCATTCTCAATGAAGCTAAGAAATGCACTCTCAGCAGTAAACAGAGGTGA
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

43.8

Weight (kDa)

5.71

Isoelectric Point (pI)

50.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 3 - 153 3e-07 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 67 - 153 3.7e-08 WDR5 beta-propeller domain
Beta-prop_EML_2 PF23414 67 - 216 8.5e-06 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 87 - 247 4.8e-14 WDR3 first beta-propeller domain
WD40_CDC20-Fz PF24807 91 - 240 4.3e-06 CDC20/Fizzy WD40 domain
WD40_MABP1-WDR62_2nd PF24782 91 - 311 4.7e-06 MABP1/WDR62 second WD40 domain
WD40_WDHD1_1st PF24817 95 - 320 8.1e-11 WDHD1 first WD40 domain
NBCH_WD40 PF20426 96 - 226 6.2e-12 Neurobeachin beta propeller domain
WD40_Prp19 PF24814 98 - 232 4.8e-11 Prp19 WD40 domain
WD40 PF00400 118 - 152 1e-06 WD domain, G-beta repeat
Beta-prop_THOC3 PF25174 126 - 233 3.5e-08 THOC3 beta-propeller domain
Beta-prop_WDR36-Utp21_2nd PF25168 177 - 339 2.4e-08 WDR36/Utp21 second beta-propeller domain
EIF3I PF24805 195 - 325 1.4e-07 EIF3I
Beta-prop_THOC3 PF25174 196 - 316 4.3e-08 THOC3 beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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
AccBSI CCGCTC 1 cut(s) 108
AccI GTMKAC 1 cut(s) 741
AccII CGCG 1 cut(s) 115
AccIII TCCGGA 2 cut(s) 40, 633
AciI CCGC 5 cut(s) 72, 106, 113, 605, 1010
AclWI GGATC 2 cut(s) 744, 757
AcuI CTGAAG 1 cut(s) 861
AfaI GTAC 2 cut(s) 296, 655
AfiI CCNNNNNNNGG 4 cut(s) 119, 187, 188, 259
AgeI ACCGGT 1 cut(s) 259
AgsI TTSAA 4 cut(s) 201, 506, 1114, 1157
AjnI CCWGG 1 cut(s) 1185
AleI CACNNNNGTG 1 cut(s) 822
AluBI AGCT 4 cut(s) 36, 275, 1183, 1208
AluI AGCT 4 cut(s) 36, 275, 1183, 1208
Alw26I GTCTC 3 cut(s) 423, 565, 635
AlwI GGATC 2 cut(s) 744, 757
Ama87I CYCGRG 1 cut(s) 707
Aor13HI TCCGGA 2 cut(s) 40, 633
AoxI GGCC 2 cut(s) 46, 121
ApeKI GCWGC 6 cut(s) 102, 164, 275, 530, 719, 1121
AsiGI ACCGGT 1 cut(s) 259
Asp700I GAANNNNTTC 1 cut(s) 1194
AspLEI GCGC 1 cut(s) 1048
AspS9I GGNCC 1 cut(s) 47
AsuHPI GGTGA 4 cut(s) 88, 102, 923, 934
AvaI CYCGRG 1 cut(s) 707
BamHI GGATCC 1 cut(s) 749
BanII GRGCYC 1 cut(s) 708
BbsI GAAGAC 2 cut(s) 216, 513
BbvI GCAGC 6 cut(s) 114, 151, 262, 517, 706, 1133
BccI CCATC 8 cut(s) 38, 281, 352, 437, 458, 725, 878, 1151
BcgI CGANNNNNNTGC 6 cut(s) 245, 279, 698, 732, 1126, 1160
BciT130I CCWGG 1 cut(s) 1187
BciVI GTATCC 1 cut(s) 79
BclI TGATCA 1 cut(s) 1065
BcoDI GTCTC 3 cut(s) 423, 565, 635
BfaI CTAG 1 cut(s) 272
BfmI CTRYAG 2 cut(s) 720, 1029
BfuAI ACCTGC 2 cut(s) 401, 657
BfuI GTATCC 1 cut(s) 79
BglI GCCNNNNNGGC 1 cut(s) 1084
BglII AGATCT 1 cut(s) 1105
BisI GCNGC 7 cut(s) 103, 106, 165, 276, 531, 720, 1122
BlpI GCTNAGC 1 cut(s) 601
BlsI GCNGC 7 cut(s) 104, 107, 166, 277, 532, 721, 1123
Bme1390I CCNGG 1 cut(s) 1187
BmeT110I CYCGRG 1 cut(s) 707
BmgT120I GGNCC 1 cut(s) 47
BmiI GGNNCC 5 cut(s) 49, 79, 448, 643, 751
BmrFI CCNGG 1 cut(s) 1187
BpiI GAAGAC 2 cut(s) 216, 513
BpmI CTGGAG 1 cut(s) 646
Bpu1102I GCTNAGC 1 cut(s) 601
Bsa29I ATCGAT 1 cut(s) 1146
BsaJI CCNNGG 3 cut(s) 186, 784, 820
BsaWI WCCGGW 3 cut(s) 40, 259, 633
BsaXI ACNNNNNCTCC 2 cut(s) 22, 52
Bsc4I CCNNNNNNNGG 4 cut(s) 119, 187, 188, 259
Bse118I RCCGGY 2 cut(s) 98, 259
BseAI TCCGGA 2 cut(s) 40, 633
BseBI CCWGG 1 cut(s) 1187
BseCI ATCGAT 1 cut(s) 1146
BseDI CCNNGG 3 cut(s) 186, 784, 820
BseGI GGATG 3 cut(s) 49, 736, 910
BseLI CCNNNNNNNGG 4 cut(s) 119, 187, 188, 259
BseMII CTCAG 2 cut(s) 615, 1237
BseXI GCAGC 6 cut(s) 114, 151, 262, 517, 706, 1133
BsgI GTGCAG 2 cut(s) 655, 846
Bsh1236I CGCG 1 cut(s) 115
BshFI GGCC 2 cut(s) 48, 123
BshTI ACCGGT 1 cut(s) 259
BshVI ATCGAT 1 cut(s) 1146
BsiHKCI CYCGRG 1 cut(s) 707
BsiSI CCGG 4 cut(s) 41, 99, 260, 634
BslFI GGGAC 3 cut(s) 326, 446, 497
BslI CCNNNNNNNGG 4 cut(s) 119, 187, 188, 259
BsmAI GTCTC 3 cut(s) 423, 565, 635
BsmFI GGGAC 3 cut(s) 326, 446, 497
BsnI GGCC 2 cut(s) 48, 123
BsoBI CYCGRG 1 cut(s) 707
Bsp1286I GDGCHC 1 cut(s) 708
Bsp13I TCCGGA 2 cut(s) 40, 633
Bsp143I GATC 4 cut(s) 749, 1065, 1105, 1129
Bsp1720I GCTNAGC 1 cut(s) 601
BspACI CCGC 5 cut(s) 72, 106, 113, 605, 1010
BspANI GGCC 2 cut(s) 48, 123
BspCNI CTCAG 2 cut(s) 614, 1236
BspDI ATCGAT 1 cut(s) 1146
BspEI TCCGGA 2 cut(s) 40, 633
BspFNI CGCG 1 cut(s) 115
BspHI TCATGA 1 cut(s) 409
BspLI GGNNCC 5 cut(s) 49, 79, 448, 643, 751
BspMAI CTGCAG 1 cut(s) 724
BspMI ACCTGC 2 cut(s) 401, 657
BspPI GGATC 2 cut(s) 744, 757
BsrBI CCGCTC 1 cut(s) 108
BsrFI RCCGGY 2 cut(s) 98, 259
BssAI RCCGGY 2 cut(s) 98, 259
BssECI CCNNGG 3 cut(s) 186, 784, 820
BssMI GATC 4 cut(s) 749, 1065, 1105, 1129
BssNAI GTATAC 1 cut(s) 742
BssT1I CCWWGG 1 cut(s) 784
Bst1107I GTATAC 1 cut(s) 742
Bst2UI CCWGG 1 cut(s) 1187
Bst4CI ACNGT 4 cut(s) 93, 130, 658, 821
Bst6I CTCTTC 1 cut(s) 426
BstDEI CTNAG 3 cut(s) 601, 1209, 1223
BstDSI CCRYGG 2 cut(s) 186, 820
BstF5I GGATG 3 cut(s) 49, 736, 910
BstFNI CGCG 1 cut(s) 115
BstHHI GCGC 1 cut(s) 1048
BstKTI GATC 4 cut(s) 752, 1068, 1108, 1132
BstMAI GTCTC 3 cut(s) 423, 565, 635
BstMBI GATC 4 cut(s) 749, 1065, 1105, 1129
BstMWI GCNNNNNNNGC 4 cut(s) 272, 318, 1084, 1224
BstNI CCWGG 1 cut(s) 1187
BstNSI RCATGY 1 cut(s) 618
BstSCI CCNGG 1 cut(s) 1185
BstSFI CTRYAG 2 cut(s) 720, 1029
BstUI CGCG 1 cut(s) 115
BstV1I GCAGC 6 cut(s) 114, 151, 262, 517, 706, 1133
BstV2I GAAGAC 2 cut(s) 216, 513
BstX2I RGATCY 2 cut(s) 749, 1105
BstYI RGATCY 2 cut(s) 749, 1105
BstZ17I GTATAC 1 cut(s) 742
Bsu15I ATCGAT 1 cut(s) 1146
BsuI GTATCC 1 cut(s) 79
BsuRI GGCC 2 cut(s) 48, 123
BsuTUI ATCGAT 1 cut(s) 1146
BtgI CCRYGG 2 cut(s) 186, 820
BtgZI GCGATG 2 cut(s) 145, 436
BtsCI GGATG 3 cut(s) 49, 736, 910
BtsI GCAGTG 5 cut(s) 328, 365, 442, 549, 796
BtsIMutI CAGTG 5 cut(s) 328, 365, 442, 549, 796
BveI ACCTGC 2 cut(s) 401, 657
CciI TCATGA 1 cut(s) 409
CfoI GCGC 1 cut(s) 1048
Cfr10I RCCGGY 2 cut(s) 98, 259
Cfr13I GGNCC 1 cut(s) 47
ClaI ATCGAT 1 cut(s) 1146
Csp6I GTAC 2 cut(s) 295, 654
CspAI ACCGGT 1 cut(s) 259
CviAII CATG 4 cut(s) 410, 597, 615, 865
CviQI GTAC 2 cut(s) 295, 654
DdeI CTNAG 3 cut(s) 601, 1209, 1223
DpnI GATC 4 cut(s) 751, 1067, 1107, 1131
DpnII GATC 4 cut(s) 749, 1065, 1105, 1129
Eam1104I CTCTTC 1 cut(s) 426
EarI CTCTTC 1 cut(s) 426
Eco130I CCWWGG 1 cut(s) 784
Eco147I AGGCCT 1 cut(s) 123
Eco24I GRGCYC 1 cut(s) 708
Eco57I CTGAAG 1 cut(s) 861
Eco88I CYCGRG 1 cut(s) 707
EcoRII CCWGG 1 cut(s) 1185
EcoT14I CCWWGG 1 cut(s) 784
EcoT38I GRGCYC 1 cut(s) 708
ErhI CCWWGG 1 cut(s) 784
FaeI CATG 4 cut(s) 413, 600, 618, 868
FaqI GGGAC 3 cut(s) 326, 446, 497
FatI CATG 4 cut(s) 409, 596, 614, 864
FbaI TGATCA 1 cut(s) 1065
FblI GTMKAC 1 cut(s) 741
Fnu4HI GCNGC 7 cut(s) 103, 106, 165, 276, 531, 720, 1122
FokI GGATG 3 cut(s) 56, 743, 917
FriOI GRGCYC 1 cut(s) 708
Fsp4HI GCNGC 7 cut(s) 103, 106, 165, 276, 531, 720, 1122
FspBI CTAG 1 cut(s) 272
GlaI GCGC 1 cut(s) 1047
GluI GCNGC 7 cut(s) 103, 106, 165, 276, 531, 720, 1122
GsuI CTGGAG 1 cut(s) 646
HaeIII GGCC 2 cut(s) 48, 123
HapII CCGG 4 cut(s) 41, 99, 260, 634
HhaI GCGC 1 cut(s) 1048
Hin1II CATG 4 cut(s) 413, 600, 618, 868
Hin6I GCGC 1 cut(s) 1046
HinP1I GCGC 1 cut(s) 1046
HinfI GANTC 6 cut(s) 416, 485, 542, 608, 628, 1157
HpaII CCGG 4 cut(s) 41, 99, 260, 634
HphI GGTGA 4 cut(s) 88, 102, 923, 934
Hpy166II GTNNAC 5 cut(s) 96, 742, 794, 850, 1232
Hpy188I TCNGA 6 cut(s) 426, 490, 541, 730, 880, 1134
Hpy188III TCNNGA 7 cut(s) 28, 41, 410, 570, 625, 634, 1069
Hpy8I GTNNAC 5 cut(s) 96, 742, 794, 850, 1232
Hpy99I CGWCG 1 cut(s) 120
HpyAV CCTTC 2 cut(s) 852, 908
HpyCH4III ACNGT 4 cut(s) 93, 130, 658, 821
HpyF10VI GCNNNNNNNGC 4 cut(s) 272, 318, 1084, 1224
HpyF3I CTNAG 3 cut(s) 601, 1209, 1223
Hsp92II CATG 4 cut(s) 413, 600, 618, 868
HspAI GCGC 1 cut(s) 1046
Kpn2I TCCGGA 2 cut(s) 40, 633
Ksp22I TGATCA 1 cut(s) 1065
Kzo9I GATC 4 cut(s) 749, 1065, 1105, 1129
LmnI GCTCC 2 cut(s) 1134, 1188
Lsp1109I GCAGC 6 cut(s) 114, 151, 262, 517, 706, 1133
MaeI CTAG 1 cut(s) 272
MaeIII GTNAC 3 cut(s) 155, 388, 547
MalI GATC 4 cut(s) 751, 1067, 1107, 1131
MbiI CCGCTC 1 cut(s) 108
MboI GATC 4 cut(s) 749, 1065, 1105, 1129
MboII GAAGA 8 cut(s) 3, 216, 413, 518, 893, 1070, 1115, 1139
MflI RGATCY 2 cut(s) 749, 1105
MhlI GDGCHC 1 cut(s) 708
MluCI AATT 1 cut(s) 21
MlyI GAGTC 3 cut(s) 425, 479, 637
MmeI TCCRAC 3 cut(s) 115, 708, 742
MnlI CCTC 9 cut(s) 113, 178, 254, 258, 289, 308, 630, 819, 1230
MroI TCCGGA 2 cut(s) 40, 633
MroXI GAANNNNTTC 1 cut(s) 1194
MseI TTAA 1 cut(s) 360
MslI CAYNNNNRTG 1 cut(s) 822
MspA1I CMGCKG 1 cut(s) 605
MspI CCGG 4 cut(s) 41, 99, 260, 634
MspR9I CCNGG 1 cut(s) 1187
MvaI CCWGG 1 cut(s) 1187
MvnI CGCG 1 cut(s) 115
MwoI GCNNNNNNNGC 4 cut(s) 272, 318, 1084, 1224
NdeII GATC 4 cut(s) 749, 1065, 1105, 1129
NlaIII CATG 4 cut(s) 413, 600, 618, 868
NlaIV GGNNCC 5 cut(s) 49, 79, 448, 643, 751
NmuCI GTSAC 2 cut(s) 388, 547
NspI RCATGY 1 cut(s) 618
OliI CACNNNNGTG 1 cut(s) 822
PagI TCATGA 1 cut(s) 409
PaqCI CACCTGC 1 cut(s) 657
PceI AGGCCT 1 cut(s) 123
PdmI GAANNNNTTC 1 cut(s) 1194
PfeI GAWTC 3 cut(s) 542, 608, 1157
PfoI TCCNGGA 1 cut(s) 1185
PinAI ACCGGT 1 cut(s) 259
PkrI GCNGC 7 cut(s) 104, 107, 166, 277, 532, 721, 1123
PleI GAGTC 3 cut(s) 424, 479, 636
PpsI GAGTC 3 cut(s) 424, 479, 636
PsiI TTATAA 1 cut(s) 990
Psp6I CCWGG 1 cut(s) 1185
PspGI CCWGG 1 cut(s) 1185
PspN4I GGNNCC 5 cut(s) 49, 79, 448, 643, 751
PspPI GGNCC 1 cut(s) 47
PsrI GAACNNNNNNTAC 2 cut(s) 825, 857
PstI CTGCAG 1 cut(s) 724
PsuI RGATCY 2 cut(s) 749, 1105
RsaI GTAC 2 cut(s) 296, 655
RsaNI GTAC 2 cut(s) 295, 654
RseI CAYNNNNRTG 1 cut(s) 822
SaqAI TTAA 1 cut(s) 360
SatI GCNGC 7 cut(s) 103, 106, 165, 276, 531, 720, 1122
Sau3AI GATC 4 cut(s) 749, 1065, 1105, 1129
Sau96I GGNCC 1 cut(s) 47
SchI GAGTC 3 cut(s) 425, 479, 637
ScrFI CCNGG 1 cut(s) 1187
SduI GDGCHC 1 cut(s) 708
SfcI CTRYAG 2 cut(s) 720, 1029
SmiMI CAYNNNNRTG 1 cut(s) 822
Sse9I AATT 1 cut(s) 21
SseBI AGGCCT 1 cut(s) 123
SsiI CCGC 5 cut(s) 72, 106, 113, 605, 1010
SspI AATATT 1 cut(s) 516
SspMI CTAG 1 cut(s) 272
StuI AGGCCT 1 cut(s) 123
StyD4I CCNGG 1 cut(s) 1185
StyI CCWWGG 1 cut(s) 784
TaaI ACNGT 4 cut(s) 93, 130, 658, 821
TaqI TCGA 2 cut(s) 227, 1146
TasI AATT 1 cut(s) 21
TauI GCSGC 1 cut(s) 108
TfiI GAWTC 3 cut(s) 542, 608, 1157
Tru1I TTAA 1 cut(s) 360
Tru9I TTAA 1 cut(s) 360
TscAI CASTG 5 cut(s) 328, 372, 442, 556, 796
TseFI GTSAC 2 cut(s) 388, 547
TseI GCWGC 6 cut(s) 102, 164, 275, 530, 719, 1121
Tsp45I GTSAC 2 cut(s) 388, 547
TspDTI ATGAA 2 cut(s) 1191, 1218
TspRI CASTG 5 cut(s) 328, 372, 442, 556, 796
XceI RCATGY 1 cut(s) 618
XmiI GTMKAC 1 cut(s) 741
XmnI GAANNNNTTC 1 cut(s) 1194
XspI CTAG 1 cut(s) 272
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.