FvH4_5g07940

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0012617
Physical Location & Seq
Reverse (-)
4610242 .. 4613900
3659 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g07940.t1

Sequence Viewer

Length: 1419 bp
ATGACTGGAAATGGGGGTGAGGCAGTGGTGGTGTGCAGTGACAAGAGCATGGGAACAGGGATAACAGTATGGGACATAGACACAAGGGATCGTCTCCTTCATATACCTTCCTGTGCTTCTCCTCCTAGAGGTCTTTTGTGCCTGAGGAACCAGTTCATTGTTGCTTCTCAGATTCACAGGCCTGGCTCTGTTGGCGGGGGAGTCATCACTATGTGGCCACTGAACAAGCCTCAACAGCCTCTTTGGAGCTACCCTGTGGAGGCCATTGTATCACTTGCATGCACAAAGGATGGTGTATATCTTGCTGGCGGTGCTCCATCTGGAAATGCATATCTTTGGGAGGTCAATAGTGGAAAATTGCTCAAAACTTGGCGTGCACACTGTACTTCTTTGAACTGCATGCTGTTTTCTGATGATGGGGCTCTTCTCATTTCTGGCGCAGATGATGGCATGATCTGTGTGTGGTCTTTAATTAGTTTGCTAGATGTGGAAGATTACCAAAGCTTTCCCTCACTACTAAATTATTCAATGGATCACAAATCCTCTATAACTGCCCTGTCAACTACATCAGGGAGCTCAAGATTGGTCCTAGTATCAAGCTCACTTGATGGCTCATGCAAGGTTTGGGATTTAAGCTTGGGAACGCTTCTGCATACTCAAGTTTATCCAATATCAATAACTGCGCTTGTTCTTAGCCCAACAGAGCAGCTCTTTTTTTCTGGTGGTATAGATGGAAGAATTTTCGTGAACCAACTTGAAATTGGACTGATGGATGATGACACTTTGCTCGTTGAAGATCAAGCAGTTGTGCTAAAAGGACACAATGGATCAATTTCTGCATTGACCTTCTGCCAATCTGGTCTGATATCTGCATCTGAGGATTGCACCATCTGCATCTGGGATGCCACCACTAGGGCAATCATTCATAGATTCGACCATCAGAAAGGGCCTGTAACTAATCTGGCAGTGATCCCACTATCCTCACTGCTTCCAGGATCGAACCAACGAAGAGGATTCGGTCTTTCCATACTCAAGAAGTATCCTCAGCCTGCCAACTCATCCAGGCACGACATGAGTATCACTCTTGCTTCTCCATGCCAAGTCCTGAAAGAGGATCATAACTTAATAAATTGCCAAACCACTGATACACACCAGCATATTTATGACATGGAGAAAGAACACACTCCTGCATCAATGGAAATGAAATTGGAACAAAGTTTAGAGGAGCGGATGTGGGCAACAAGAATGGCAAACCATGTAATGGACATGAATAGGCACCTTCAGTCACGGTTGTTAGATTTGATGCAGAGCAACTTTTTATTGTCCAGGTCTACTGAAATGGATTCACCTCCAAGAAAAAAGAGAAAGACTACTCTCATGTCTGAAAGTCCTCCATTACAGGAGGTGGAGCAATCCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0007275 GO:0007368 GO:0007389 GO:0008150 GO:0009799 GO:0009855 GO:0032501 GO:0032502 GO:0048856 GO:0070121
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
WD40

Protein Analysis

473

Amino Acids

51.84

Weight (kDa)

5.74

Isoelectric Point (pI)

49.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_Gbeta PF25391 63 - 210 1.8e-07 G protein beta WD-40 repeat protein
Beta-prop_EML_2 PF23414 67 - 210 2.2e-08 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 71 - 248 4e-19 WDR3 first beta-propeller domain
Beta-prop_WDR3_2nd PF25172 85 - 326 1.3e-12 WDR3 second beta-propeller domain
Beta-prop_THOC3 PF25174 87 - 157 1e-08 THOC3 beta-propeller domain
WD40_CDC20-Fz PF24807 87 - 210 6e-09 CDC20/Fizzy WD40 domain
Beta-prop_WDR5 PF25175 88 - 323 3.1e-21 WDR5 beta-propeller domain
Beta-prop_WDR36-Utp21_1st PF25171 88 - 328 2.3e-10 WDR36/Utp21 first beta-propeller
WD40_Prp19 PF24814 89 - 160 7.1e-07 Prp19 WD40 domain
WD40 PF00400 118 - 156 2.1e-08 WD domain, G-beta repeat
Beta-prop_TEP1_2nd PF25047 122 - 219 2.6e-06 TEP-1 second beta-propeller
EIF3I PF24805 127 - 323 9.6e-08 EIF3I
WD40_CDC20-Fz PF24807 136 - 240 1.6e-06 CDC20/Fizzy WD40 domain
WD40_WDHD1_1st PF24817 178 - 322 4.8e-10 WDHD1 first WD40 domain
Beta-prop_WDR3_1st PF25173 226 - 329 1.9e-10 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 226 - 325 1.1e-06 THOC3 beta-propeller domain
WD40_Prp19 PF24814 226 - 401 1.1e-09 Prp19 WD40 domain
Beta-prop_WDR5 PF25175 226 - 327 5.2e-06 WDR5 beta-propeller domain
Beta-prop_TEP1_C PF25048 274 - 326 5.7e-07 TEP-1 C-terminal beta-propeller
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1275
AccB7I CCANNNNNTGG 1 cut(s) 1261
AccBSI CCGCTC 1 cut(s) 1228
AccI GTMKAC 1 cut(s) 1331
AciI CCGC 3 cut(s) 195, 309, 1228
AclWI GGATC 6 cut(s) 96, 540, 835, 964, 1003, 1122
AcoI YGGCCR 1 cut(s) 215
AcsI RAATTY 1 cut(s) 738
AcuI CTGAAG 1 cut(s) 1265
AdeI CACNNNGTG 1 cut(s) 213
AfaI GTAC 1 cut(s) 385
AfiI CCNNNNNNNGG 5 cut(s) 128, 259, 912, 1111, 1261
AgsI TTSAA 4 cut(s) 394, 528, 758, 794
AjnI CCWGG 4 cut(s) 181, 991, 1061, 1325
AluBI AGCT 6 cut(s) 249, 504, 576, 600, 636, 709
AluI AGCT 6 cut(s) 249, 504, 576, 600, 636, 709
Alw21I GWGCWC 3 cut(s) 316, 379, 578
Alw26I GTCTC 1 cut(s) 98
Alw44I GTGCAC 1 cut(s) 375
AlwI GGATC 6 cut(s) 96, 540, 835, 964, 1003, 1122
AoxI GGCC 4 cut(s) 179, 215, 261, 947
ApaLI GTGCAC 1 cut(s) 375
ApeKI GCWGC 1 cut(s) 706
ApoI RAATTY 1 cut(s) 738
Asp700I GAANNNNTTC 1 cut(s) 152
AspLEI GCGC 2 cut(s) 440, 685
AspS9I GGNCC 2 cut(s) 586, 947
AsuHPI GGTGA 2 cut(s) 29, 1338
AvaII GGWCC 1 cut(s) 586
AxyI CCTNAGG 1 cut(s) 143
BaeGI GKGCMC 1 cut(s) 379
BaeI ACNNNNGTAYC 2 cut(s) 1060, 1093
BalI TGGCCA 1 cut(s) 217
BanI GGYRCC 1 cut(s) 1275
BanII GRGCYC 2 cut(s) 424, 578
Bbv12I GWGCWC 3 cut(s) 316, 379, 578
BbvCI CCTCAGC 1 cut(s) 1044
BbvI GCAGC 1 cut(s) 718
BccI CCATC 9 cut(s) 284, 325, 410, 440, 602, 725, 763, 896, 945
BciT130I CCWGG 4 cut(s) 183, 993, 1063, 1327
BciVI GTATCC 1 cut(s) 1050
BcoDI GTCTC 1 cut(s) 98
BfaI CTAG 4 cut(s) 126, 482, 590, 912
BfuI GTATCC 1 cut(s) 1050
BisI GCNGC 1 cut(s) 707
BlsI GCNGC 1 cut(s) 708
Bme1390I CCNGG 4 cut(s) 183, 993, 1063, 1327
Bme18I GGWCC 1 cut(s) 586
BmgT120I GGNCC 2 cut(s) 586, 947
BmiI GGNNCC 2 cut(s) 149, 1277
BmrFI CCNGG 4 cut(s) 183, 993, 1063, 1327
BmsI GCATC 5 cut(s) 881, 892, 903, 1199, 1293
BplI GAGNNNNNCTC 2 cut(s) 1066, 1098
Bpu10I CCTNAGC 1 cut(s) 1044
BpuEI CTTGAG 3 cut(s) 562, 642, 1016
BsaXI ACNNNNNCTCC 2 cut(s) 1217, 1247
Bsc4I CCNNNNNNNGG 5 cut(s) 128, 259, 912, 1111, 1261
Bse1I ACTGG 2 cut(s) 10, 151
Bse21I CCTNAGG 1 cut(s) 143
BseBI CCWGG 4 cut(s) 183, 993, 1063, 1327
BseGI GGATG 5 cut(s) 295, 778, 907, 1058, 1236
BseLI CCNNNNNNNGG 5 cut(s) 128, 259, 912, 1111, 1261
BseMII CTCAG 4 cut(s) 134, 182, 867, 1058
BseNI ACTGG 2 cut(s) 10, 151
BseRI GAGGAG 2 cut(s) 111, 1238
BseSI GKGCMC 1 cut(s) 379
BseXI GCAGC 1 cut(s) 718
BsgI GTGCAG 1 cut(s) 55
BshFI GGCC 4 cut(s) 181, 217, 263, 949
BshNI GGYRCC 1 cut(s) 1275
BsiHKAI GWGCWC 3 cut(s) 316, 379, 578
BslFI GGGAC 1 cut(s) 86
BslI CCNNNNNNNGG 5 cut(s) 128, 259, 912, 1111, 1261
BsmAI GTCTC 1 cut(s) 98
BsmBI CGTCTC 1 cut(s) 98
BsmFI GGGAC 1 cut(s) 86
BsnI GGCC 4 cut(s) 181, 217, 263, 949
Bsp1286I GDGCHC 4 cut(s) 316, 379, 424, 578
Bsp143I GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
BspACI CCGC 3 cut(s) 195, 309, 1228
BspANI GGCC 4 cut(s) 181, 217, 263, 949
BspCNI CTCAG 4 cut(s) 135, 181, 868, 1057
BspLI GGNNCC 2 cut(s) 149, 1277
BspPI GGATC 6 cut(s) 96, 540, 835, 964, 1003, 1122
BspQI GCTCTTC 1 cut(s) 429
BspT107I GGYRCC 1 cut(s) 1275
BsrBI CCGCTC 1 cut(s) 1228
BsrI ACTGG 2 cut(s) 10, 151
BssMI GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
Bst2UI CCWGG 4 cut(s) 183, 993, 1063, 1327
Bst4CI ACNGT 3 cut(s) 67, 383, 1290
Bst6I CTCTTC 2 cut(s) 429, 1003
BstAPI GCANNNNNTGC 1 cut(s) 891
BstC8I GCNNGC 5 cut(s) 280, 307, 375, 401, 1050
BstDEI CTNAG 5 cut(s) 143, 168, 692, 876, 1044
BstENI CCTNNNNNAGG 2 cut(s) 126, 1109
BstF5I GGATG 5 cut(s) 295, 778, 907, 1058, 1236
BstHHI GCGC 2 cut(s) 440, 685
BstKTI GATC 8 cut(s) 91, 456, 535, 799, 830, 972, 998, 1117
BstMAI GTCTC 1 cut(s) 98
BstMBI GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
BstMWI GCNNNNNNNGC 4 cut(s) 192, 235, 311, 891
BstNI CCWGG 4 cut(s) 183, 993, 1063, 1327
BstNSI RCATGY 2 cut(s) 282, 403
BstSCI CCNGG 4 cut(s) 181, 991, 1061, 1325
BstSLI GKGCMC 1 cut(s) 379
BstV1I GCAGC 1 cut(s) 718
Bsu36I CCTNAGG 1 cut(s) 143
BsuI GTATCC 1 cut(s) 1050
BsuRI GGCC 4 cut(s) 181, 217, 263, 949
BtsCI GGATG 5 cut(s) 295, 778, 907, 1058, 1236
BtsI GCAGTG 4 cut(s) 30, 43, 972, 983
BtsIMutI CAGTG 7 cut(s) 30, 43, 218, 379, 972, 983, 1140
Cac8I GCNNGC 5 cut(s) 280, 307, 375, 401, 1050
CfoI GCGC 2 cut(s) 440, 685
Cfr13I GGNCC 2 cut(s) 586, 947
Csp6I GTAC 1 cut(s) 384
CviQI GTAC 1 cut(s) 384
DdeI CTNAG 5 cut(s) 143, 168, 692, 876, 1044
DpnI GATC 8 cut(s) 90, 455, 534, 798, 829, 971, 997, 1116
DpnII GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
DraIII CACNNNGTG 1 cut(s) 213
EaeI YGGCCR 1 cut(s) 215
Eam1104I CTCTTC 2 cut(s) 429, 1003
EarI CTCTTC 2 cut(s) 429, 1003
Ecl136II GAGCTC 1 cut(s) 576
Eco147I AGGCCT 1 cut(s) 181
Eco24I GRGCYC 2 cut(s) 424, 578
Eco32I GATATC 1 cut(s) 867
Eco47I GGWCC 1 cut(s) 586
Eco53kI GAGCTC 1 cut(s) 576
Eco57I CTGAAG 1 cut(s) 1265
Eco81I CCTNAGG 1 cut(s) 143
EcoICRI GAGCTC 1 cut(s) 576
EcoNI CCTNNNNNAGG 2 cut(s) 126, 1109
EcoO109I RGGNCCY 1 cut(s) 947
EcoRII CCWGG 4 cut(s) 181, 991, 1061, 1325
EcoRV GATATC 1 cut(s) 867
EcoT22I ATGCAT 1 cut(s) 331
EcoT38I GRGCYC 2 cut(s) 424, 578
Esp3I CGTCTC 1 cut(s) 98
FaqI GGGAC 1 cut(s) 86
FauI CCCGC 1 cut(s) 188
FblI GTMKAC 1 cut(s) 1331
Fnu4HI GCNGC 1 cut(s) 707
FokI GGATG 5 cut(s) 302, 785, 914, 1045, 1243
FriOI GRGCYC 2 cut(s) 424, 578
Fsp4HI GCNGC 1 cut(s) 707
FspBI CTAG 4 cut(s) 126, 482, 590, 912
GlaI GCGC 2 cut(s) 439, 684
GluI GCNGC 1 cut(s) 707
HaeIII GGCC 4 cut(s) 181, 217, 263, 949
HhaI GCGC 2 cut(s) 440, 685
Hin6I GCGC 2 cut(s) 438, 683
HinP1I GCGC 2 cut(s) 438, 683
HincII GTYRAC 1 cut(s) 561
HindII GTYRAC 1 cut(s) 561
HindIII AAGCTT 2 cut(s) 502, 634
HinfI GANTC 5 cut(s) 172, 201, 930, 1014, 1343
HphI GGTGA 2 cut(s) 29, 1338
Hpy166II GTNNAC 4 cut(s) 377, 561, 748, 1332
Hpy188I TCNGA 6 cut(s) 171, 412, 864, 877, 942, 1384
Hpy188III TCNNGA 5 cut(s) 321, 579, 745, 1033, 1105
Hpy8I GTNNAC 4 cut(s) 377, 561, 748, 1332
HpyAV CCTTC 4 cut(s) 107, 117, 856, 1289
HpyCH4III ACNGT 3 cut(s) 67, 383, 1290
HpyF10VI GCNNNNNNNGC 4 cut(s) 192, 235, 311, 891
HpyF3I CTNAG 5 cut(s) 143, 168, 692, 876, 1044
HspAI GCGC 2 cut(s) 438, 683
Kzo9I GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
LguI GCTCTTC 1 cut(s) 429
LmnI GCTCC 5 cut(s) 246, 319, 573, 1225, 1408
Lsp1109I GCAGC 1 cut(s) 718
LweI GCATC 5 cut(s) 881, 892, 903, 1199, 1293
MaeI CTAG 4 cut(s) 126, 482, 590, 912
MaeIII GTNAC 3 cut(s) 38, 952, 1284
MalI GATC 8 cut(s) 90, 455, 534, 798, 829, 971, 997, 1116
MbiI CCGCTC 1 cut(s) 1228
MboI GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
MboII GAAGA 5 cut(s) 416, 503, 747, 806, 1020
MhlI GDGCHC 4 cut(s) 316, 379, 424, 578
MlsI TGGCCA 1 cut(s) 217
MluCI AATT 8 cut(s) 356, 471, 520, 738, 759, 831, 1129, 1205
MluNI TGGCCA 1 cut(s) 217
MlyI GAGTC 1 cut(s) 210
Mox20I TGGCCA 1 cut(s) 217
Mph1103I ATGCAT 1 cut(s) 331
MroXI GAANNNNTTC 1 cut(s) 152
MscI TGGCCA 1 cut(s) 217
MseI TTAA 3 cut(s) 470, 632, 1124
MslI CAYNNNNRTG 3 cut(s) 209, 277, 1161
Msp20I TGGCCA 1 cut(s) 217
MspR9I CCNGG 4 cut(s) 183, 993, 1063, 1327
MvaI CCWGG 4 cut(s) 183, 993, 1063, 1327
MwoI GCNNNNNNNGC 4 cut(s) 192, 235, 311, 891
NdeII GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
NlaIV GGNNCC 2 cut(s) 149, 1277
NmuCI GTSAC 2 cut(s) 38, 1284
NsiI ATGCAT 1 cut(s) 331
NspI RCATGY 2 cut(s) 282, 403
PaeI GCATGC 2 cut(s) 282, 403
PceI AGGCCT 1 cut(s) 181
PciSI GCTCTTC 1 cut(s) 429
PdmI GAANNNNTTC 1 cut(s) 152
PfeI GAWTC 4 cut(s) 172, 930, 1014, 1343
PflMI CCANNNNNTGG 1 cut(s) 1261
PfoI TCCNGGA 1 cut(s) 991
PkrI GCNGC 1 cut(s) 708
PleI GAGTC 1 cut(s) 209
PpsI GAGTC 1 cut(s) 209
Psp124BI GAGCTC 1 cut(s) 578
Psp6I CCWGG 4 cut(s) 181, 991, 1061, 1325
PspGI CCWGG 4 cut(s) 181, 991, 1061, 1325
PspN4I GGNNCC 2 cut(s) 149, 1277
PspPI GGNCC 2 cut(s) 586, 947
RsaI GTAC 1 cut(s) 385
RsaNI GTAC 1 cut(s) 384
RseI CAYNNNNRTG 3 cut(s) 209, 277, 1161
SacI GAGCTC 1 cut(s) 578
SapI GCTCTTC 1 cut(s) 429
SaqAI TTAA 3 cut(s) 470, 632, 1124
SatI GCNGC 1 cut(s) 707
Sau3AI GATC 8 cut(s) 88, 453, 532, 796, 827, 969, 995, 1114
Sau96I GGNCC 2 cut(s) 586, 947
SchI GAGTC 1 cut(s) 210
ScrFI CCNGG 4 cut(s) 183, 993, 1063, 1327
SduI GDGCHC 4 cut(s) 316, 379, 424, 578
SfaNI GCATC 5 cut(s) 881, 892, 903, 1199, 1293
SinI GGWCC 1 cut(s) 586
SmiMI CAYNNNNRTG 3 cut(s) 209, 277, 1161
SmlI CTYRAG 3 cut(s) 577, 657, 1031
SmoI CTYRAG 3 cut(s) 577, 657, 1031
SphI GCATGC 2 cut(s) 282, 403
Sse9I AATT 8 cut(s) 356, 471, 520, 738, 759, 831, 1129, 1205
SseBI AGGCCT 1 cut(s) 181
SsiI CCGC 3 cut(s) 195, 309, 1228
SspMI CTAG 4 cut(s) 126, 482, 590, 912
SstI GAGCTC 1 cut(s) 578
StuI AGGCCT 1 cut(s) 181
StyD4I CCNGG 4 cut(s) 181, 991, 1061, 1325
TaaI ACNGT 3 cut(s) 67, 383, 1290
TaqI TCGA 2 cut(s) 933, 998
TaqII GACCGA 1 cut(s) 1007
TasI AATT 8 cut(s) 356, 471, 520, 738, 759, 831, 1129, 1205
TatI WGTACW 1 cut(s) 383
TfiI GAWTC 4 cut(s) 172, 930, 1014, 1343
Tru1I TTAA 3 cut(s) 470, 632, 1124
Tru9I TTAA 3 cut(s) 470, 632, 1124
TscAI CASTG 7 cut(s) 30, 43, 225, 386, 972, 990, 1147
TseFI GTSAC 2 cut(s) 38, 1284
TseI GCWGC 1 cut(s) 706
Tsp45I GTSAC 2 cut(s) 38, 1284
TspDTI ATGAA 5 cut(s) 89, 145, 914, 1217, 1283
TspRI CASTG 7 cut(s) 30, 43, 225, 386, 972, 990, 1147
Van91I CCANNNNNTGG 1 cut(s) 1261
VneI GTGCAC 1 cut(s) 375
VpaK11BI GGWCC 1 cut(s) 586
XagI CCTNNNNNAGG 2 cut(s) 126, 1109
XapI RAATTY 1 cut(s) 738
XceI RCATGY 2 cut(s) 282, 403
XcmI CCANNNNNNNNNTGG 1 cut(s) 758
XmiI GTMKAC 1 cut(s) 1331
XmnI GAANNNNTTC 1 cut(s) 152
XspI CTAG 4 cut(s) 126, 482, 590, 912
Zsp2I ATGCAT 1 cut(s) 331
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.