FvH4_2g05430

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0002618
Physical Location & Seq
Forward (+)
4461768 .. 4463301
1534 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g05430.t1

Sequence Viewer

Length: 1395 bp
ATGGGAATGATGACCGAGGCTACTCCTCCAGGAATTGCCAAGAATCCTAGCCATGCAAGGTGTTTGATAAAGAAGTACAAGCATTGTTACAATCTGGTGCATGTGTGCCCCAAGTTTTGCCCCGATCAGTGCACAGTTGAGTGTGTGTCGTGTAAACCAATCTGTTCTGGAAGCTCGACTACACCTTCACCACCACCACCCCCAACTCCTACTCCATCACCTTCACCTCCAATTTATTACCCTCCTCCTGTTCATGCTCCCTCACCGCCACCCCCAACTCCTTCACCGCCAACCCCAACTCCTTCACCGCCAACCCCTACTCCCTCACCGCCAACCCCAACTCCCTCACCGCCAACCTCAACTCCCTCACCACCAACAACACCATCGACACCTCCTCCCACTACTCCATCTTCACCGTCTCCTCCAACACCATCTAACCCTCCTCCCTCTCCTACACCATCTCCACCTATATTCTCTTCTCCTCCTCCATCAACTCCTACTCCAATAAAGACAGGAAAATGCAAGAACAAGAACTACCCCCAATGCTACAACATTGAACATGCATGCCCTAGCTCCTGCCCCGGTGGATGCGAGGTCGACTGTGTCACTTGCAAGCCCGTCTGTATGTGCCAAGACCCTCGATTCATAGGCGGTGACGGCATTACCTTTTACTTCCACGGCAAGAAAAACCACAATTTCTGCCTCTTATCCGACTCCAACCTTCACATCAATGCCCACTTCATCGGCAAGCGAAATGCCAACAGGAAACGCGACTTCACTTGGGTCCAATCCATCGCCATCCTCTACGGAAAACACCAGCTCTTCATCGGCGCACAGAAAACTGCTACATGGGACGACTCCGTCGACCGCCTTGCCCTCTCCTTCAACGGCGAGCCAATCGCCCTCCGTGAAGCTGAAGGCACAAAGTGGCAATCCGAGAGCTTCCCGCGTGTCTCGTTCGCAAGGGTGGATAACACCAACAATGTGATGGTTGAGGTTGAAGGCAAGTTCAGGATCACAGCCAAGGTTGTGCCTATAACTGAAGAAGACTCAAGGGTTCACAACTATGGTGTGACAAAAGATGATGCCTTGGCTCATCTTGATCTTGGTTTCAAGTTCTTCTCTCTGAGTGACCAAGTTGATGGTGTGTTGGGTCAGACTTACAGACCCGATTACGTGAGCCGGATCAAGATTGGAGTCAGCATGCCTGTGATGGGTGGCGACAGGGAGTTCCAAACTTCGGGACTTTTCACTGCGGATTGCTCCATTGCTAGGTTTAATGGTGCTGGTGGCTCTGAGAATGAAGGGTCTGCTGAGCCAGCTGAGGGTTTGGAGTTTCCAAGCTTGAACTGTGCCAGTGGGATTGATGGTCGAGGTGTTGTGTGCAAGAGATAG
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
Root_cap

Protein Analysis

465

Amino Acids

49.75

Weight (kDa)

7.99

Isoelectric Point (pI)

61.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 370 - 426 4.2e-30 Root cap
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 860
AccI GTMKAC 2 cut(s) 597, 864
AccII CGCG 2 cut(s) 771, 949
AciI CCGC 9 cut(s) 266, 287, 308, 329, 350, 651, 868, 947, 1256
AclWI GGATC 2 cut(s) 1022, 1193
AcuI CTGAAG 2 cut(s) 936, 1062
AdeI CACNNNGTG 1 cut(s) 927
AfaI GTAC 1 cut(s) 77
AfiI CCNNNNNNNGG 4 cut(s) 1214, 1240, 1272, 1325
AgsI TTSAA 5 cut(s) 557, 886, 1001, 1114, 1348
AjnI CCWGG 1 cut(s) 28
AluBI AGCT 7 cut(s) 174, 573, 820, 914, 942, 1322, 1344
AluI AGCT 7 cut(s) 174, 573, 820, 914, 942, 1322, 1344
Alw21I GWGCWC 1 cut(s) 134
Alw26I GTCTC 2 cut(s) 423, 958
Alw44I GTGCAC 1 cut(s) 130
AlwI GGATC 2 cut(s) 1022, 1193
ApaLI GTGCAC 1 cut(s) 130
AspLEI GCGC 1 cut(s) 833
AspS9I GGNCC 1 cut(s) 784
AsuC2I CCSGG 1 cut(s) 582
AvaII GGWCC 1 cut(s) 784
BaeGI GKGCMC 2 cut(s) 110, 134
BarI GAAGNNNNNNTAC 2 cut(s) 163, 195
BbsI GAAGAC 1 cut(s) 1053
Bbv12I GWGCWC 1 cut(s) 134
BbvCI CCTCAGC 1 cut(s) 1323
BceAI ACGGC 3 cut(s) 673, 694, 904
BcgI CGANNNNNNTGC 2 cut(s) 854, 888
BciT130I CCWGG 1 cut(s) 30
BcnI CCSGG 1 cut(s) 582
BcoDI GTCTC 2 cut(s) 423, 958
BfaI CTAG 3 cut(s) 48, 570, 1272
BlpI GCTNAGC 1 cut(s) 1314
Bme1390I CCNGG 2 cut(s) 30, 582
Bme18I GGWCC 1 cut(s) 784
BmgT120I GGNCC 1 cut(s) 784
BmiI GGNNCC 1 cut(s) 785
BmrFI CCNGG 2 cut(s) 30, 582
BmsI GCATC 2 cut(s) 578, 1075
BpiI GAAGAC 1 cut(s) 1053
BpmI CTGGAG 1 cut(s) 12
Bpu10I CCTNAGC 1 cut(s) 1323
Bpu1102I GCTNAGC 1 cut(s) 1314
BpuEI CTTGAG 1 cut(s) 1036
BpuMI CCSGG 1 cut(s) 582
BsaAI YACGTR 1 cut(s) 1177
BsaJI CCNNGG 5 cut(s) 15, 580, 676, 1023, 1089
Bsc4I CCNNNNNNNGG 4 cut(s) 1214, 1240, 1272, 1325
Bse1I ACTGG 1 cut(s) 1356
Bse3DI GCAATG 1 cut(s) 1266
BseBI CCWGG 1 cut(s) 30
BseDI CCNNGG 5 cut(s) 15, 580, 676, 1023, 1089
BseGI GGATG 2 cut(s) 593, 798
BseLI CCNNNNNNNGG 4 cut(s) 1214, 1240, 1272, 1325
BseMI GCAATG 1 cut(s) 1266
BseMII CTCAG 4 cut(s) 1118, 1287, 1305, 1314
BseNI ACTGG 1 cut(s) 1356
BseRI GAGGAG 7 cut(s) 15, 234, 384, 411, 432, 471, 474
BseSI GKGCMC 2 cut(s) 110, 134
Bsh1236I CGCG 2 cut(s) 771, 949
Bsh1285I CGRYCG 1 cut(s) 868
BsiEI CGRYCG 1 cut(s) 868
BsiHKAI GWGCWC 1 cut(s) 134
BsiSI CCGG 2 cut(s) 582, 1183
BslFI GGGAC 2 cut(s) 866, 1257
BslI CCNNNNNNNGG 4 cut(s) 1214, 1240, 1272, 1325
BsmAI GTCTC 2 cut(s) 423, 958
BsmBI CGTCTC 1 cut(s) 423
BsmFI GGGAC 2 cut(s) 866, 1257
Bsp1286I GDGCHC 2 cut(s) 110, 134
Bsp143I GATC 4 cut(s) 124, 1014, 1102, 1185
Bsp1720I GCTNAGC 1 cut(s) 1314
BspACI CCGC 9 cut(s) 266, 287, 308, 329, 350, 651, 868, 947, 1256
BspCNI CTCAG 4 cut(s) 1119, 1288, 1306, 1315
BspFNI CGCG 2 cut(s) 771, 949
BspLI GGNNCC 1 cut(s) 785
BspPI GGATC 2 cut(s) 1022, 1193
BspQI GCTCTTC 1 cut(s) 827
BsrDI GCAATG 1 cut(s) 1266
BsrI ACTGG 1 cut(s) 1356
BssECI CCNNGG 5 cut(s) 15, 580, 676, 1023, 1089
BssMI GATC 4 cut(s) 124, 1014, 1102, 1185
BssT1I CCWWGG 2 cut(s) 1023, 1089
Bst2UI CCWGG 1 cut(s) 30
Bst4CI ACNGT 4 cut(s) 136, 417, 602, 1352
Bst6I CTCTTC 2 cut(s) 481, 827
BstBAI YACGTR 1 cut(s) 1177
BstC8I GCNNGC 6 cut(s) 565, 614, 749, 893, 1205, 1320
BstDEI CTNAG 4 cut(s) 1127, 1296, 1314, 1323
BstDSI CCRYGG 1 cut(s) 676
BstF5I GGATG 2 cut(s) 593, 798
BstFNI CGCG 2 cut(s) 771, 949
BstHHI GCGC 1 cut(s) 833
BstKTI GATC 4 cut(s) 127, 1017, 1105, 1188
BstMAI GTCTC 2 cut(s) 423, 958
BstMBI GATC 4 cut(s) 124, 1014, 1102, 1185
BstMCI CGRYCG 1 cut(s) 868
BstMWI GCNNNNNNNGC 2 cut(s) 657, 1319
BstNI CCWGG 1 cut(s) 30
BstNSI RCATGY 4 cut(s) 104, 563, 567, 1207
BstSCI CCNGG 2 cut(s) 28, 580
BstSLI GKGCMC 2 cut(s) 110, 134
BstUI CGCG 2 cut(s) 771, 949
BstV2I GAAGAC 1 cut(s) 1053
BstXI CCANNNNNNTGG 1 cut(s) 1142
BtgI CCRYGG 1 cut(s) 676
BtgZI GCGATG 1 cut(s) 778
BtsCI GGATG 2 cut(s) 593, 798
BtsI GCAGTG 1 cut(s) 1251
BtsIMutI CAGTG 3 cut(s) 134, 1251, 1363
Cac8I GCNNGC 6 cut(s) 565, 614, 749, 893, 1205, 1320
CfoI GCGC 1 cut(s) 833
Cfr13I GGNCC 1 cut(s) 784
Csp6I GTAC 1 cut(s) 76
CviAII CATG 7 cut(s) 53, 101, 254, 560, 564, 849, 1204
CviQI GTAC 1 cut(s) 76
DdeI CTNAG 4 cut(s) 1127, 1296, 1314, 1323
DpnI GATC 4 cut(s) 126, 1016, 1104, 1187
DpnII GATC 4 cut(s) 124, 1014, 1102, 1185
DraIII CACNNNGTG 1 cut(s) 927
DrdI GACNNNNNNGTC 1 cut(s) 860
DseDI GACNNNNNNGTC 1 cut(s) 860
Eam1104I CTCTTC 2 cut(s) 481, 827
EarI CTCTTC 2 cut(s) 481, 827
Eco130I CCWWGG 2 cut(s) 1023, 1089
Eco47I GGWCC 1 cut(s) 784
Eco57I CTGAAG 2 cut(s) 936, 1062
EcoRII CCWGG 1 cut(s) 28
EcoT14I CCWWGG 2 cut(s) 1023, 1089
EcoT22I ATGCAT 1 cut(s) 565
ErhI CCWWGG 2 cut(s) 1023, 1089
Esp3I CGTCTC 1 cut(s) 423
FaeI CATG 7 cut(s) 56, 104, 257, 563, 567, 852, 1207
FaqI GGGAC 2 cut(s) 866, 1257
FatI CATG 7 cut(s) 52, 100, 253, 559, 563, 848, 1203
FauI CCCGC 1 cut(s) 954
FblI GTMKAC 2 cut(s) 597, 864
FokI GGATG 2 cut(s) 600, 785
FspBI CTAG 3 cut(s) 48, 570, 1272
GlaI GCGC 1 cut(s) 832
GsuI CTGGAG 1 cut(s) 12
HapII CCGG 2 cut(s) 582, 1183
HhaI GCGC 1 cut(s) 833
Hin1II CATG 7 cut(s) 56, 104, 257, 563, 567, 852, 1207
Hin6I GCGC 1 cut(s) 831
HinP1I GCGC 1 cut(s) 831
HincII GTYRAC 2 cut(s) 598, 865
HindII GTYRAC 2 cut(s) 598, 865
HindIII AAGCTT 1 cut(s) 1342
HinfI GANTC 6 cut(s) 43, 642, 713, 857, 1049, 1197
HpaII CCGG 2 cut(s) 582, 1183
Hpy166II GTNNAC 5 cut(s) 132, 155, 598, 865, 1060
Hpy188I TCNGA 5 cut(s) 712, 937, 1128, 1158, 1297
Hpy188III TCNNGA 5 cut(s) 168, 1012, 1100, 1189, 1242
Hpy8I GTNNAC 5 cut(s) 132, 155, 598, 865, 1060
Hpy99I CGWCG 1 cut(s) 866
HpyAV CCTTC 9 cut(s) 195, 231, 291, 312, 731, 892, 911, 995, 1298
HpyCH4III ACNGT 4 cut(s) 136, 417, 602, 1352
HpyCH4IV ACGT 1 cut(s) 1176
HpyCH4V TGCA 7 cut(s) 56, 100, 132, 522, 563, 612, 1386
HpyF10VI GCNNNNNNNGC 2 cut(s) 657, 1319
HpyF3I CTNAG 4 cut(s) 1127, 1296, 1314, 1323
HpySE526I ACGT 1 cut(s) 1176
Hsp92II CATG 7 cut(s) 56, 104, 257, 563, 567, 852, 1207
HspAI GCGC 1 cut(s) 831
Kzo9I GATC 4 cut(s) 124, 1014, 1102, 1185
LguI GCTCTTC 1 cut(s) 827
LmnI GCTCC 3 cut(s) 262, 578, 1268
LweI GCATC 2 cut(s) 578, 1075
MaeI CTAG 3 cut(s) 48, 570, 1272
MaeII ACGT 1 cut(s) 1176
MaeIII GTNAC 5 cut(s) 86, 604, 653, 1072, 1130
MalI GATC 4 cut(s) 126, 1016, 1104, 1187
MboI GATC 4 cut(s) 124, 1014, 1102, 1185
MboII GAAGA 6 cut(s) 402, 468, 814, 1055, 1058, 1111
MhlI GDGCHC 2 cut(s) 110, 134
MluCI AATT 3 cut(s) 33, 231, 694
MlyI GAGTC 4 cut(s) 707, 851, 1043, 1206
MmeI TCCRAC 3 cut(s) 449, 735, 741
Mph1103I ATGCAT 1 cut(s) 565
MseI TTAA 1 cut(s) 1278
MslI CAYNNNNRTG 3 cut(s) 729, 1065, 1208
MspA1I CMGCKG 1 cut(s) 1322
MspI CCGG 2 cut(s) 582, 1183
MspR9I CCNGG 2 cut(s) 30, 582
MvaI CCWGG 1 cut(s) 30
MvnI CGCG 2 cut(s) 771, 949
MwoI GCNNNNNNNGC 2 cut(s) 657, 1319
NciI CCSGG 1 cut(s) 582
NdeII GATC 4 cut(s) 124, 1014, 1102, 1185
NlaIII CATG 7 cut(s) 56, 104, 257, 563, 567, 852, 1207
NlaIV GGNNCC 1 cut(s) 785
NmuCI GTSAC 4 cut(s) 604, 653, 1072, 1130
NsiI ATGCAT 1 cut(s) 565
NspI RCATGY 4 cut(s) 104, 563, 567, 1207
PaeI GCATGC 2 cut(s) 567, 1207
PciSI GCTCTTC 1 cut(s) 827
PcsI WCGNNNNNNNCGW 1 cut(s) 861
PfeI GAWTC 2 cut(s) 43, 642
PflFI GACNNNGTC 2 cut(s) 602, 860
PfoI TCCNGGA 1 cut(s) 28
PleI GAGTC 4 cut(s) 707, 851, 1043, 1205
PpsI GAGTC 4 cut(s) 707, 851, 1043, 1205
Ppu21I YACGTR 1 cut(s) 1177
Psp6I CCWGG 1 cut(s) 28
PspGI CCWGG 1 cut(s) 28
PspN4I GGNNCC 1 cut(s) 785
PspPI GGNCC 1 cut(s) 784
PsrI GAACNNNNNNTAC 2 cut(s) 518, 550
PsyI GACNNNGTC 2 cut(s) 602, 860
PvuII CAGCTG 1 cut(s) 1322
RsaI GTAC 1 cut(s) 77
RsaNI GTAC 1 cut(s) 76
RseI CAYNNNNRTG 3 cut(s) 729, 1065, 1208
SalI GTCGAC 2 cut(s) 596, 863
SapI GCTCTTC 1 cut(s) 827
SaqAI TTAA 1 cut(s) 1278
Sau3AI GATC 4 cut(s) 124, 1014, 1102, 1185
Sau96I GGNCC 1 cut(s) 784
SchI GAGTC 4 cut(s) 707, 851, 1043, 1206
ScrFI CCNGG 2 cut(s) 30, 582
SduI GDGCHC 2 cut(s) 110, 134
SfaNI GCATC 2 cut(s) 578, 1075
SinI GGWCC 1 cut(s) 784
SmiMI CAYNNNNRTG 3 cut(s) 729, 1065, 1208
SmlI CTYRAG 1 cut(s) 1051
SmoI CTYRAG 1 cut(s) 1051
SphI GCATGC 2 cut(s) 567, 1207
Sse9I AATT 3 cut(s) 33, 231, 694
SsiI CCGC 9 cut(s) 266, 287, 308, 329, 350, 651, 868, 947, 1256
SspMI CTAG 3 cut(s) 48, 570, 1272
StyD4I CCNGG 2 cut(s) 28, 580
StyI CCWWGG 2 cut(s) 1023, 1089
TaaI ACNGT 4 cut(s) 136, 417, 602, 1352
TaiI ACGT 1 cut(s) 1179
TaqI TCGA 6 cut(s) 176, 386, 597, 640, 864, 1372
TaqII GACCGA 1 cut(s) 29
TasI AATT 3 cut(s) 33, 231, 694
TatI WGTACW 1 cut(s) 75
TfiI GAWTC 2 cut(s) 43, 642
Tru1I TTAA 1 cut(s) 1278
Tru9I TTAA 1 cut(s) 1278
TscAI CASTG 3 cut(s) 134, 1258, 1363
TseFI GTSAC 4 cut(s) 604, 653, 1072, 1130
Tsp45I GTSAC 4 cut(s) 604, 653, 1072, 1130
TspDTI ATGAA 5 cut(s) 242, 634, 730, 814, 1317
TspGWI ACGGA 3 cut(s) 822, 850, 896
TspRI CASTG 3 cut(s) 134, 1258, 1363
Tth111I GACNNNGTC 2 cut(s) 602, 860
VneI GTGCAC 1 cut(s) 130
VpaK11BI GGWCC 1 cut(s) 784
XceI RCATGY 4 cut(s) 104, 563, 567, 1207
XcmI CCANNNNNNNNNTGG 1 cut(s) 985
XmiI GTMKAC 2 cut(s) 597, 864
XspI CTAG 3 cut(s) 48, 570, 1272
Zsp2I ATGCAT 1 cut(s) 565
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.