FvH4_5g10780

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0002618
Physical Location & Seq
Reverse (-)
6105044 .. 6106654
1611 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g10780.t1

Sequence Viewer

Length: 1347 bp
ATGGCTCATCCATCTATGGTGCGCCTGGGTGCAATTTTGCTCATTCTGTTACTCGCCGTTCTTTTAGCTGAGGGAGCTTCTCAACCAAAGGCCAAGAAGGTCAAGTGCAAAGACAAGAAGTTCTCCAAGTGTTACCACAAAGATCTCTATTGCCCTAAATCATGCCTCCGCACTTGTTTCGTGAATTGCAAGAAATGCAAGGCTGTTTGTAAGGCCCCTCCTCCACCACCACCTCCTCCTCCATCGCCTCCACCTAGACATAAGAGGCGCTACCCACCCCCTCCTCCCAAGACATATCCTTCACCACCACCTGCCCCTTCAGTTGTTCCCCCTCCCCCTCCTTCAACTACAACTTCACCTCTGTCACCCCCTATCTCTACCCCGTTATCACCACCATTGCCTCCTCCTACTATCCCATCACCACCTTCTTTGTATCCTCCTCCGCCACTGCCTTCATCAGAGGCCGCCGGTGGAAATAGAGTCAAATGCAAGAACAAGAACTACCCTCATTGCTATGGTCTGGAGCAGAGTTGTCCTAGTGCGTGCCCTGAGCAATGTGAAGTTGACTGCGTTACATGCAGTCCCGTTTGTAACTGCAACAAACCAGGTGCTGTGTGCCAAGATCCCAGATTCGTTGGTGGCGATGGTATAACCTTCTATTTCCATGGCAAGCGAGACCAAGACTTCTGCCTCGTATCTGATTCCAACATCCACATCAACGCCCACTTCATCGGCAAAAGAGACCAAAACATGAAGAGGGACTTCACCTGGGTCCAATCTCTTGGTATCCTCTTTGACAACCGCAAGCTCTTCATAGGTGCTAAACCAACCTCCACTTGGGATGACAGCGTCGACCGCCTAATCGTAGCCATTGACGACGAAACCATTAGCCTTGCCGACAACGAAGGCGCGTATTGGCAATCGCAAGGGCTCAGGATCACAAGGAGCAAGAACACAAATGCCGTAGAAATCGAAGCCGAAGGGAACTTTAAGATCAAAGCAGTAGTGGTGCCGATAACGGAAAAAGAGTCGGTGATACACAAGTATGGGATCACACAGGAGGATTGCTTTGCTCACCTTGACTTGAGCTTCAAGTTTTATGCCCTAAGTGGGGAGGTTAATGGCGTGCTGGGACAAACATATGGTGATAACTATGTGAGCAGGGTTAAGATGGGTGTGATGATGCCTGTTCTGGGTGGCGATAGAGAATTTTCATCGTCTAGTATCTTTGCCTCAGACTGTGCAGTTGCTAGGTTTAGCGGTGAGTTCAGTGAAAAGGCTAAGTATGCTAGTACTATGAATTGTGCTAGTGGGATGGATGGTCGTGGAGTTGTTTGCAAGAGGTAA
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

449

Amino Acids

48.82

Weight (kDa)

8.86

Isoelectric Point (pI)

62.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 363 - 419 3.9e-27 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)
AarI CACCTGC 1 cut(s) 319
Acc36I ACCTGC 1 cut(s) 319
AccB1I GGYRCC 1 cut(s) 1009
AccI GTMKAC 1 cut(s) 852
AccII CGCG 1 cut(s) 911
AciI CCGC 6 cut(s) 169, 443, 465, 802, 856, 1260
AclWI GGATC 3 cut(s) 617, 944, 1058
AcsI RAATTY 1 cut(s) 1208
AcuI CTGAAG 1 cut(s) 303
AfaI GTAC 1 cut(s) 1294
AfiI CCNNNNNNNGG 4 cut(s) 837, 1110, 1111, 1193
AgsI TTSAA 2 cut(s) 345, 1093
AjnI CCWGG 3 cut(s) 24, 604, 767
AluBI AGCT 4 cut(s) 68, 77, 808, 1089
AluI AGCT 4 cut(s) 68, 77, 808, 1089
Alw26I GTCTC 2 cut(s) 669, 735
AlwI GGATC 3 cut(s) 617, 944, 1058
AlwNI CAGNNNCTG 1 cut(s) 611
AoxI GGCC 3 cut(s) 90, 213, 462
ApoI RAATTY 1 cut(s) 1208
AspLEI GCGC 3 cut(s) 24, 270, 911
AspS9I GGNCC 2 cut(s) 214, 772
AvaII GGWCC 1 cut(s) 772
BaeGI GKGCMC 1 cut(s) 548
BaeI ACNNNNGTAYC 2 cut(s) 1028, 1061
BanI GGYRCC 1 cut(s) 1009
BanII GRGCYC 1 cut(s) 933
BbvCI CCTCAGC 1 cut(s) 69
BccI CCATC 7 cut(s) 19, 250, 424, 638, 1165, 1309, 1313
BceAI ACGGC 2 cut(s) 41, 947
BcgI CGANNNNNNTGC 2 cut(s) 160, 194
BciT130I CCWGG 3 cut(s) 26, 606, 769
BciVI GTATCC 2 cut(s) 444, 797
BcoDI GTCTC 2 cut(s) 669, 735
BfaI CTAG 6 cut(s) 255, 537, 1221, 1251, 1290, 1308
BfoI RGCGCY 1 cut(s) 271
BfuAI ACCTGC 1 cut(s) 319
BfuI GTATCC 2 cut(s) 444, 797
BglII AGATCT 1 cut(s) 142
BisI GCNGC 1 cut(s) 465
BlsI GCNGC 1 cut(s) 466
BmcAI AGTACT 1 cut(s) 1294
Bme1390I CCNGG 3 cut(s) 26, 606, 769
Bme18I GGWCC 1 cut(s) 772
BmgT120I GGNCC 2 cut(s) 214, 772
BmiI GGNNCC 3 cut(s) 216, 773, 1011
BmrFI CCNGG 3 cut(s) 26, 606, 769
BmsI GCATC 1 cut(s) 1173
BpmI CTGGAG 1 cut(s) 542
Bpu10I CCTNAGC 3 cut(s) 69, 549, 932
BpuEI CTTGAG 1 cut(s) 1105
BsaI GGTCTC 2 cut(s) 669, 735
BsaJI CCNNGG 3 cut(s) 25, 664, 768
Bsc4I CCNNNNNNNGG 4 cut(s) 837, 1110, 1111, 1193
Bse118I RCCGGY 1 cut(s) 467
Bse3DI GCAATG 3 cut(s) 395, 508, 560
BseBI CCWGG 3 cut(s) 26, 606, 769
BseDI CCNNGG 3 cut(s) 25, 664, 768
BseGI GGATG 5 cut(s) 7, 708, 847, 1320, 1324
BseLI CCNNNNNNNGG 4 cut(s) 837, 1110, 1111, 1193
BseMI GCAATG 3 cut(s) 395, 508, 560
BseMII CTCAG 4 cut(s) 60, 540, 946, 1248
BseRI GAGGAG 6 cut(s) 210, 225, 228, 273, 393, 429
BseSI GKGCMC 1 cut(s) 548
BseYI CCCAGC 1 cut(s) 1129
BsgI GTGCAG 1 cut(s) 1263
Bsh1236I CGCG 1 cut(s) 911
Bsh1285I CGRYCG 1 cut(s) 856
BshFI GGCC 3 cut(s) 92, 215, 464
BshNI GGYRCC 1 cut(s) 1009
BsiEI CGRYCG 1 cut(s) 856
BsiSI CCGG 1 cut(s) 468
BslFI GGGAC 3 cut(s) 567, 773, 1146
BslI CCNNNNNNNGG 4 cut(s) 837, 1110, 1111, 1193
BsmAI GTCTC 2 cut(s) 669, 735
BsmFI GGGAC 3 cut(s) 567, 773, 1146
BsnI GGCC 3 cut(s) 92, 215, 464
Bso31I GGTCTC 2 cut(s) 669, 735
Bsp1286I GDGCHC 2 cut(s) 548, 933
Bsp143I GATC 5 cut(s) 142, 622, 936, 993, 1050
Bsp19I CCATGG 1 cut(s) 664
BspACI CCGC 6 cut(s) 169, 443, 465, 802, 856, 1260
BspANI GGCC 3 cut(s) 92, 215, 464
BspCNI CTCAG 4 cut(s) 61, 541, 945, 1247
BspFNI CGCG 1 cut(s) 911
BspLI GGNNCC 3 cut(s) 216, 773, 1011
BspMI ACCTGC 1 cut(s) 319
BspPI GGATC 3 cut(s) 617, 944, 1058
BspQI GCTCTTC 1 cut(s) 815
BspT107I GGYRCC 1 cut(s) 1009
BspTNI GGTCTC 2 cut(s) 669, 735
BsrDI GCAATG 3 cut(s) 395, 508, 560
BsrFI RCCGGY 1 cut(s) 467
BssAI RCCGGY 1 cut(s) 467
BssECI CCNNGG 3 cut(s) 25, 664, 768
BssMI GATC 5 cut(s) 142, 622, 936, 993, 1050
BssT1I CCWWGG 1 cut(s) 664
Bst2UI CCWGG 3 cut(s) 26, 606, 769
Bst4CI ACNGT 1 cut(s) 1241
Bst6I CTCTTC 2 cut(s) 749, 815
BstAPI GCANNNNNTGC 1 cut(s) 195
BstC8I GCNNGC 4 cut(s) 544, 671, 806, 1127
BstDEI CTNAG 6 cut(s) 69, 549, 932, 1106, 1234, 1281
BstDSI CCRYGG 1 cut(s) 664
BstF5I GGATG 5 cut(s) 7, 708, 847, 1320, 1324
BstFNI CGCG 1 cut(s) 911
BstH2I RGCGCY 1 cut(s) 271
BstHHI GCGC 3 cut(s) 24, 270, 911
BstKTI GATC 5 cut(s) 145, 625, 939, 996, 1053
BstMAI GTCTC 2 cut(s) 669, 735
BstMBI GATC 5 cut(s) 142, 622, 936, 993, 1050
BstMCI CGRYCG 1 cut(s) 856
BstMWI GCNNNNNNNGC 5 cut(s) 74, 195, 576, 855, 1286
BstNI CCWGG 3 cut(s) 26, 606, 769
BstNSI RCATGY 1 cut(s) 579
BstSCI CCNGG 3 cut(s) 24, 604, 767
BstSLI GKGCMC 1 cut(s) 548
BstUI CGCG 1 cut(s) 911
BstX2I RGATCY 2 cut(s) 142, 622
BstXI CCANNNNNNTGG 1 cut(s) 782
BstYI RGATCY 2 cut(s) 142, 622
BsuI GTATCC 2 cut(s) 444, 797
BsuRI GGCC 3 cut(s) 92, 215, 464
BtgI CCRYGG 1 cut(s) 664
BtgZI GCGATG 2 cut(s) 228, 657
BtsCI GGATG 5 cut(s) 7, 708, 847, 1320, 1324
BtsI GCAGTG 1 cut(s) 446
BtsIMutI CAGTG 2 cut(s) 446, 1276
BveI ACCTGC 1 cut(s) 319
Cac8I GCNNGC 4 cut(s) 544, 671, 806, 1127
CaiI CAGNNNCTG 1 cut(s) 611
CfoI GCGC 3 cut(s) 24, 270, 911
Cfr10I RCCGGY 1 cut(s) 467
Cfr13I GGNCC 2 cut(s) 214, 772
CseI GACGC 1 cut(s) 838
CsiI ACCWGGT 1 cut(s) 604
Csp6I GTAC 1 cut(s) 1293
CspCI CAANNNNNGTGG 2 cut(s) 411, 446
CviAII CATG 4 cut(s) 162, 576, 665, 751
CviQI GTAC 1 cut(s) 1293
DdeI CTNAG 6 cut(s) 69, 549, 932, 1106, 1234, 1281
DpnI GATC 5 cut(s) 144, 624, 938, 995, 1052
DpnII GATC 5 cut(s) 142, 622, 936, 993, 1050
Eam1104I CTCTTC 2 cut(s) 749, 815
EarI CTCTTC 2 cut(s) 749, 815
EciI GGCGGA 1 cut(s) 432
Eco130I CCWWGG 1 cut(s) 664
Eco24I GRGCYC 1 cut(s) 933
Eco31I GGTCTC 2 cut(s) 669, 735
Eco47I GGWCC 1 cut(s) 772
Eco57I CTGAAG 1 cut(s) 303
EcoO109I RGGNCCY 1 cut(s) 214
EcoRII CCWGG 3 cut(s) 24, 604, 767
EcoT14I CCWWGG 1 cut(s) 664
EcoT38I GRGCYC 1 cut(s) 933
ErhI CCWWGG 1 cut(s) 664
FaeI CATG 4 cut(s) 165, 579, 668, 754
FalI AAGNNNNNCTT 2 cut(s) 746, 778
FaqI GGGAC 3 cut(s) 567, 773, 1146
FatI CATG 4 cut(s) 161, 575, 664, 750
FauNDI CATATG 1 cut(s) 1141
FblI GTMKAC 1 cut(s) 852
Fnu4HI GCNGC 1 cut(s) 465
FokI GGATG 4 cut(s) 695, 854, 1327, 1331
FriOI GRGCYC 1 cut(s) 933
Fsp4HI GCNGC 1 cut(s) 465
FspBI CTAG 6 cut(s) 255, 537, 1221, 1251, 1290, 1308
GlaI GCGC 3 cut(s) 23, 269, 910
GluI GCNGC 1 cut(s) 465
GsaI CCCAGC 1 cut(s) 1133
GsuI CTGGAG 1 cut(s) 542
HaeII RGCGCY 1 cut(s) 271
HaeIII GGCC 3 cut(s) 92, 215, 464
HapII CCGG 1 cut(s) 468
HgaI GACGC 1 cut(s) 838
HhaI GCGC 3 cut(s) 24, 270, 911
Hin1II CATG 4 cut(s) 165, 579, 668, 754
Hin6I GCGC 3 cut(s) 22, 268, 909
HinP1I GCGC 3 cut(s) 22, 268, 909
HincII GTYRAC 2 cut(s) 565, 853
HindII GTYRAC 2 cut(s) 565, 853
HinfI GANTC 4 cut(s) 480, 630, 701, 1028
HpaII CCGG 1 cut(s) 468
Hpy166II GTNNAC 2 cut(s) 565, 853
Hpy188I TCNGA 3 cut(s) 460, 700, 1237
Hpy188III TCNNGA 3 cut(s) 181, 521, 934
Hpy8I GTNNAC 2 cut(s) 565, 853
Hpy99I CGWCG 2 cut(s) 854, 881
HpyAV CCTTC 9 cut(s) 91, 309, 327, 351, 435, 462, 664, 899, 974
HpyCH4III ACNGT 1 cut(s) 1241
HpyCH4V TGCA 9 cut(s) 32, 108, 189, 198, 489, 579, 597, 1244, 1338
HpyF10VI GCNNNNNNNGC 5 cut(s) 74, 195, 576, 855, 1286
HpyF3I CTNAG 6 cut(s) 69, 549, 932, 1106, 1234, 1281
Hsp92II CATG 4 cut(s) 165, 579, 668, 754
HspAI GCGC 3 cut(s) 22, 268, 909
Kzo9I GATC 5 cut(s) 142, 622, 936, 993, 1050
LguI GCTCTTC 1 cut(s) 815
LmnI GCTCC 3 cut(s) 74, 523, 945
LweI GCATC 1 cut(s) 1173
MabI ACCWGGT 1 cut(s) 604
MaeI CTAG 6 cut(s) 255, 537, 1221, 1251, 1290, 1308
MaeIII GTNAC 5 cut(s) 48, 131, 363, 571, 590
MalI GATC 5 cut(s) 144, 624, 938, 995, 1052
MboI GATC 5 cut(s) 142, 622, 936, 993, 1050
MboII GAAGA 2 cut(s) 766, 802
MflI RGATCY 2 cut(s) 142, 622
MhlI GDGCHC 2 cut(s) 548, 933
MluCI AATT 4 cut(s) 33, 184, 1208, 1300
MlyI GAGTC 2 cut(s) 489, 1037
MmeI TCCRAC 1 cut(s) 729
MseI TTAA 3 cut(s) 990, 1119, 1167
MslI CAYNNNNRTG 2 cut(s) 513, 1044
MspI CCGG 1 cut(s) 468
MspR9I CCNGG 3 cut(s) 26, 606, 769
MvaI CCWGG 3 cut(s) 26, 606, 769
MvnI CGCG 1 cut(s) 911
MwoI GCNNNNNNNGC 5 cut(s) 74, 195, 576, 855, 1286
NcoI CCATGG 1 cut(s) 664
NdeI CATATG 1 cut(s) 1141
NdeII GATC 5 cut(s) 142, 622, 936, 993, 1050
NlaIII CATG 4 cut(s) 165, 579, 668, 754
NlaIV GGNNCC 3 cut(s) 216, 773, 1011
NmuCI GTSAC 1 cut(s) 363
NspI RCATGY 1 cut(s) 579
PaqCI CACCTGC 1 cut(s) 319
PciSI GCTCTTC 1 cut(s) 815
PcsI WCGNNNNNNNCGW 1 cut(s) 639
PfeI GAWTC 2 cut(s) 630, 701
PflFI GACNNNGTC 1 cut(s) 848
PkrI GCNGC 1 cut(s) 466
PleI GAGTC 2 cut(s) 488, 1036
PpsI GAGTC 2 cut(s) 488, 1036
Psp6I CCWGG 3 cut(s) 24, 604, 767
PspFI CCCAGC 1 cut(s) 1129
PspGI CCWGG 3 cut(s) 24, 604, 767
PspN4I GGNNCC 3 cut(s) 216, 773, 1011
PspPI GGNCC 2 cut(s) 214, 772
PsrI GAACNNNNNNTAC 2 cut(s) 485, 517
PstNI CAGNNNCTG 1 cut(s) 611
PsuI RGATCY 2 cut(s) 142, 622
PsyI GACNNNGTC 1 cut(s) 848
RsaI GTAC 1 cut(s) 1294
RsaNI GTAC 1 cut(s) 1293
RseI CAYNNNNRTG 2 cut(s) 513, 1044
SalI GTCGAC 1 cut(s) 851
SapI GCTCTTC 1 cut(s) 815
SaqAI TTAA 3 cut(s) 990, 1119, 1167
SatI GCNGC 1 cut(s) 465
Sau3AI GATC 5 cut(s) 142, 622, 936, 993, 1050
Sau96I GGNCC 2 cut(s) 214, 772
ScaI AGTACT 1 cut(s) 1294
SchI GAGTC 2 cut(s) 489, 1037
ScrFI CCNGG 3 cut(s) 26, 606, 769
SduI GDGCHC 2 cut(s) 548, 933
SexAI ACCWGGT 1 cut(s) 604
SfaNI GCATC 1 cut(s) 1173
SgrAI CRCCGGYG 1 cut(s) 467
SinI GGWCC 1 cut(s) 772
SmiMI CAYNNNNRTG 2 cut(s) 513, 1044
SmlI CTYRAG 1 cut(s) 1084
SmoI CTYRAG 1 cut(s) 1084
Sse9I AATT 4 cut(s) 33, 184, 1208, 1300
SsiI CCGC 6 cut(s) 169, 443, 465, 802, 856, 1260
SspMI CTAG 6 cut(s) 255, 537, 1221, 1251, 1290, 1308
StyD4I CCNGG 3 cut(s) 24, 604, 767
StyI CCWWGG 1 cut(s) 664
TaaI ACNGT 1 cut(s) 1241
TaqI TCGA 2 cut(s) 852, 972
TasI AATT 4 cut(s) 33, 184, 1208, 1300
TatI WGTACW 1 cut(s) 1292
TauI GCSGC 1 cut(s) 467
TfiI GAWTC 2 cut(s) 630, 701
Tru1I TTAA 3 cut(s) 990, 1119, 1167
Tru9I TTAA 3 cut(s) 990, 1119, 1167
TscAI CASTG 2 cut(s) 453, 1276
TseFI GTSAC 1 cut(s) 363
Tsp45I GTSAC 1 cut(s) 363
TspDTI ATGAA 6 cut(s) 444, 718, 767, 802, 1203, 1313
TspGWI ACGGA 1 cut(s) 1034
TspRI CASTG 2 cut(s) 453, 1276
Tth111I GACNNNGTC 1 cut(s) 848
VpaK11BI GGWCC 1 cut(s) 772
XapI RAATTY 1 cut(s) 1208
XceI RCATGY 1 cut(s) 579
XcmI CCANNNNNNNNNTGG 1 cut(s) 834
XmiI GTMKAC 1 cut(s) 852
XspI CTAG 6 cut(s) 255, 537, 1221, 1251, 1290, 1308
ZrmI AGTACT 1 cut(s) 1294
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.