FvH4_3g20790

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0006038
Physical Location & Seq
Reverse (-)
13856473 .. 13857686
1214 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g20790.t1

Sequence Viewer

Length: 1020 bp
ATGGATATCTTCGGGAGCAACAAGAGTTTTTGGATTGCTTTGCTCATCTTTGTGTTAGCTGCAGTACAAAGTGAAGCAGAAACTCAAGTTTGCTACAGCAAAAGCAGCCCTTGCTTTCTGAAGCAGGTGTACTGCCCCACAGAATGTCCATCCTCATCACCAACAAACCCCAAAGCTAAAGTTTGCTATCTCAATTGCAACTCCCCCATATGCAAAGCTGAGTGCCGACATCGTAAACCAAATTGCAATGGCCCTGGATCAGCATGCTTAGACCCTCGCTTCATTGGTGGAGATGGCATTGTTTTTTACTTCCATGGCAGGAAAAATGAGCATTTCAGCTTAGTTTCAGATCCCAACCTCCAAATCAATGCTCGCTTCATCGGTCTCCGCCCTGAAGGCCGAAGCAGGGACTATACATGGATTCAAGCCCTTGGACTCCTCTTTGACTCTAACAGCTTCACACTCGAGGCCACCCCATCAGCAACATGGGACGATGAAGTTGACCACTTGAAGTTCTCGTATAATGGTGAGGAGCTAATCATCCCAGAATCTCATCTATCTGTTTGGGAATCTCAGGAAACTTATATTAGAGTGGAGAGGACTACGAGCAAGAACAGTGTCTTGGTCACTCTCCCAATAGTTGCTGAAATTTCAGTCAATGTGGTACCTGTGACAAAGGAAGATGACAAGATCCACAATTATCAGATACCATCAGATGACTGTTTTGCTCACCTGGAAGTGCAGTTCAGATTCTACGGCCTGTCATCAAATGTTGAAGGAGTGCTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGGCTGGAGTAGCCATGCCAGTAGTTGGAGGTGAATACAAGTACAAAACAACATCACTTGTCTCTGCTGATTGTCTTGCTTGTGTGTTCACTCAAGCCGGGAGGTTGGATCAGATGGATTCAAGAGTGCTGGACTATGGAAAGCTAGACTGCACCAGTAACGCCTTCAGCGGGAATGGAATAGTTTGCAGGAAGTAA
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

340

Amino Acids

37.7

Weight (kDa)

5.85

Isoelectric Point (pI)

37.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 248 - 304 7.4e-26 Root cap
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 115
Acc36I ACCTGC 1 cut(s) 115
Acc65I GGTACC 1 cut(s) 664
AccB1I GGYRCC 1 cut(s) 664
AccB7I CCANNNNNTGG 1 cut(s) 848
AciI CCGC 2 cut(s) 388, 993
AclWI GGATC 4 cut(s) 265, 344, 685, 939
AcsI RAATTY 1 cut(s) 648
AcuI CTGAAG 3 cut(s) 140, 414, 973
AfaI GTAC 4 cut(s) 66, 131, 666, 866
AfiI CCNNNNNNNGG 4 cut(s) 406, 823, 848, 993
AgsI TTSAA 5 cut(s) 425, 511, 776, 811, 945
AjnI CCWGG 2 cut(s) 253, 732
AjuI GAANNNNNNNTTGG 4 cut(s) 605, 637, 768, 800
AloI GAACNNNNNNTCC 2 cut(s) 728, 760
AluBI AGCT 7 cut(s) 59, 176, 218, 339, 456, 535, 967
AluI AGCT 7 cut(s) 59, 176, 218, 339, 456, 535, 967
Alw26I GTCTC 2 cut(s) 389, 889
AlwI GGATC 4 cut(s) 265, 344, 685, 939
Ama87I CYCGRG 1 cut(s) 464
AoxI GGCC 4 cut(s) 250, 397, 468, 757
ApeKI GCWGC 2 cut(s) 59, 105
ApoI RAATTY 1 cut(s) 648
Asp718I GGTACC 1 cut(s) 664
AspS9I GGNCC 1 cut(s) 251
AsuC2I CCSGG 2 cut(s) 818, 922
AsuHPI GGTGA 4 cut(s) 150, 539, 722, 866
AvaI CYCGRG 1 cut(s) 464
BanI GGYRCC 1 cut(s) 664
BarI GAAGNNNNNNTAC 2 cut(s) 113, 145
BbvI GCAGC 2 cut(s) 46, 117
BccI CCATC 5 cut(s) 157, 287, 484, 718, 931
BceAI ACGGC 1 cut(s) 772
BciT130I CCWGG 2 cut(s) 255, 734
BcnI CCSGG 2 cut(s) 818, 922
BcoDI GTCTC 2 cut(s) 389, 889
BfaI CTAG 1 cut(s) 968
BfmI CTRYAG 2 cut(s) 60, 94
BfuAI ACCTGC 1 cut(s) 115
BglI GCCNNNNNGGC 1 cut(s) 396
BisI GCNGC 2 cut(s) 60, 106
BlsI GCNGC 2 cut(s) 61, 107
Bme1390I CCNGG 4 cut(s) 255, 734, 818, 922
BmeT110I CYCGRG 1 cut(s) 464
BmgT120I GGNCC 1 cut(s) 251
BmiI GGNNCC 1 cut(s) 666
BmrFI CCNGG 4 cut(s) 255, 734, 818, 922
BpmI CTGGAG 1 cut(s) 849
BpuEI CTTGAG 2 cut(s) 69, 900
BpuMI CCSGG 2 cut(s) 818, 922
BsaI GGTCTC 1 cut(s) 389
BsaJI CCNNGG 3 cut(s) 253, 313, 430
Bsc4I CCNNNNNNNGG 4 cut(s) 406, 823, 848, 993
Bse1I ACTGG 2 cut(s) 842, 978
Bse3DI GCAATG 1 cut(s) 253
BseBI CCWGG 2 cut(s) 255, 734
BseDI CCNNGG 3 cut(s) 253, 313, 430
BseGI GGATG 2 cut(s) 149, 540
BseLI CCNNNNNNNGG 4 cut(s) 406, 823, 848, 993
BseMI GCAATG 1 cut(s) 253
BseMII CTCAG 2 cut(s) 210, 587
BseNI ACTGG 2 cut(s) 842, 978
BseRI GAGGAG 2 cut(s) 428, 545
BseXI GCAGC 2 cut(s) 46, 117
BsgI GTGCAG 2 cut(s) 761, 958
BshFI GGCC 4 cut(s) 252, 399, 470, 759
BshNI GGYRCC 1 cut(s) 664
BsiHKCI CYCGRG 1 cut(s) 464
BsiSI CCGG 2 cut(s) 818, 921
BslFI GGGAC 2 cut(s) 422, 503
BslI CCNNNNNNNGG 4 cut(s) 406, 823, 848, 993
BsmAI GTCTC 2 cut(s) 389, 889
BsmFI GGGAC 2 cut(s) 422, 503
BsnI GGCC 4 cut(s) 252, 399, 470, 759
Bso31I GGTCTC 1 cut(s) 389
BsoBI CYCGRG 1 cut(s) 464
Bsp143I GATC 4 cut(s) 257, 349, 690, 931
Bsp19I CCATGG 1 cut(s) 313
BspACI CCGC 2 cut(s) 388, 993
BspANI GGCC 4 cut(s) 252, 399, 470, 759
BspCNI CTCAG 2 cut(s) 211, 586
BspLI GGNNCC 1 cut(s) 666
BspMAI CTGCAG 1 cut(s) 64
BspMI ACCTGC 1 cut(s) 115
BspPI GGATC 4 cut(s) 265, 344, 685, 939
BspT107I GGYRCC 1 cut(s) 664
BspTNI GGTCTC 1 cut(s) 389
BsrDI GCAATG 1 cut(s) 253
BsrI ACTGG 2 cut(s) 842, 978
BssECI CCNNGG 3 cut(s) 253, 313, 430
BssMI GATC 4 cut(s) 257, 349, 690, 931
BssT1I CCWWGG 2 cut(s) 313, 430
Bst2UI CCWGG 2 cut(s) 255, 734
Bst4CI ACNGT 2 cut(s) 617, 722
BstAPI GCANNNNNTGC 1 cut(s) 111
BstC8I GCNNGC 2 cut(s) 265, 373
BstDEI CTNAG 4 cut(s) 219, 268, 340, 573
BstDSI CCRYGG 1 cut(s) 313
BstF5I GGATG 2 cut(s) 149, 540
BstKTI GATC 4 cut(s) 260, 352, 693, 934
BstMAI GTCTC 2 cut(s) 389, 889
BstMBI GATC 4 cut(s) 257, 349, 690, 931
BstMWI GCNNNNNNNGC 4 cut(s) 105, 111, 396, 833
BstNI CCWGG 2 cut(s) 255, 734
BstNSI RCATGY 1 cut(s) 267
BstSCI CCNGG 4 cut(s) 253, 732, 816, 920
BstSFI CTRYAG 2 cut(s) 60, 94
BstV1I GCAGC 2 cut(s) 46, 117
BstX2I RGATCY 2 cut(s) 349, 690
BstYI RGATCY 2 cut(s) 349, 690
BsuRI GGCC 4 cut(s) 252, 399, 470, 759
BtgI CCRYGG 1 cut(s) 313
BtsCI GGATG 2 cut(s) 149, 540
BtsIMutI CAGTG 1 cut(s) 622
BveI ACCTGC 1 cut(s) 115
Cac8I GCNNGC 2 cut(s) 265, 373
Cfr13I GGNCC 1 cut(s) 251
Csp6I GTAC 4 cut(s) 65, 130, 665, 865
CviAII CATG 5 cut(s) 264, 314, 417, 486, 838
CviQI GTAC 4 cut(s) 65, 130, 665, 865
DdeI CTNAG 4 cut(s) 219, 268, 340, 573
DpnI GATC 4 cut(s) 259, 351, 692, 933
DpnII GATC 4 cut(s) 257, 349, 690, 931
EciI GGCGGA 1 cut(s) 377
Eco130I CCWWGG 2 cut(s) 313, 430
Eco31I GGTCTC 1 cut(s) 389
Eco32I GATATC 1 cut(s) 7
Eco57I CTGAAG 3 cut(s) 140, 414, 973
Eco88I CYCGRG 1 cut(s) 464
EcoRII CCWGG 2 cut(s) 253, 732
EcoRV GATATC 1 cut(s) 7
EcoT14I CCWWGG 2 cut(s) 313, 430
ErhI CCWWGG 2 cut(s) 313, 430
FaeI CATG 5 cut(s) 267, 317, 420, 489, 841
FalI AAGNNNNNCTT 4 cut(s) 94, 126, 768, 800
FaqI GGGAC 2 cut(s) 422, 503
FatI CATG 5 cut(s) 263, 313, 416, 485, 837
FauI CCCGC 1 cut(s) 986
FauNDI CATATG 1 cut(s) 209
Fnu4HI GCNGC 2 cut(s) 60, 106
FokI GGATG 2 cut(s) 136, 527
Fsp4HI GCNGC 2 cut(s) 60, 106
FspBI CTAG 1 cut(s) 968
GluI GCNGC 2 cut(s) 60, 106
GsuI CTGGAG 1 cut(s) 849
HaeIII GGCC 4 cut(s) 252, 399, 470, 759
HapII CCGG 2 cut(s) 818, 921
Hin1II CATG 5 cut(s) 267, 317, 420, 489, 841
HincII GTYRAC 1 cut(s) 502
HindII GTYRAC 1 cut(s) 502
HinfI GANTC 7 cut(s) 421, 435, 446, 548, 569, 750, 941
HpaII CCGG 2 cut(s) 818, 921
HphI GGTGA 4 cut(s) 150, 539, 722, 866
Hpy166II GTNNAC 4 cut(s) 130, 236, 502, 912
Hpy188I TCNGA 6 cut(s) 120, 349, 705, 715, 749, 936
Hpy188III TCNNGA 4 cut(s) 13, 575, 811, 945
Hpy8I GTNNAC 4 cut(s) 130, 236, 502, 912
HpyAV CCTTC 4 cut(s) 389, 770, 783, 997
HpyCH4III ACNGT 2 cut(s) 617, 722
HpyCH4V TGCA 7 cut(s) 62, 198, 213, 246, 742, 975, 1011
HpyF10VI GCNNNNNNNGC 4 cut(s) 105, 111, 396, 833
HpyF3I CTNAG 4 cut(s) 219, 268, 340, 573
Hsp92II CATG 5 cut(s) 267, 317, 420, 489, 841
KpnI GGTACC 1 cut(s) 668
Kzo9I GATC 4 cut(s) 257, 349, 690, 931
LmnI GCTCC 2 cut(s) 15, 532
Lsp1109I GCAGC 2 cut(s) 46, 117
MaeI CTAG 1 cut(s) 968
MaeIII GTNAC 3 cut(s) 625, 670, 980
MalI GATC 4 cut(s) 259, 351, 692, 933
MboI GATC 4 cut(s) 257, 349, 690, 931
MboII GAAGA 1 cut(s) 692
MfeI CAATTG 1 cut(s) 193
MflI RGATCY 2 cut(s) 349, 690
MluCI AATT 4 cut(s) 193, 241, 648, 697
MlyI GAGTC 2 cut(s) 429, 440
MmeI TCCRAC 2 cut(s) 829, 909
MnlI CCTC 9 cut(s) 163, 285, 368, 449, 460, 523, 591, 845, 918
MslI CAYNNNNRTG 1 cut(s) 50
MspA1I CMGCKG 1 cut(s) 993
MspI CCGG 2 cut(s) 818, 921
MspR9I CCNGG 4 cut(s) 255, 734, 818, 922
MunI CAATTG 1 cut(s) 193
MvaI CCWGG 2 cut(s) 255, 734
MwoI GCNNNNNNNGC 4 cut(s) 105, 111, 396, 833
NciI CCSGG 2 cut(s) 818, 922
NcoI CCATGG 1 cut(s) 313
NdeI CATATG 1 cut(s) 209
NdeII GATC 4 cut(s) 257, 349, 690, 931
NlaIII CATG 5 cut(s) 267, 317, 420, 489, 841
NlaIV GGNNCC 1 cut(s) 666
NmuCI GTSAC 2 cut(s) 625, 670
NspI RCATGY 1 cut(s) 267
PaeI GCATGC 1 cut(s) 267
PaeR7I CTCGAG 1 cut(s) 464
PaqCI CACCTGC 1 cut(s) 115
PfeI GAWTC 5 cut(s) 421, 548, 569, 750, 941
PflMI CCANNNNNTGG 1 cut(s) 848
PkrI GCNGC 2 cut(s) 61, 107
PleI GAGTC 2 cut(s) 429, 440
PpsI GAGTC 2 cut(s) 429, 440
Psp6I CCWGG 2 cut(s) 253, 732
PspGI CCWGG 2 cut(s) 253, 732
PspN4I GGNNCC 1 cut(s) 666
PspPI GGNCC 1 cut(s) 251
PspXI VCTCGAGB 1 cut(s) 464
PstI CTGCAG 1 cut(s) 64
PsuI RGATCY 2 cut(s) 349, 690
RsaI GTAC 4 cut(s) 66, 131, 666, 866
RsaNI GTAC 4 cut(s) 65, 130, 665, 865
RseI CAYNNNNRTG 1 cut(s) 50
SatI GCNGC 2 cut(s) 60, 106
Sau3AI GATC 4 cut(s) 257, 349, 690, 931
Sau96I GGNCC 1 cut(s) 251
SchI GAGTC 2 cut(s) 429, 440
ScrFI CCNGG 4 cut(s) 255, 734, 818, 922
SfcI CTRYAG 2 cut(s) 60, 94
Sfr274I CTCGAG 1 cut(s) 464
SlaI CTCGAG 1 cut(s) 464
SmiMI CAYNNNNRTG 1 cut(s) 50
SmlI CTYRAG 3 cut(s) 84, 464, 915
SmoI CTYRAG 3 cut(s) 84, 464, 915
SphI GCATGC 1 cut(s) 267
Sse9I AATT 4 cut(s) 193, 241, 648, 697
SsiI CCGC 2 cut(s) 388, 993
SspMI CTAG 1 cut(s) 968
StyD4I CCNGG 4 cut(s) 253, 732, 816, 920
StyI CCWWGG 2 cut(s) 313, 430
TaaI ACNGT 2 cut(s) 617, 722
TaqI TCGA 1 cut(s) 465
TaqII GACCGA 1 cut(s) 371
TasI AATT 4 cut(s) 193, 241, 648, 697
TatI WGTACW 3 cut(s) 64, 129, 864
TfiI GAWTC 5 cut(s) 421, 548, 569, 750, 941
TscAI CASTG 1 cut(s) 622
TseFI GTSAC 2 cut(s) 625, 670
TseI GCWGC 2 cut(s) 59, 105
Tsp45I GTSAC 2 cut(s) 625, 670
TspDTI ATGAA 3 cut(s) 271, 367, 510
TspRI CASTG 1 cut(s) 622
Van91I CCANNNNNTGG 1 cut(s) 848
XapI RAATTY 1 cut(s) 648
XceI RCATGY 1 cut(s) 267
XcmI CCANNNNNNNNNTGG 1 cut(s) 483
XhoI CTCGAG 1 cut(s) 464
XspI CTAG 1 cut(s) 968
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.