FvH4_3g32610

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0002778
Physical Location & Seq
Forward (+)
27920693 .. 27922460
1768 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g32610.t1

Sequence Viewer

Length: 1419 bp
ATGGCTAAATTTAGAGGGTCTTATATATTGTTGGCTCTCTTTGTAGTGCTCATTGCCATGGAAGCTTCTGTTGTTTTTGGCCAAGCCAAGGGCAATGGAAGCGCCAATGGGAACGGCAATACTGGCAGTGGCAACGGAAACGCCAACGGCAATGGAAACACCGGAAGTGGCAACGGAAACGCCAACGGCAATGGAAATACCGGCAGTGGCAACGGAAACGCCAACGGCAATGGCAACACTGGCAGTGGAAACGGAAACGCCAACGGAAATGGCAACACTGGCAGTGGAAACGGAAGTGGGAATGGCAATGGCAACACTGGCAGTGGCAACGGCAATGGAAATGGCAATGGCAACATTGGCAGTGGCAACGGCAATGGGAACGGCAATGGGAACACTGGCAGCGGCAACGGGAACGGGAACGGGAACGGCAATACTGGCAGTGGCAACGGAAACGGAAACGGAAATGGAAATAATGCTGATGTTACAAACTACCAGGTATTGCCACCACTTGCAACCGGACAAGAGAGATGCATGTGTAAGGCTCAGGGTGCCTGTTTCTACAAGACCCTTGTGTGTCCACCGGAGTGCCCTCAGAGAAAGCCTAAGCAGAACAAGAAACACAAGGGCTGCTTCGTCAACTGCGGCAGCAAGTGTGAAGTCACCTGCAAGTTTAGAAGAGCCAACTGTAATGGGTATGGTTCTCTCTGCTACGATCCTCGATTTGTTGGAGGAGATGGTGTTATGTTCTACTTCCATGGAGCCAAGGGAGGAAACTTTGCCATTGTTTCGGACGATAACCTCCAGATCAACGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCCATCATGTTCGACAATCACAACCTTGTCATTGCAGCCAAGAGGGTCTCAAAGTGGGATGACAAAGTTGATGCTCTCATCGTAAGGTGGGATGGTGAGTCAGTTAGCATTCCTACTGATGGAGAAGCCGAATGGAGGACTAACGGTGATGAGGAACGACAGGTAATCGTGGAAAGAACCGATGACACTAACAGCGTACGAGTTACAGTGGCAGGGCTACTGGAAATGGACATAAAGATTAGGCCTATTGGAGAAGAAGAAAACAAGGTTCATAAGTATCAAATACCCGCTGATGATACTTTTGCTCACTTGGAAACACAGTTCAGATTTTCGAACTTATCTGAACTAGTGGAAGGAGTTCTGGGTAAGACTTACAGGCCAGGTTATGTTAGTCCAGTCAAGGTTGGAGTTCCGATGCCAATGATGGGTGGGGAGGACAAGTACAGGACTCCTTCACTATCCTCACCTCTCTGCAAGGTTTGCAGATTCCAAACTAGTCAATCTGCAGTGTTTGAAAATACAAGTGGAGGAGTGGCATCATACTGA
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

473

Amino Acids

49.15

Weight (kDa)

8.34

Isoelectric Point (pI)

3.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 398 - 454 5.9e-28 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) 671
Acc36I ACCTGC 1 cut(s) 671
AccB1I GGYRCC 1 cut(s) 548
AccII CGCG 1 cut(s) 849
AciI CCGC 3 cut(s) 402, 642, 1161
AclWI GGATC 1 cut(s) 707
AcoI YGGCCR 1 cut(s) 79
AcsI RAATTY 1 cut(s) 8
AfaI GTAC 2 cut(s) 1071, 1316
AfiI CCNNNNNNNGG 4 cut(s) 88, 992, 1008, 1298
AgsI TTSAA 2 cut(s) 866, 1388
AhlI ACTAGT 2 cut(s) 1219, 1367
AjnI CCWGG 2 cut(s) 492, 1252
AleI CACNNNNGTG 1 cut(s) 583
AloI GAACNNNNNNTCC 2 cut(s) 1178, 1210
AluBI AGCT 1 cut(s) 65
AluI AGCT 1 cut(s) 65
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 1 cut(s) 925
AlwI GGATC 1 cut(s) 707
AoxI GGCC 3 cut(s) 79, 1115, 1250
ApeKI GCWGC 4 cut(s) 399, 627, 645, 908
ApoI RAATTY 1 cut(s) 8
Asp700I GAANNNNTTC 1 cut(s) 1230
AspLEI GCGC 1 cut(s) 104
AsuHPI GGTGA 4 cut(s) 652, 980, 1031, 1329
AsuII TTCGAA 1 cut(s) 1205
BaeGI GKGCMC 1 cut(s) 590
BalI TGGCCA 1 cut(s) 81
BanI GGYRCC 1 cut(s) 548
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 4 cut(s) 411, 614, 657, 920
BccI CCATC 5 cut(s) 728, 884, 959, 986, 1291
BceAI ACGGC 8 cut(s) 130, 163, 202, 241, 346, 385, 397, 442
BciT130I CCWGG 2 cut(s) 494, 1254
BcoDI GTCTC 1 cut(s) 925
BcuI ACTAGT 2 cut(s) 1219, 1367
BfaI CTAG 3 cut(s) 836, 1220, 1368
BfmI CTRYAG 1 cut(s) 1377
BfoI RGCGCY 1 cut(s) 105
BfuAI ACCTGC 1 cut(s) 671
BisI GCNGC 6 cut(s) 400, 403, 628, 643, 646, 909
BlsI GCNGC 6 cut(s) 401, 404, 629, 644, 647, 910
Bme1390I CCNGG 2 cut(s) 494, 1254
BmiI GGNNCC 2 cut(s) 550, 760
BmrFI CCNGG 2 cut(s) 494, 1254
BmsI GCATC 3 cut(s) 518, 934, 1278
BpmI CTGGAG 1 cut(s) 785
Bpu10I CCTNAGC 2 cut(s) 543, 603
Bpu14I TTCGAA 1 cut(s) 1205
BsaI GGTCTC 1 cut(s) 925
BsaJI CCNNGG 4 cut(s) 57, 87, 754, 762
BsaWI WCCGGW 3 cut(s) 161, 515, 580
BsaXI ACNNNNNCTCC 4 cut(s) 723, 753, 1298, 1328
Bsc4I CCNNNNNNNGG 4 cut(s) 88, 992, 1008, 1298
Bse118I RCCGGY 1 cut(s) 200
Bse1I ACTGG 8 cut(s) 127, 244, 283, 322, 400, 439, 1098, 1268
BseBI CCWGG 2 cut(s) 494, 1254
BseDI CCNNGG 4 cut(s) 57, 87, 754, 762
BseGI GGATG 2 cut(s) 937, 970
BseLI CCNNNNNNNGG 4 cut(s) 88, 992, 1008, 1298
BseMII CTCAG 2 cut(s) 557, 605
BseNI ACTGG 8 cut(s) 127, 244, 283, 322, 400, 439, 1098, 1268
BseRI GAGGAG 2 cut(s) 744, 1416
BseSI GKGCMC 1 cut(s) 590
BseXI GCAGC 4 cut(s) 411, 614, 657, 920
Bsh1236I CGCG 1 cut(s) 849
BshFI GGCC 3 cut(s) 81, 1117, 1252
BshNI GGYRCC 1 cut(s) 548
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 4 cut(s) 162, 201, 516, 581
BsiWI CGTACG 1 cut(s) 1069
BslI CCNNNNNNNGG 4 cut(s) 88, 992, 1008, 1298
BsmAI GTCTC 1 cut(s) 925
BsmI GAATGC 1 cut(s) 981
BsnI GGCC 3 cut(s) 81, 1117, 1252
Bso31I GGTCTC 1 cut(s) 925
Bsp119I TTCGAA 1 cut(s) 1205
Bsp1286I GDGCHC 2 cut(s) 51, 590
Bsp143I GATC 2 cut(s) 712, 804
Bsp19I CCATGG 2 cut(s) 57, 754
Bsp68I TCGCGA 1 cut(s) 849
BspACI CCGC 3 cut(s) 402, 642, 1161
BspANI GGCC 3 cut(s) 81, 1117, 1252
BspCNI CTCAG 2 cut(s) 556, 604
BspFNI CGCG 1 cut(s) 849
BspLI GGNNCC 2 cut(s) 550, 760
BspMAI CTGCAG 1 cut(s) 1381
BspMI ACCTGC 1 cut(s) 671
BspPI GGATC 1 cut(s) 707
BspQI GCTCTTC 1 cut(s) 670
BspT104I TTCGAA 1 cut(s) 1205
BspT107I GGYRCC 1 cut(s) 548
BspTNI GGTCTC 1 cut(s) 925
BsrFI RCCGGY 1 cut(s) 200
BsrI ACTGG 8 cut(s) 127, 244, 283, 322, 400, 439, 1098, 1268
BssAI RCCGGY 1 cut(s) 200
BssECI CCNNGG 4 cut(s) 57, 87, 754, 762
BssMI GATC 2 cut(s) 712, 804
BssT1I CCWWGG 4 cut(s) 57, 87, 754, 762
Bst2UI CCWGG 2 cut(s) 494, 1254
Bst4CI ACNGT 4 cut(s) 686, 1019, 1081, 1194
Bst6I CTCTTC 1 cut(s) 670
BstAPI GCANNNNNTGC 1 cut(s) 1353
BstBI TTCGAA 1 cut(s) 1205
BstDEI CTNAG 3 cut(s) 543, 591, 603
BstDSI CCRYGG 2 cut(s) 57, 754
BstF5I GGATG 2 cut(s) 937, 970
BstFNI CGCG 1 cut(s) 849
BstH2I RGCGCY 1 cut(s) 105
BstHHI GCGC 1 cut(s) 104
BstKTI GATC 2 cut(s) 715, 807
BstMAI GTCTC 1 cut(s) 925
BstMBI GATC 2 cut(s) 712, 804
BstNI CCWGG 2 cut(s) 494, 1254
BstNSI RCATGY 1 cut(s) 535
BstSCI CCNGG 2 cut(s) 492, 1252
BstSFI CTRYAG 1 cut(s) 1377
BstSLI GKGCMC 1 cut(s) 590
BstUI CGCG 1 cut(s) 849
BstV1I GCAGC 4 cut(s) 411, 614, 657, 920
BsuRI GGCC 3 cut(s) 81, 1117, 1252
BtgI CCRYGG 2 cut(s) 57, 754
BtsCI GGATG 2 cut(s) 937, 970
BtsI GCAGTG 8 cut(s) 133, 211, 250, 289, 328, 367, 445, 1386
BtuMI TCGCGA 1 cut(s) 849
BveI ACCTGC 1 cut(s) 671
CfoI GCGC 1 cut(s) 104
Cfr10I RCCGGY 1 cut(s) 200
CsiI ACCWGGT 1 cut(s) 492
Csp6I GTAC 2 cut(s) 1070, 1315
CviAII CATG 5 cut(s) 58, 532, 755, 858, 880
CviQI GTAC 2 cut(s) 1070, 1315
DdeI CTNAG 3 cut(s) 543, 591, 603
DpnI GATC 2 cut(s) 714, 806
DpnII GATC 2 cut(s) 712, 804
EaeI YGGCCR 1 cut(s) 79
Eam1104I CTCTTC 1 cut(s) 670
EarI CTCTTC 1 cut(s) 670
Eco130I CCWWGG 4 cut(s) 57, 87, 754, 762
Eco147I AGGCCT 1 cut(s) 1117
Eco31I GGTCTC 1 cut(s) 925
EcoRII CCWGG 2 cut(s) 492, 1252
EcoT14I CCWWGG 4 cut(s) 57, 87, 754, 762
EcoT22I ATGCAT 1 cut(s) 533
ErhI CCWWGG 4 cut(s) 57, 87, 754, 762
FaeI CATG 5 cut(s) 61, 535, 758, 861, 883
FalI AAGNNNNNCTT 2 cut(s) 614, 646
FatI CATG 5 cut(s) 57, 531, 754, 857, 879
FauI CCCGC 1 cut(s) 1168
Fnu4HI GCNGC 6 cut(s) 400, 403, 628, 643, 646, 909
FokI GGATG 2 cut(s) 944, 977
Fsp4HI GCNGC 6 cut(s) 400, 403, 628, 643, 646, 909
FspBI CTAG 3 cut(s) 836, 1220, 1368
GlaI GCGC 1 cut(s) 103
GluI GCNGC 6 cut(s) 400, 403, 628, 643, 646, 909
GsuI CTGGAG 1 cut(s) 785
HaeII RGCGCY 1 cut(s) 105
HaeIII GGCC 3 cut(s) 81, 1117, 1252
HapII CCGG 4 cut(s) 162, 201, 516, 581
HhaI GCGC 1 cut(s) 104
Hin1II CATG 5 cut(s) 61, 535, 758, 861, 883
Hin6I GCGC 1 cut(s) 102
HinP1I GCGC 1 cut(s) 102
HincII GTYRAC 1 cut(s) 637
HindII GTYRAC 1 cut(s) 637
HindIII AAGCTT 1 cut(s) 63
HinfI GANTC 4 cut(s) 844, 971, 1321, 1359
HpaII CCGG 4 cut(s) 162, 201, 516, 581
HphI GGTGA 4 cut(s) 652, 980, 1031, 1329
Hpy166II GTNNAC 2 cut(s) 578, 637
Hpy188I TCNGA 5 cut(s) 594, 790, 1199, 1216, 1287
Hpy188III TCNNGA 2 cut(s) 802, 848
Hpy8I GTNNAC 2 cut(s) 578, 637
HpyAV CCTTC 3 cut(s) 834, 1220, 1335
HpyCH4III ACNGT 4 cut(s) 686, 1019, 1081, 1194
HpyCH4V TGCA 7 cut(s) 512, 531, 666, 908, 1347, 1356, 1379
HpyF3I CTNAG 3 cut(s) 543, 591, 603
Hsp92II CATG 5 cut(s) 61, 535, 758, 861, 883
HspAI GCGC 1 cut(s) 102
Kzo9I GATC 2 cut(s) 712, 804
LguI GCTCTTC 1 cut(s) 670
LmnI GCTCC 1 cut(s) 758
Lsp1109I GCAGC 4 cut(s) 411, 614, 657, 920
LweI GCATC 3 cut(s) 518, 934, 1278
MabI ACCWGGT 1 cut(s) 492
MaeI CTAG 3 cut(s) 836, 1220, 1368
MaeIII GTNAC 3 cut(s) 481, 658, 1075
MalI GATC 2 cut(s) 714, 806
MboI GATC 2 cut(s) 712, 804
MboII GAAGA 3 cut(s) 687, 1139, 1142
MhlI GDGCHC 2 cut(s) 51, 590
MlsI TGGCCA 1 cut(s) 81
MluCI AATT 1 cut(s) 8
MluNI TGGCCA 1 cut(s) 81
MlyI GAGTC 3 cut(s) 838, 980, 1315
MmeI TCCRAC 2 cut(s) 706, 1258
Mox20I TGGCCA 1 cut(s) 81
Mph1103I ATGCAT 1 cut(s) 533
MroXI GAANNNNTTC 1 cut(s) 1230
MscI TGGCCA 1 cut(s) 81
MslI CAYNNNNRTG 2 cut(s) 56, 583
Msp20I TGGCCA 1 cut(s) 81
MspA1I CMGCKG 2 cut(s) 402, 1163
MspI CCGG 4 cut(s) 162, 201, 516, 581
MspR9I CCNGG 2 cut(s) 494, 1254
Mva1269I GAATGC 1 cut(s) 981
MvaI CCWGG 2 cut(s) 494, 1254
MvnI CGCG 1 cut(s) 849
NcoI CCATGG 2 cut(s) 57, 754
NdeII GATC 2 cut(s) 712, 804
NlaIII CATG 5 cut(s) 61, 535, 758, 861, 883
NlaIV GGNNCC 2 cut(s) 550, 760
NmuCI GTSAC 1 cut(s) 658
NruI TCGCGA 1 cut(s) 849
NsiI ATGCAT 1 cut(s) 533
NspI RCATGY 1 cut(s) 535
NspV TTCGAA 1 cut(s) 1205
OliI CACNNNNGTG 1 cut(s) 583
PaqCI CACCTGC 1 cut(s) 671
PceI AGGCCT 1 cut(s) 1117
PciSI GCTCTTC 1 cut(s) 670
PctI GAATGC 1 cut(s) 981
PdmI GAANNNNTTC 1 cut(s) 1230
PfeI GAWTC 1 cut(s) 1359
Pfl23II CGTACG 1 cut(s) 1069
PkrI GCNGC 6 cut(s) 401, 404, 629, 644, 647, 910
PleI GAGTC 3 cut(s) 838, 979, 1315
PpsI GAGTC 3 cut(s) 838, 979, 1315
Psp6I CCWGG 2 cut(s) 492, 1252
PspGI CCWGG 2 cut(s) 492, 1252
PspLI CGTACG 1 cut(s) 1069
PspN4I GGNNCC 2 cut(s) 550, 760
PstI CTGCAG 1 cut(s) 1381
RruI TCGCGA 1 cut(s) 849
RsaI GTAC 2 cut(s) 1071, 1316
RsaNI GTAC 2 cut(s) 1070, 1315
RseI CAYNNNNRTG 2 cut(s) 56, 583
SapI GCTCTTC 1 cut(s) 670
SatI GCNGC 6 cut(s) 400, 403, 628, 643, 646, 909
Sau3AI GATC 2 cut(s) 712, 804
SchI GAGTC 3 cut(s) 838, 980, 1315
ScrFI CCNGG 2 cut(s) 494, 1254
SduI GDGCHC 2 cut(s) 51, 590
SexAI ACCWGGT 1 cut(s) 492
SfaNI GCATC 3 cut(s) 518, 934, 1278
SfcI CTRYAG 1 cut(s) 1377
SfuI TTCGAA 1 cut(s) 1205
SmiMI CAYNNNNRTG 2 cut(s) 56, 583
SpeI ACTAGT 2 cut(s) 1219, 1367
Sse9I AATT 1 cut(s) 8
SseBI AGGCCT 1 cut(s) 1117
SsiI CCGC 3 cut(s) 402, 642, 1161
SspMI CTAG 3 cut(s) 836, 1220, 1368
StuI AGGCCT 1 cut(s) 1117
StyD4I CCNGG 2 cut(s) 492, 1252
StyI CCWWGG 4 cut(s) 57, 87, 754, 762
TaaI ACNGT 4 cut(s) 686, 1019, 1081, 1194
TaqI TCGA 4 cut(s) 718, 829, 885, 1205
TasI AATT 1 cut(s) 8
TatI WGTACW 1 cut(s) 1314
TauI GCSGC 2 cut(s) 405, 645
TfiI GAWTC 1 cut(s) 1359
TseFI GTSAC 1 cut(s) 658
TseI GCWGC 4 cut(s) 399, 627, 645, 908
Tsp45I GTSAC 1 cut(s) 658
TspDTI ATGAA 2 cut(s) 808, 1133
TspGWI ACGGA 9 cut(s) 150, 189, 228, 267, 279, 306, 462, 468, 474
XapI RAATTY 1 cut(s) 8
XceI RCATGY 1 cut(s) 535
XmnI GAANNNNTTC 1 cut(s) 1230
XspI CTAG 3 cut(s) 836, 1220, 1368
Zsp2I ATGCAT 1 cut(s) 533
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.