FvH4_6g39844

Introduces a single-strand break via transesterification at a target site in duplex DNA. Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0016078
Physical Location & Seq
Forward (+)
31469122 .. 31470978
1857 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g39844.t2

Sequence Viewer

Length: 1212 bp
ATGAAGACGGAAGCATCGAGATCTGTGATCCAAATCGACTCCGACGCCGACCCAGACGACGAGTTCTTTTCGCAGGTCGCCGCCGCCGTCGAGGCCGAAGCTCTCGCCAACAAGCGCCGCCGTGTCGCCACCTCCGCGCCCTCCCCATACGCCGTCTTGTCGGCACCATCGCAGCCCCCGCGCGCCGCGATTCGGAAGGAGGTTTCTGACGGCGACGGCGGTCCCTCCCCATACGCCGTCTTGTCGGCACCGTCGCCGCCCCCGCGCGCGGCGATTCGGAAGGAGGTTTCTGACGGCGACGGCGGTCTCTACACCGCGGCGCTCAAAGGAAGCCAGAGCGCGTTCTCCGAGCCTCCGCGCGGCGGCGGAGGATTCAGCATAGGAAGAGTCGGCGGCGCCGTTGTAAACGACGGCGTTTCGGCCGGCGATGCTTGCTTTAAGTGCGGGAAGTCGGGACACTGGGCTCGCGATTGCGATGCCCCGGGCGGAGGCGGCGGAGGAGGGCATGGTGGTAATTACGGCGGCGGAGGAGGTGGCGGAGGGTATAATGGTAATTACGGCGGTGACGCTGCGTCCGGGATTTCGTTTCCTGAGAAAGCCTGCCCCTGTGGATCTGGAACCTGCGCGGTGCTCACTGCGAATACTGAGAAGAATCGTGGTCGGAAATTCTACAAATGCCCACTTAGACAGGAAAATGGAGGTTGTGGTTTCTTTGAGTGGTGTGACAATGCTTCTGGGGCTAATGCCATGGCTGGTGCTGGTAGTGGTGGCTTTAGTAGGACCCAGAACTATGCATCTGATTCTACATTTACACCTCTTGAATGCCCCTGTGGCGGCGGGCAATGCCGAATCTTAACAGCTAAGACTGGCAACAATATCGGCAGCCAGTTCTATCGCTGTCCTGGAAATGAGGGAAGCTCTTGTGGTTTCTTCAAGTGGTGCAATGAGAATACTGTGGCAGCTGGTAGTGCTCAAGGTGCGCGAATCCCCAAGGCGGTTTATGGTTCGAGCGAGGCAAGCAGCCAAGGAAGCTATGGTGTTAAGACTGGTTCTTCGTGTTATAAGTGTGGAAAGGAAGGGCATTGGGCAAGAGATTGCTCTGGTCCTTCGAACAATGCTCAGGTTGAATTTGGAGGACGGTCTACATCAACAGGCAGCTGCTATAAGTGTGGAAAGACAGGGCACTGGGCCAGGGACTGCCCTTCTGGTTAA

Protein Analysis

404

Amino Acids

40.71

Weight (kDa)

8.29

Isoelectric Point (pI)

48.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC PF00098 116 - 131 2.9e-07 Zinc knuckle
Zn_ribbon_GRF PF06839 172 - 215 2.9e-15 GRF zinc finger
Zn_ribbon_GRF PF06839 247 - 289 2.6e-14 GRF zinc finger
zf-CCHC PF00098 324 - 339 1.6e-07 Zinc knuckle
zf-CCHC PF00098 358 - 374 1.5e-08 Zinc knuckle
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0016078)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G42860
fragaria_vesca FvH4_6g39844 FvH4_6g39844 FvH4_6g39844
malus_domestica MD17G1125500.v1.1
prunus_persica Prupe.3G190200_v2.0.a1
pyrus_communis pycom17g11770
rosa_chinensis RchiOBHm_Chr2g0154211
rosa_laevigata RLG00000020764
rosa_roxburghii Rroxscaffold_2G00094460
rosa_samantha Rh2AG507900 Rh2BG518900 Rh2CG493200 Rh2DG529800
rosa_wichuraiana Rw2G041710

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1062
Acc36I ACCTGC 2 cut(s) 64, 629
AccB1I GGYRCC 3 cut(s) 163, 247, 395
AccI GTMKAC 1 cut(s) 1142
AclWI GGATC 2 cut(s) 22, 619
AcoI YGGCCR 1 cut(s) 420
AcsI RAATTY 2 cut(s) 665, 1127
AcyI GRCGYC 2 cut(s) 45, 396
AfiI CCNNNNNNNGG 7 cut(s) 192, 268, 359, 362, 488, 833, 994
AgsI TTSAA 3 cut(s) 821, 934, 1127
AhdI GACNNNNNGTC 1 cut(s) 571
AjnI CCWGG 2 cut(s) 901, 1190
AluBI AGCT 6 cut(s) 101, 860, 918, 962, 1032, 1158
AluI AGCT 6 cut(s) 101, 860, 918, 962, 1032, 1158
Alw21I GWGCWC 2 cut(s) 633, 973
Alw26I GTCTC 1 cut(s) 311
AlwI GGATC 2 cut(s) 22, 619
AlwNI CAGNNNCTG 1 cut(s) 1197
Ama87I CYCGRG 1 cut(s) 481
AoxI GGCC 3 cut(s) 93, 420, 1188
ApeKI GCWGC 7 cut(s) 172, 569, 882, 959, 1020, 1155, 1158
ApoI RAATTY 2 cut(s) 665, 1127
ArsI GACNNNNNNTTYG 2 cut(s) 1036, 1068
AspS9I GGNCC 4 cut(s) 221, 780, 1103, 1188
AsuC2I CCSGG 3 cut(s) 482, 483, 577
AsuHPI GGTGA 1 cut(s) 575
AsuII TTCGAA 1 cut(s) 1109
AvaI CYCGRG 1 cut(s) 481
AvaII GGWCC 3 cut(s) 221, 780, 1103
BaeGI GKGCMC 1 cut(s) 1185
BanI GGYRCC 3 cut(s) 163, 247, 395
BanII GRGCYC 1 cut(s) 466
BbsI GAAGAC 1 cut(s) 11
Bbv12I GWGCWC 2 cut(s) 633, 973
BbvI GCAGC 7 cut(s) 184, 556, 894, 971, 1032, 1145, 1167
BccI CCATC 1 cut(s) 175
BcgI CGANNNNNNTGC 4 cut(s) 458, 492, 859, 893
BciT130I CCWGG 2 cut(s) 903, 1192
BcnI CCSGG 3 cut(s) 482, 483, 577
BcoDI GTCTC 1 cut(s) 311
BfoI RGCGCY 3 cut(s) 118, 323, 399
BfuAI ACCTGC 2 cut(s) 64, 629
BglI GCCNNNNNGGC 2 cut(s) 92, 831
BglII AGATCT 1 cut(s) 20
Bme1390I CCNGG 5 cut(s) 482, 483, 577, 903, 1192
Bme18I GGWCC 3 cut(s) 221, 780, 1103
BmeRI GACNNNNNGTC 1 cut(s) 571
BmeT110I CYCGRG 1 cut(s) 481
BmgT120I GGNCC 4 cut(s) 221, 780, 1103, 1188
BmiI GGNNCC 6 cut(s) 165, 223, 249, 397, 619, 782
BmrFI CCNGG 5 cut(s) 482, 483, 577, 903, 1192
BmrI ACTGGG 2 cut(s) 469, 1195
BmsI GCATC 4 cut(s) 23, 418, 466, 803
BmuI ACTGGG 2 cut(s) 469, 1195
BoxI GACNNNNGTC 2 cut(s) 219, 303
BpiI GAAGAC 1 cut(s) 11
BplI GAGNNNNNCTC 2 cut(s) 902, 934
Bpu10I CCTNAGC 1 cut(s) 1119
Bpu14I TTCGAA 1 cut(s) 1109
BpuEI CTTGAG 1 cut(s) 957
BpuMI CCSGG 3 cut(s) 482, 483, 577
BsaBI GATNNNNATC 1 cut(s) 32
BsaHI GRCGYC 2 cut(s) 45, 396
BsaI GGTCTC 1 cut(s) 311
BsaJI CCNNGG 7 cut(s) 315, 480, 481, 747, 990, 1024, 1191
Bsc4I CCNNNNNNNGG 7 cut(s) 192, 268, 359, 362, 488, 833, 994
Bse118I RCCGGY 1 cut(s) 422
Bse1I ACTGG 5 cut(s) 464, 871, 886, 1051, 1190
Bse3DI GCAATG 2 cut(s) 848, 949
Bse8I GATNNNNATC 1 cut(s) 32
BseBI CCWGG 2 cut(s) 903, 1192
BseDI CCNNGG 7 cut(s) 315, 480, 481, 747, 990, 1024, 1191
BseJI GATNNNNATC 1 cut(s) 32
BseLI CCNNNNNNNGG 7 cut(s) 192, 268, 359, 362, 488, 833, 994
BseMI GCAATG 2 cut(s) 848, 949
BseMII CTCAG 3 cut(s) 582, 636, 1133
BseNI ACTGG 5 cut(s) 464, 871, 886, 1051, 1190
BsePI GCGCGC 2 cut(s) 181, 265
BseRI GAGGAG 2 cut(s) 513, 543
BseSI GKGCMC 1 cut(s) 1185
BseX3I CGGCCG 1 cut(s) 420
BseXI GCAGC 7 cut(s) 184, 556, 894, 971, 1032, 1145, 1167
Bsh1285I CGRYCG 1 cut(s) 423
BshFI GGCC 3 cut(s) 95, 422, 1190
BshNI GGYRCC 3 cut(s) 163, 247, 395
BsiEI CGRYCG 1 cut(s) 423
BsiHKAI GWGCWC 2 cut(s) 633, 973
BsiHKCI CYCGRG 1 cut(s) 481
BsiSI CCGG 3 cut(s) 423, 482, 576
BslFI GGGAC 3 cut(s) 207, 468, 1208
BslI CCNNNNNNNGG 7 cut(s) 192, 268, 359, 362, 488, 833, 994
BsmAI GTCTC 1 cut(s) 311
BsmFI GGGAC 3 cut(s) 207, 468, 1208
BsmI GAATGC 1 cut(s) 827
BsnI GGCC 3 cut(s) 95, 422, 1190
Bso31I GGTCTC 1 cut(s) 311
BsoBI CYCGRG 1 cut(s) 481
Bsp119I TTCGAA 1 cut(s) 1109
Bsp1286I GDGCHC 4 cut(s) 466, 633, 973, 1185
Bsp143I GATC 3 cut(s) 20, 27, 611
Bsp19I CCATGG 1 cut(s) 747
Bsp68I TCGCGA 1 cut(s) 468
BspANI GGCC 3 cut(s) 95, 422, 1190
BspCNI CTCAG 3 cut(s) 583, 637, 1132
BspLI GGNNCC 6 cut(s) 165, 223, 249, 397, 619, 782
BspMI ACCTGC 2 cut(s) 64, 629
BspPI GGATC 2 cut(s) 22, 619
BspT104I TTCGAA 1 cut(s) 1109
BspT107I GGYRCC 3 cut(s) 163, 247, 395
BspTNI GGTCTC 1 cut(s) 311
BsrDI GCAATG 2 cut(s) 848, 949
BsrFI RCCGGY 1 cut(s) 422
BsrI ACTGG 5 cut(s) 464, 871, 886, 1051, 1190
BssAI RCCGGY 1 cut(s) 422
BssECI CCNNGG 7 cut(s) 315, 480, 481, 747, 990, 1024, 1191
BssHII GCGCGC 2 cut(s) 181, 265
BssMI GATC 3 cut(s) 20, 27, 611
BssNI GRCGYC 2 cut(s) 45, 396
BssT1I CCWWGG 3 cut(s) 747, 990, 1024
Bst2UI CCWGG 2 cut(s) 903, 1192
Bst4CI ACNGT 3 cut(s) 252, 955, 1140
Bst6I CTCTTC 1 cut(s) 379
BstACI GRCGYC 2 cut(s) 45, 396
BstBI TTCGAA 1 cut(s) 1109
BstC8I GCNNGC 8 cut(s) 183, 267, 424, 433, 466, 601, 839, 1018
BstDEI CTNAG 5 cut(s) 591, 645, 683, 861, 1119
BstDSI CCRYGG 2 cut(s) 315, 747
BstH2I RGCGCY 3 cut(s) 118, 323, 399
BstKTI GATC 3 cut(s) 23, 30, 614
BstMAI GTCTC 1 cut(s) 311
BstMBI GATC 3 cut(s) 20, 27, 611
BstMCI CGRYCG 1 cut(s) 423
BstNI CCWGG 2 cut(s) 903, 1192
BstPAI GACNNNNGTC 2 cut(s) 219, 303
BstSCI CCNGG 5 cut(s) 480, 481, 575, 901, 1190
BstSLI GKGCMC 1 cut(s) 1185
BstV1I GCAGC 7 cut(s) 184, 556, 894, 971, 1032, 1145, 1167
BstV2I GAAGAC 1 cut(s) 11
BstX2I RGATCY 2 cut(s) 20, 611
BstYI RGATCY 2 cut(s) 20, 611
BstZI CGGCCG 1 cut(s) 420
BsuRI GGCC 3 cut(s) 95, 422, 1190
BtgI CCRYGG 2 cut(s) 315, 747
BtgZI GCGATG 3 cut(s) 153, 441, 489
BtsI GCAGTG 1 cut(s) 633
BtsIMutI CAGTG 3 cut(s) 457, 633, 1183
BtuMI TCGCGA 1 cut(s) 468
BveI ACCTGC 2 cut(s) 64, 629
Cac8I GCNNGC 8 cut(s) 183, 267, 424, 433, 466, 601, 839, 1018
CaiI CAGNNNCTG 1 cut(s) 1197
Cfr10I RCCGGY 1 cut(s) 422
Cfr13I GGNCC 4 cut(s) 221, 780, 1103, 1188
Cfr42I CCGCGG 1 cut(s) 318
Cfr9I CCCGGG 1 cut(s) 481
CseI GACGC 3 cut(s) 53, 561, 575
CviAII CATG 2 cut(s) 506, 748
DdeI CTNAG 5 cut(s) 591, 645, 683, 861, 1119
DinI GGCGCC 1 cut(s) 397
DpnI GATC 3 cut(s) 22, 29, 613
DpnII GATC 3 cut(s) 20, 27, 611
DriI GACNNNNNGTC 1 cut(s) 571
EaeI YGGCCR 1 cut(s) 420
EagI CGGCCG 1 cut(s) 420
Eam1104I CTCTTC 1 cut(s) 379
Eam1105I GACNNNNNGTC 1 cut(s) 571
EarI CTCTTC 1 cut(s) 379
EciI GGCGGA 5 cut(s) 381, 501, 510, 540, 552
EclXI CGGCCG 1 cut(s) 420
Eco130I CCWWGG 3 cut(s) 747, 990, 1024
Eco24I GRGCYC 1 cut(s) 466
Eco31I GGTCTC 1 cut(s) 311
Eco47I GGWCC 3 cut(s) 221, 780, 1103
Eco52I CGGCCG 1 cut(s) 420
Eco88I CYCGRG 1 cut(s) 481
EcoO109I RGGNCCY 1 cut(s) 780
EcoRII CCWGG 2 cut(s) 901, 1190
EcoT14I CCWWGG 3 cut(s) 747, 990, 1024
EcoT22I ATGCAT 1 cut(s) 796
EcoT38I GRGCYC 1 cut(s) 466
EgeI GGCGCC 1 cut(s) 397
EheI GGCGCC 1 cut(s) 397
ErhI CCWWGG 3 cut(s) 747, 990, 1024
FaeI CATG 2 cut(s) 509, 751
FaqI GGGAC 3 cut(s) 207, 468, 1208
FatI CATG 2 cut(s) 505, 747
FauI CCCGC 4 cut(s) 186, 270, 437, 830
FblI GTMKAC 1 cut(s) 1142
FriOI GRGCYC 1 cut(s) 466
HaeII RGCGCY 3 cut(s) 118, 323, 399
HaeIII GGCC 3 cut(s) 95, 422, 1190
HapII CCGG 3 cut(s) 423, 482, 576
HgaI GACGC 3 cut(s) 53, 561, 575
Hin1I GRCGYC 2 cut(s) 45, 396
Hin1II CATG 2 cut(s) 509, 751
HinfI GANTC 9 cut(s) 38, 190, 274, 372, 387, 652, 800, 849, 984
HpaII CCGG 3 cut(s) 423, 482, 576
HphI GGTGA 1 cut(s) 575
Hpy166II GTNNAC 2 cut(s) 406, 1143
Hpy188I TCNGA 8 cut(s) 43, 195, 208, 279, 292, 349, 663, 799
Hpy188III TCNNGA 6 cut(s) 18, 453, 467, 590, 615, 818
Hpy8I GTNNAC 2 cut(s) 406, 1143
Hpy99I CGWCG 7 cut(s) 47, 62, 92, 218, 256, 302, 413
HpyAV CCTTC 5 cut(s) 190, 274, 1070, 1116, 1212
HpyCH4III ACNGT 3 cut(s) 252, 955, 1140
HpyCH4V TGCA 2 cut(s) 794, 942
HpyF3I CTNAG 5 cut(s) 591, 645, 683, 861, 1119
Hsp92I GRCGYC 2 cut(s) 45, 396
Hsp92II CATG 2 cut(s) 509, 751
KasI GGCGCC 1 cut(s) 395
KroI GCCGGC 1 cut(s) 422
KroNI GCCGGC 1 cut(s) 424
KspI CCGCGG 1 cut(s) 318
Kzo9I GATC 3 cut(s) 20, 27, 611
Lsp1109I GCAGC 7 cut(s) 184, 556, 894, 971, 1032, 1145, 1167
LweI GCATC 4 cut(s) 23, 418, 466, 803
MaeIII GTNAC 2 cut(s) 563, 722
MalI GATC 3 cut(s) 22, 29, 613
MauBI CGCGCGCG 1 cut(s) 265
MboI GATC 3 cut(s) 20, 27, 611
MboII GAAGA 5 cut(s) 16, 396, 661, 922, 1044
MflI RGATCY 2 cut(s) 20, 611
MhlI GDGCHC 4 cut(s) 466, 633, 973, 1185
MluCI AATT 4 cut(s) 514, 553, 665, 1127
Mly113I GGCGCC 1 cut(s) 396
MlyI GAGTC 2 cut(s) 32, 396
MmeI TCCRAC 2 cut(s) 66, 641
Mph1103I ATGCAT 1 cut(s) 796
MroNI GCCGGC 1 cut(s) 422
MseI TTAA 4 cut(s) 438, 854, 1041, 1210
MspA1I CMGCKG 3 cut(s) 317, 962, 1158
MspI CCGG 3 cut(s) 423, 482, 576
MspR9I CCNGG 5 cut(s) 482, 483, 577, 903, 1192
Mva1269I GAATGC 1 cut(s) 827
MvaI CCWGG 2 cut(s) 903, 1192
NaeI GCCGGC 1 cut(s) 424
NarI GGCGCC 1 cut(s) 396
NciI CCSGG 3 cut(s) 482, 483, 577
NcoI CCATGG 1 cut(s) 747
NdeII GATC 3 cut(s) 20, 27, 611
NgoMIV GCCGGC 1 cut(s) 422
NlaIII CATG 2 cut(s) 509, 751
NlaIV GGNNCC 6 cut(s) 165, 223, 249, 397, 619, 782
NmuCI GTSAC 2 cut(s) 563, 722
NruI TCGCGA 1 cut(s) 468
NsiI ATGCAT 1 cut(s) 796
NspV TTCGAA 1 cut(s) 1109
PauI GCGCGC 2 cut(s) 181, 265
PcsI WCGNNNNNNNCGW 3 cut(s) 14, 84, 396
PctI GAATGC 1 cut(s) 827
PdiI GCCGGC 1 cut(s) 424
PfeI GAWTC 7 cut(s) 190, 274, 372, 652, 800, 849, 984
PfoI TCCNGGA 2 cut(s) 575, 901
PleI GAGTC 2 cut(s) 32, 395
PluTI GGCGCC 1 cut(s) 399
PpsI GAGTC 2 cut(s) 32, 395
PpuMI RGGWCCY 1 cut(s) 780
PshAI GACNNNNGTC 2 cut(s) 219, 303
PsiI TTATAA 1 cut(s) 1062
Psp5II RGGWCCY 1 cut(s) 780
Psp6I CCWGG 2 cut(s) 901, 1190
PspGI CCWGG 2 cut(s) 901, 1190
PspN4I GGNNCC 6 cut(s) 165, 223, 249, 397, 619, 782
PspPI GGNCC 4 cut(s) 221, 780, 1103, 1188
PspPPI RGGWCCY 1 cut(s) 780
PstNI CAGNNNCTG 1 cut(s) 1197
PsuI RGATCY 2 cut(s) 20, 611
PteI GCGCGC 2 cut(s) 181, 265
PvuII CAGCTG 2 cut(s) 962, 1158
RruI TCGCGA 1 cut(s) 468
SacII CCGCGG 1 cut(s) 318
SaqAI TTAA 4 cut(s) 438, 854, 1041, 1210
Sau3AI GATC 3 cut(s) 20, 27, 611
Sau96I GGNCC 4 cut(s) 221, 780, 1103, 1188
SchI GAGTC 2 cut(s) 32, 396
ScrFI CCNGG 5 cut(s) 482, 483, 577, 903, 1192
SduI GDGCHC 4 cut(s) 466, 633, 973, 1185
SfaNI GCATC 4 cut(s) 23, 418, 466, 803
SfoI GGCGCC 1 cut(s) 397
Sfr303I CCGCGG 1 cut(s) 318
SfuI TTCGAA 1 cut(s) 1109
SgrBI CCGCGG 1 cut(s) 318
SinI GGWCC 3 cut(s) 221, 780, 1103
SmaI CCCGGG 1 cut(s) 483
SmlI CTYRAG 1 cut(s) 972
SmoI CTYRAG 1 cut(s) 972
Sse9I AATT 4 cut(s) 514, 553, 665, 1127
SspDI GGCGCC 1 cut(s) 395
StyD4I CCNGG 5 cut(s) 480, 481, 575, 901, 1190
StyI CCWWGG 3 cut(s) 747, 990, 1024
TaaI ACNGT 3 cut(s) 252, 955, 1140
TaqI TCGA 5 cut(s) 17, 36, 90, 1007, 1109
TasI AATT 4 cut(s) 514, 553, 665, 1127
TfiI GAWTC 7 cut(s) 190, 274, 372, 652, 800, 849, 984
Tru1I TTAA 4 cut(s) 438, 854, 1041, 1210
Tru9I TTAA 4 cut(s) 438, 854, 1041, 1210
TscAI CASTG 3 cut(s) 464, 640, 1190
TseFI GTSAC 2 cut(s) 563, 722
TseI GCWGC 7 cut(s) 172, 569, 882, 959, 1020, 1155, 1158
Tsp45I GTSAC 2 cut(s) 563, 722
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 23
TspMI CCCGGG 1 cut(s) 481
TspRI CASTG 3 cut(s) 464, 640, 1190
VpaK11BI GGWCC 3 cut(s) 221, 780, 1103
XapI RAATTY 2 cut(s) 665, 1127
XcmI CCANNNNNNNNNTGG 1 cut(s) 1031
XmaI CCCGGG 1 cut(s) 481
XmiI GTMKAC 1 cut(s) 1142
Zsp2I ATGCAT 1 cut(s) 796
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.