FvH4_2g09411
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000468
Physical Location & Seq
Forward (+)
8342027 .. 8344445
2419 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g09411.t1

Sequence Viewer

Length: 1539 bp
ATGTCACGAACATCACTTCTCTACAACTTCCAATGTCGAGACTCATTGTCCAGTCACACATCCTCTAACAACGTTGCACCAAGTGCGCCCTCTCCTGTCCTCAACCTCCTCCACCCTCGCCCTCGGCTCCCAGACCCGCGCCTTCTCCCGTCCTCAACCTCCTCTCTGACCCTCGCCCTTGGCTCCCAGACCCGCATCCGATCCCCTCCCGTCCACGCCCTCGGCTCCCAGACCCGCATCCGCTCCCGTCCTCAACCTCCTCTGACCCGCGCCGTCGACACCTCCAAGGCCAAGCTCACCCCCATCTTCTTCCCGGATTCGTCAACAGATATGGATGGAAGAAATCTGTTGTTGATCTTGCTGTTGGAACTGTGGCATTTAGAGAATATATTTGAGACTCGGTTGATTTATCTAGATAGTATAATAGGCAGTAGTGACACCGAGTGTGTGAATGAGTTAAGAATGGATAGGAGGACTTTTGGGTTGTTATGTGAACTGCTCCGCACTGATGGAAGGCTAAAAAATGATGGATTAGTTAGTGTGGAGGAGCAAGTTTGTATGTTTCTACACATACTTGCTCATCATGTTAAGAATCGTACCATTAGAGCTAGATTCTTCCGATCAGGAGAGACAGTTAGTAGGTATTTCAACTGTGTATTGCAAGGTGTGTTACGATTACAAGCCAATCTATTGAGGATGCCAGACCCCGTACTTGATAATTGCACAGATAATAGATGGAAATGGTTTAAGAATTGCTTGGGAGCTTTAGATGGAACTTATGTTAGAGTATGTGTAGCTGCTACTGACAAGGCAAGATACCGAACTAGAAAGGCAGATATTGCAACAAATGTCTTGGCAGCTTGTTCGCGTGACATGCAGTTCACATTCGTGTTACCGGGATGGGAGGGTTCTGCATCCAACTCTAGAGTACTTCGTGATGCAGTAACTAGGCCAAATGGATTGAGAGTTCCCACCGGTTATTATTACCTTGTAGATGGTGGCTACACTAATGGTGAAGGATTTCTTGCACCTTATAGAGGAAAACGGTATCATCTTTCGGAATGGAGAGAAAGGTGTATGCCTACCAATAAGGAAGAGTATTTTAATATGAAGCATGCGAAAGCAAGAAATGTGATAGAGCGTTGTTTTGGTTTGCTAAAATGTAGATGGGCCATTCTAAGGAGTCCGTCTTTTTATCCCATCAAGACACAATGTCGTATCATTACGGCGTGTTGTCTTCTACATAATTTTATTAGAAGGGAAATGTCTATTGATCCAATGGAATATGCAGTATTTGAGTTTGATCAGTTAGCAGATATGGAAAATGTTGATATGATTGACTCTACTGAAGCATCAGATCAATGGACGGCATGGAGGAATGAGAAAGCCTCTCAAATGTTTGATGATTGGACAAGACGTAGGAATGATAGAGGTGGTGGTAGAGGCAGTGCTAGGGGCGGTGCTAAAGGCAGTGCTAGGGGCGGTGCTAAAGGCAGTGCTAGGGGCGGTGCTAGAGGCCGTGCTAGAGGCCGTGCTTAG
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
DDE_Tnp_4 Myb_DNA-bind_3

Protein Analysis

513

Amino Acids

58.03

Weight (kDa)

9.74

Isoelectric Point (pI)

50.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 137 - 224 3.1e-24 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 249 - 413 2.5e-06 Transposase DDE domain
DDE_Tnp_4 PF13359 256 - 416 9.5e-27 DDE superfamily endonuclease
Plant_tran PF04827 362 - 418 1.7e-06 Plant transposon protein
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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Orthologous Genes (Group: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 243
AccI GTMKAC 1 cut(s) 276
AccII CGCG 3 cut(s) 139, 270, 868
AciI CCGC 9 cut(s) 137, 193, 235, 241, 268, 502, 1458, 1482, 1506
AclI AACGTT 1 cut(s) 72
AclWI GGATC 2 cut(s) 195, 1268
AcuI CTGAAG 1 cut(s) 1368
AdeI CACNNNGTG 2 cut(s) 83, 444
AfaI GTAC 3 cut(s) 598, 711, 930
AfiI CCNNNNNNNGG 2 cut(s) 1037, 1179
AgeI ACCGGT 1 cut(s) 974
AgsI TTSAA 1 cut(s) 649
AhdI GACNNNNNGTC 2 cut(s) 46, 1212
AleI CACNNNNGTG 1 cut(s) 887
AloI GAACNNNNNNTCC 2 cut(s) 951, 983
AluBI AGCT 5 cut(s) 295, 608, 764, 797, 860
AluI AGCT 5 cut(s) 295, 608, 764, 797, 860
Alw26I GTCTC 3 cut(s) 33, 389, 623
AlwI GGATC 2 cut(s) 195, 1268
AoxI GGCC 5 cut(s) 288, 950, 1170, 1516, 1528
ApeKI GCWGC 2 cut(s) 797, 857
AsiGI ACCGGT 1 cut(s) 974
Asp700I GAANNNNTTC 1 cut(s) 1020
AspLEI GCGC 3 cut(s) 88, 141, 272
AspS9I GGNCC 1 cut(s) 1170
AsuC2I CCSGG 2 cut(s) 314, 897
AsuHPI GGTGA 2 cut(s) 289, 1025
BbsI GAAGAC 1 cut(s) 1229
BbvI GCAGC 2 cut(s) 784, 869
BceAI ACGGC 5 cut(s) 257, 1242, 1383, 1503, 1515
BcgI CGANNNNNNTGC 2 cut(s) 846, 880
BclI TGATCA 1 cut(s) 1303
BcnI CCSGG 2 cut(s) 314, 897
BcoDI GTCTC 3 cut(s) 33, 389, 623
BisI GCNGC 2 cut(s) 798, 858
BlsI GCNGC 2 cut(s) 799, 859
BmcAI AGTACT 1 cut(s) 930
Bme1390I CCNGG 2 cut(s) 314, 897
BmeRI GACNNNNNGTC 2 cut(s) 46, 1212
BmgT120I GGNCC 1 cut(s) 1170
BmiI GGNNCC 3 cut(s) 128, 184, 226
BmrFI CCNGG 2 cut(s) 314, 897
BmsI GCATC 6 cut(s) 204, 246, 687, 923, 928, 1361
BpiI GAAGAC 1 cut(s) 1229
BplI GAGNNNNNCTC 2 cut(s) 1373, 1405
BpuMI CCSGG 2 cut(s) 314, 897
BsaJI CCNNGG 4 cut(s) 122, 178, 220, 285
BsaWI WCCGGW 1 cut(s) 974
BsaXI ACNNNNNCTCC 2 cut(s) 618, 648
Bsc4I CCNNNNNNNGG 2 cut(s) 1037, 1179
Bse118I RCCGGY 1 cut(s) 974
Bse1I ACTGG 1 cut(s) 51
BseDI CCNNGG 4 cut(s) 122, 178, 220, 285
BseGI GGATG 7 cut(s) 59, 195, 237, 340, 702, 905, 914
BseLI CCNNNNNNNGG 2 cut(s) 1037, 1179
BseNI ACTGG 1 cut(s) 51
BseRI GAGGAG 4 cut(s) 98, 151, 249, 560
BseXI GCAGC 2 cut(s) 784, 869
Bsh1236I CGCG 3 cut(s) 139, 270, 868
BshFI GGCC 5 cut(s) 290, 952, 1172, 1518, 1530
BshTI ACCGGT 1 cut(s) 974
BsiSI CCGG 3 cut(s) 314, 896, 975
BslI CCNNNNNNNGG 2 cut(s) 1037, 1179
BsmAI GTCTC 3 cut(s) 33, 389, 623
BsnI GGCC 5 cut(s) 290, 952, 1172, 1518, 1530
Bsp143I GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
BspACI CCGC 9 cut(s) 137, 193, 235, 241, 268, 502, 1458, 1482, 1506
BspANI GGCC 5 cut(s) 290, 952, 1172, 1518, 1530
BspFNI CGCG 3 cut(s) 139, 270, 868
BspLI GGNNCC 3 cut(s) 128, 184, 226
BspPI GGATC 2 cut(s) 195, 1268
BsrBI CCGCTC 1 cut(s) 243
BsrFI RCCGGY 1 cut(s) 974
BsrI ACTGG 1 cut(s) 51
BssAI RCCGGY 1 cut(s) 974
BssECI CCNNGG 4 cut(s) 122, 178, 220, 285
BssMI GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
BssT1I CCWWGG 2 cut(s) 178, 285
Bst4CI ACNGT 4 cut(s) 372, 634, 653, 1047
Bst6I CTCTTC 1 cut(s) 1089
BstAPI GCANNNNNTGC 2 cut(s) 83, 839
BstC8I GCNNGC 1 cut(s) 1116
BstDEI CTNAG 2 cut(s) 1178, 1536
BstENI CCTNNNNNAGG 1 cut(s) 1035
BstF5I GGATG 7 cut(s) 59, 195, 237, 340, 702, 905, 914
BstFNI CGCG 3 cut(s) 139, 270, 868
BstHHI GCGC 3 cut(s) 88, 141, 272
BstKTI GATC 6 cut(s) 203, 357, 623, 1276, 1306, 1360
BstMAI GTCTC 3 cut(s) 33, 389, 623
BstMBI GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
BstMWI GCNNNNNNNGC 3 cut(s) 83, 839, 874
BstNSI RCATGY 2 cut(s) 877, 1118
BstSCI CCNGG 2 cut(s) 312, 895
BstUI CGCG 3 cut(s) 139, 270, 868
BstV1I GCAGC 2 cut(s) 784, 869
BstV2I GAAGAC 1 cut(s) 1229
BsuRI GGCC 5 cut(s) 290, 952, 1172, 1518, 1530
BtsCI GGATG 7 cut(s) 59, 195, 237, 340, 702, 905, 914
BtsI GCAGTG 3 cut(s) 1453, 1477, 1501
BtsIMutI CAGTG 4 cut(s) 504, 1453, 1477, 1501
Cac8I GCNNGC 1 cut(s) 1116
CfoI GCGC 3 cut(s) 88, 141, 272
Cfr10I RCCGGY 1 cut(s) 974
Cfr13I GGNCC 1 cut(s) 1170
Csp6I GTAC 3 cut(s) 597, 710, 929
CspAI ACCGGT 1 cut(s) 974
CviAII CATG 4 cut(s) 584, 874, 1115, 1371
CviQI GTAC 3 cut(s) 597, 710, 929
DdeI CTNAG 2 cut(s) 1178, 1536
DpnI GATC 6 cut(s) 202, 356, 622, 1275, 1305, 1359
DpnII GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
DraIII CACNNNGTG 2 cut(s) 83, 444
DriI GACNNNNNGTC 2 cut(s) 46, 1212
Eam1104I CTCTTC 1 cut(s) 1089
Eam1105I GACNNNNNGTC 2 cut(s) 46, 1212
EarI CTCTTC 1 cut(s) 1089
Eco130I CCWWGG 2 cut(s) 178, 285
Eco57I CTGAAG 1 cut(s) 1368
EcoNI CCTNNNNNAGG 1 cut(s) 1035
EcoT14I CCWWGG 2 cut(s) 178, 285
ErhI CCWWGG 2 cut(s) 178, 285
FaeI CATG 4 cut(s) 587, 877, 1118, 1374
FalI AAGNNNNNCTT 4 cut(s) 740, 772, 1008, 1040
FatI CATG 4 cut(s) 583, 873, 1114, 1370
FauI CCCGC 4 cut(s) 144, 200, 242, 275
FbaI TGATCA 1 cut(s) 1303
FblI GTMKAC 1 cut(s) 276
Fnu4HI GCNGC 2 cut(s) 798, 858
FokI GGATG 7 cut(s) 46, 182, 224, 347, 709, 901, 912
Fsp4HI GCNGC 2 cut(s) 798, 858
GlaI GCGC 3 cut(s) 87, 140, 271
GluI GCNGC 2 cut(s) 798, 858
HaeIII GGCC 5 cut(s) 290, 952, 1172, 1518, 1530
HapII CCGG 3 cut(s) 314, 896, 975
HhaI GCGC 3 cut(s) 88, 141, 272
Hin1II CATG 4 cut(s) 587, 877, 1118, 1374
Hin6I GCGC 3 cut(s) 86, 139, 270
HinP1I GCGC 3 cut(s) 86, 139, 270
HincII GTYRAC 2 cut(s) 277, 324
HindII GTYRAC 2 cut(s) 277, 324
HinfI GANTC 7 cut(s) 41, 317, 397, 592, 612, 1183, 1340
HpaII CCGG 3 cut(s) 314, 896, 975
HphI GGTGA 2 cut(s) 289, 1025
Hpy166II GTNNAC 5 cut(s) 214, 277, 324, 494, 882
Hpy188I TCNGA 6 cut(s) 168, 200, 264, 620, 1060, 1357
Hpy188III TCNNGA 7 cut(s) 6, 38, 413, 624, 924, 935, 1204
Hpy8I GTNNAC 5 cut(s) 214, 277, 324, 494, 882
Hpy99I CGWCG 1 cut(s) 278
HpyAV CCTTC 4 cut(s) 152, 507, 1010, 1251
HpyCH4III ACNGT 4 cut(s) 372, 634, 653, 1047
HpyCH4IV ACGT 2 cut(s) 72, 1417
HpyCH4V TGCA 9 cut(s) 77, 661, 723, 842, 877, 914, 941, 1028, 1289
HpyF10VI GCNNNNNNNGC 3 cut(s) 83, 839, 874
HpyF3I CTNAG 2 cut(s) 1178, 1536
HpySE526I ACGT 2 cut(s) 72, 1417
Hsp92II CATG 4 cut(s) 587, 877, 1118, 1374
HspAI GCGC 3 cut(s) 86, 139, 270
Ksp22I TGATCA 1 cut(s) 1303
Kzo9I GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
LmnI GCTCC 7 cut(s) 132, 188, 230, 248, 504, 547, 761
Lsp1109I GCAGC 2 cut(s) 784, 869
LweI GCATC 6 cut(s) 204, 246, 687, 923, 928, 1361
MaeII ACGT 2 cut(s) 72, 1417
MaeIII GTNAC 7 cut(s) 3, 53, 434, 669, 869, 891, 943
MalI GATC 6 cut(s) 202, 356, 622, 1275, 1305, 1359
MbiI CCGCTC 1 cut(s) 243
MboI GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
MboII GAAGA 6 cut(s) 298, 301, 351, 607, 1106, 1229
MluCI AATT 3 cut(s) 718, 751, 1246
MlyI GAGTC 4 cut(s) 35, 391, 1192, 1334
MmeI TCCRAC 2 cut(s) 345, 942
MroXI GAANNNNTTC 1 cut(s) 1020
MseI TTAA 4 cut(s) 458, 588, 747, 1104
MslI CAYNNNNRTG 1 cut(s) 887
MspI CCGG 3 cut(s) 314, 896, 975
MspR9I CCNGG 2 cut(s) 314, 897
MvnI CGCG 3 cut(s) 139, 270, 868
MwoI GCNNNNNNNGC 3 cut(s) 83, 839, 874
NciI CCSGG 2 cut(s) 314, 897
NdeII GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
NlaIII CATG 4 cut(s) 587, 877, 1118, 1374
NlaIV GGNNCC 3 cut(s) 128, 184, 226
NmeAIII GCCGAG 2 cut(s) 103, 201
NmuCI GTSAC 4 cut(s) 3, 53, 434, 869
NspI RCATGY 2 cut(s) 877, 1118
OliI CACNNNNGTG 1 cut(s) 887
PaeI GCATGC 1 cut(s) 1118
PdmI GAANNNNTTC 1 cut(s) 1020
PfeI GAWTC 3 cut(s) 317, 592, 612
PfoI TCCNGGA 1 cut(s) 312
PinAI ACCGGT 1 cut(s) 974
PkrI GCNGC 2 cut(s) 799, 859
PleI GAGTC 4 cut(s) 35, 391, 1191, 1334
PpsI GAGTC 4 cut(s) 35, 391, 1191, 1334
Psp1406I AACGTT 1 cut(s) 72
PspN4I GGNNCC 3 cut(s) 128, 184, 226
PspPI GGNCC 1 cut(s) 1170
RsaI GTAC 3 cut(s) 598, 711, 930
RsaNI GTAC 3 cut(s) 597, 710, 929
RseI CAYNNNNRTG 1 cut(s) 887
SalI GTCGAC 1 cut(s) 275
SaqAI TTAA 4 cut(s) 458, 588, 747, 1104
SatI GCNGC 2 cut(s) 798, 858
Sau3AI GATC 6 cut(s) 200, 354, 620, 1273, 1303, 1357
Sau96I GGNCC 1 cut(s) 1170
ScaI AGTACT 1 cut(s) 930
SchI GAGTC 4 cut(s) 35, 391, 1192, 1334
ScrFI CCNGG 2 cut(s) 314, 897
SfaNI GCATC 6 cut(s) 204, 246, 687, 923, 928, 1361
SmiMI CAYNNNNRTG 1 cut(s) 887
SphI GCATGC 1 cut(s) 1118
Sse9I AATT 3 cut(s) 718, 751, 1246
SsiI CCGC 9 cut(s) 137, 193, 235, 241, 268, 502, 1458, 1482, 1506
StyD4I CCNGG 2 cut(s) 312, 895
StyI CCWWGG 2 cut(s) 178, 285
TaaI ACNGT 4 cut(s) 372, 634, 653, 1047
TaiI ACGT 2 cut(s) 75, 1420
TaqI TCGA 2 cut(s) 37, 276
TasI AATT 3 cut(s) 718, 751, 1246
TatI WGTACW 1 cut(s) 928
TfiI GAWTC 3 cut(s) 317, 592, 612
Tru1I TTAA 4 cut(s) 458, 588, 747, 1104
Tru9I TTAA 4 cut(s) 458, 588, 747, 1104
TscAI CASTG 4 cut(s) 511, 1453, 1477, 1501
TseFI GTSAC 4 cut(s) 3, 53, 434, 869
TseI GCWGC 2 cut(s) 797, 857
Tsp45I GTSAC 4 cut(s) 3, 53, 434, 869
TspDTI ATGAA 1 cut(s) 1124
TspGWI ACGGA 1 cut(s) 1176
TspRI CASTG 4 cut(s) 511, 1453, 1477, 1501
XagI CCTNNNNNAGG 1 cut(s) 1035
XbaI TCTAGA 2 cut(s) 412, 923
XceI RCATGY 2 cut(s) 877, 1118
XmiI GTMKAC 1 cut(s) 276
XmnI GAANNNNTTC 1 cut(s) 1020
ZrmI AGTACT 1 cut(s) 930
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.