FvH4_3g39750

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0016555
Physical Location & Seq
Reverse (-)
33703382 .. 33706783
3402 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g39750.t6

Sequence Viewer

Length: 1257 bp
ATGGTAACTAAAACACTTCCTTTTCCTTATAATACAGGTGAATGGTGGGACAGGAACCCACTAGATGTCCAGAGGCTGGCACAATTCACAGGAGGAGCACCCAATGTCTCTGATGCATATACCATAAATGGTCAGCCTGGTGATCTATATAGATGCTCCAAACAAGGAACTGTGAGAATCCCAGTGGAATCCAGCGAGACAATTCTCTTGAGAATCATCAACTCTGCACTCAATCAAGAACTGTTCTTCACCATTGCCAACCATAGATTAACTGTTGTGAGTGCTGATGCATCCTACACGAAACCTTTCACAACGAGAGTCATTATGTTAGGACCTGGCCAAACTACAGATGTCCTACTCACGGCTGATCAACCCCCTGCTCACTACTATGCTGCTGCACGTGCCTATCAGACTGCTCAGAATGCAGCCTTCGACAACACCACCACCACTGCCATCCTTGAATACAAGTCTGCTGCTGCTTGTGATTCAAAGAAAGCAAAATTTTCAGCTCCAGTACTGCCATCGTTACCGGCCTACAATGATACAGCAACCGCAACTGCATTTAGTGTTCAGATAAAAAGCCCTTCCCAGGTCCAAATCCCTACACAGATCGACGAGAACCTATATTTCATTGTAGGTTTGGGACTGATTAACTGCACAGTTCCTAACAGCCCACGGTGTCAAGGACCAAACAATACCCGTTTTGCAGCTAGCATGAACAATGTTTCTTTTGTATTCCCAAAAACCACATCCTTAATGCAAGCCTACTATAATGGTATACCTGGTGTGTTCACCACAGACTTCCCGCCAGTTCCTCCGGTGCAATTTGATTATACTGGTAACGTGAGCCGGGGGTTATGGACACCTAGTCGTGGAACTAAGCTCTACAAGTTAAAGTATGGTTCTAGTGTACAAATTGTATTGCAGGACACAAGTATTGTCACAACTGAGGACCATCCTATGCATCTTCATGGGTACCATTTCTATGTGGTTGGATCAGGATTTGGCAACTTCAACCCCAGAACAGACCCAGCCAAATTCAACCTCATTGACCCACCACTGAGGAACACCATTGGAACAAATCCAGGTGGATGGGTAGCTATTCGATTTGTGGCTGATAATCCAGGTGTCTGGTTGATGCACTGTCACTTGGATGCACATCTCGTCTTGGGTTTGGCAATGGCTTTTGTGGTAGAGAATGGAAATGGACCGCTGCAGTCTGTCATACCTCCCCCAGCAGATCTACCCCAATGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003824 GO:0008150 GO:0008152 GO:0016491 GO:0016722 GO:0055114
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Cu-oxidase Cu-oxidase_2 Cu-oxidase_3

Protein Analysis

419

Amino Acids

45.61

Weight (kDa)

7.1

Isoelectric Point (pI)

34.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase PF00394 13 - 157 2.2e-41 Multicopper oxidase
Cu-oxidase_2 PF07731 267 - 401 3.4e-42 Multicopper oxidase
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: OG0016555)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G30210
fragaria_vesca FvH4_3g39750
malus_domestica MD03G1056400.v1.1 MD11G1057600.v1.1 MD11G1058200.v1.1
pyrus_communis pycom03g04470 pycom11g04820
rosa_chinensis RchiOBHm_Chr5g0071631
rosa_laevigata RLG00000036231 RLG00000036234
rosa_multiflora Rmu_sc0005745.1_g000031
rosa_rugosa Rorug05G0413700
rosa_samantha Rh5CG513000
rosa_wichuraiana Rw5G043640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 30
Acc65I GGTACC 1 cut(s) 975
AccB1I GGYRCC 1 cut(s) 975
AccB7I CCANNNNNTGG 1 cut(s) 76
AccI GTMKAC 1 cut(s) 778
AciI CCGC 3 cut(s) 552, 806, 1211
AclWI GGATC 1 cut(s) 1003
AcoI YGGCCR 1 cut(s) 337
AcsI RAATTY 2 cut(s) 500, 1037
AcvI CACGTG 1 cut(s) 401
AfaI GTAC 3 cut(s) 516, 912, 977
AfiI CCNNNNNNNGG 4 cut(s) 76, 361, 589, 872
AgsI TTSAA 4 cut(s) 461, 489, 1015, 1042
AhdI GACNNNNNGTC 1 cut(s) 867
AjnI CCWGG 6 cut(s) 136, 334, 588, 781, 1084, 1123
AluBI AGCT 4 cut(s) 509, 710, 883, 1100
AluI AGCT 4 cut(s) 509, 710, 883, 1100
Alw21I GWGCWC 1 cut(s) 100
Alw26I GTCTC 2 cut(s) 112, 191
AlwI GGATC 1 cut(s) 1003
AlwNI CAGNNNCTG 1 cut(s) 76
AoxI GGCC 2 cut(s) 337, 531
ApeKI GCWGC 7 cut(s) 392, 395, 425, 473, 476, 707, 1213
ApoI RAATTY 2 cut(s) 500, 1037
Asp700I GAANNNNTTC 1 cut(s) 305
Asp718I GGTACC 1 cut(s) 975
AspS9I GGNCC 5 cut(s) 332, 592, 686, 952, 1208
AsuC2I CCSGG 1 cut(s) 851
AsuHPI GGTGA 4 cut(s) 50, 152, 241, 784
AsuNHI GCTAGC 1 cut(s) 710
AvaII GGWCC 5 cut(s) 332, 592, 686, 952, 1208
BalI TGGCCA 1 cut(s) 339
BanI GGYRCC 1 cut(s) 975
BbrPI CACGTG 1 cut(s) 401
Bbv12I GWGCWC 1 cut(s) 100
BbvI GCAGC 7 cut(s) 379, 382, 437, 460, 463, 719, 1200
BccI CCATC 4 cut(s) 461, 529, 963, 1086
BceAI ACGGC 1 cut(s) 378
BciT130I CCWGG 6 cut(s) 138, 336, 590, 783, 1086, 1125
BclI TGATCA 1 cut(s) 367
BcnI CCSGG 1 cut(s) 851
BcoDI GTCTC 2 cut(s) 112, 191
BfaI CTAG 4 cut(s) 62, 711, 867, 906
BfmI CTRYAG 2 cut(s) 345, 1214
BglII AGATCT 1 cut(s) 1240
BisI GCNGC 7 cut(s) 393, 396, 426, 474, 477, 708, 1214
BlsI GCNGC 7 cut(s) 394, 397, 427, 475, 478, 709, 1215
BmcAI AGTACT 1 cut(s) 516
Bme1390I CCNGG 7 cut(s) 138, 336, 590, 783, 851, 1086, 1125
Bme18I GGWCC 5 cut(s) 332, 592, 686, 952, 1208
BmeRI GACNNNNNGTC 1 cut(s) 867
BmgT120I GGNCC 5 cut(s) 332, 592, 686, 952, 1208
BmiI GGNNCC 2 cut(s) 56, 977
BmrFI CCNGG 7 cut(s) 138, 336, 590, 783, 851, 1086, 1125
BmrI ACTGGG 1 cut(s) 176
BmsI GCATC 7 cut(s) 103, 143, 277, 299, 973, 1128, 1144
BmtI GCTAGC 1 cut(s) 714
BmuI ACTGGG 1 cut(s) 176
BpmI CTGGAG 1 cut(s) 495
BpuEI CTTGAG 1 cut(s) 229
BpuMI CCSGG 1 cut(s) 851
BsaAI YACGTR 1 cut(s) 401
BsaBI GATNNNNATC 1 cut(s) 1158
BsaJI CCNNGG 3 cut(s) 588, 674, 850
BsaWI WCCGGW 1 cut(s) 817
Bsc4I CCNNNNNNNGG 4 cut(s) 76, 361, 589, 872
Bse118I RCCGGY 1 cut(s) 529
Bse1I ACTGG 4 cut(s) 182, 512, 809, 841
Bse3DI GCAATG 2 cut(s) 252, 1185
Bse8I GATNNNNATC 1 cut(s) 1158
BseBI CCWGG 6 cut(s) 138, 336, 590, 783, 1086, 1125
BseDI CCNNGG 3 cut(s) 588, 674, 850
BseGI GGATG 6 cut(s) 290, 453, 749, 955, 1097, 1159
BseJI GATNNNNATC 1 cut(s) 1158
BseLI CCNNNNNNNGG 4 cut(s) 76, 361, 589, 872
BseMI GCAATG 2 cut(s) 252, 1185
BseMII CTCAG 3 cut(s) 431, 939, 1052
BseNI ACTGG 4 cut(s) 182, 512, 809, 841
BseRI GAGGAG 1 cut(s) 108
BseXI GCAGC 7 cut(s) 379, 382, 437, 460, 463, 719, 1200
BseYI CCCAGC 2 cut(s) 1030, 1234
BsgI GTGCAG 3 cut(s) 210, 381, 640
BshFI GGCC 2 cut(s) 339, 533
BshNI GGYRCC 1 cut(s) 975
BsiHKAI GWGCWC 1 cut(s) 100
BsiSI CCGG 3 cut(s) 530, 818, 850
BslFI GGGAC 2 cut(s) 62, 657
BslI CCNNNNNNNGG 4 cut(s) 76, 361, 589, 872
BsmAI GTCTC 2 cut(s) 112, 191
BsmFI GGGAC 2 cut(s) 62, 657
BsmI GAATGC 1 cut(s) 427
BsnI GGCC 2 cut(s) 339, 533
Bsp1286I GDGCHC 1 cut(s) 100
Bsp1407I TGTACA 1 cut(s) 910
Bsp143I GATC 5 cut(s) 142, 367, 609, 995, 1240
BspACI CCGC 3 cut(s) 552, 806, 1211
BspANI GGCC 2 cut(s) 339, 533
BspCNI CTCAG 3 cut(s) 430, 940, 1053
BspLI GGNNCC 2 cut(s) 56, 977
BspMAI CTGCAG 1 cut(s) 1218
BspOI GCTAGC 1 cut(s) 714
BspPI GGATC 1 cut(s) 1003
BspT107I GGYRCC 1 cut(s) 975
BsrDI GCAATG 2 cut(s) 252, 1185
BsrFI RCCGGY 1 cut(s) 529
BsrGI TGTACA 1 cut(s) 910
BsrI ACTGG 4 cut(s) 182, 512, 809, 841
BssAI RCCGGY 1 cut(s) 529
BssECI CCNNGG 3 cut(s) 588, 674, 850
BssMI GATC 5 cut(s) 142, 367, 609, 995, 1240
BssNAI GTATAC 1 cut(s) 779
Bst1107I GTATAC 1 cut(s) 779
Bst2UI CCWGG 6 cut(s) 138, 336, 590, 783, 1086, 1125
Bst4CI ACNGT 6 cut(s) 172, 243, 274, 661, 678, 1145
BstAUI TGTACA 1 cut(s) 910
BstBAI YACGTR 1 cut(s) 401
BstC8I GCNNGC 3 cut(s) 78, 712, 762
BstDEI CTNAG 4 cut(s) 417, 879, 948, 1061
BstDSI CCRYGG 1 cut(s) 674
BstF5I GGATG 6 cut(s) 290, 453, 749, 955, 1097, 1159
BstKTI GATC 5 cut(s) 145, 370, 612, 998, 1243
BstMAI GTCTC 2 cut(s) 112, 191
BstMBI GATC 5 cut(s) 142, 367, 609, 995, 1240
BstMWI GCNNNNNNNGC 2 cut(s) 401, 422
BstNI CCWGG 6 cut(s) 138, 336, 590, 783, 1086, 1125
BstSCI CCNGG 7 cut(s) 136, 334, 588, 781, 849, 1084, 1123
BstSFI CTRYAG 2 cut(s) 345, 1214
BstV1I GCAGC 7 cut(s) 379, 382, 437, 460, 463, 719, 1200
BstX2I RGATCY 1 cut(s) 1240
BstXI CCANNNNNNTGG 2 cut(s) 1092, 1131
BstYI RGATCY 1 cut(s) 1240
BstZ17I GTATAC 1 cut(s) 779
BsuRI GGCC 2 cut(s) 339, 533
BtgI CCRYGG 1 cut(s) 674
BtsCI GGATG 6 cut(s) 290, 453, 749, 955, 1097, 1159
BtsI GCAGTG 1 cut(s) 447
BtsIMutI CAGTG 4 cut(s) 189, 447, 1058, 1141
Cac8I GCNNGC 3 cut(s) 78, 712, 762
CaiI CAGNNNCTG 1 cut(s) 76
Cfr10I RCCGGY 1 cut(s) 529
Cfr13I GGNCC 5 cut(s) 332, 592, 686, 952, 1208
CsiI ACCWGGT 1 cut(s) 781
Csp6I GTAC 3 cut(s) 515, 911, 976
CviAII CATG 2 cut(s) 715, 971
CviQI GTAC 3 cut(s) 515, 911, 976
DdeI CTNAG 4 cut(s) 417, 879, 948, 1061
DpnI GATC 5 cut(s) 144, 369, 611, 997, 1242
DpnII GATC 5 cut(s) 142, 367, 609, 995, 1240
DriI GACNNNNNGTC 1 cut(s) 867
EaeI YGGCCR 1 cut(s) 337
Eam1105I GACNNNNNGTC 1 cut(s) 867
Eco47I GGWCC 5 cut(s) 332, 592, 686, 952, 1208
Eco72I CACGTG 1 cut(s) 401
EcoO109I RGGNCCY 1 cut(s) 332
EcoRII CCWGG 6 cut(s) 136, 334, 588, 781, 1084, 1123
EcoT22I ATGCAT 3 cut(s) 118, 292, 966
FaeI CATG 2 cut(s) 718, 974
FaqI GGGAC 2 cut(s) 62, 657
FatI CATG 2 cut(s) 714, 970
FauI CCCGC 1 cut(s) 813
FbaI TGATCA 1 cut(s) 367
FblI GTMKAC 1 cut(s) 778
Fnu4HI GCNGC 7 cut(s) 393, 396, 426, 474, 477, 708, 1214
FokI GGATG 6 cut(s) 277, 440, 736, 942, 1104, 1166
Fsp4HI GCNGC 7 cut(s) 393, 396, 426, 474, 477, 708, 1214
FspBI CTAG 4 cut(s) 62, 711, 867, 906
GluI GCNGC 7 cut(s) 393, 396, 426, 474, 477, 708, 1214
GsaI CCCAGC 2 cut(s) 1034, 1238
GsuI CTGGAG 1 cut(s) 495
HaeIII GGCC 2 cut(s) 339, 533
HapII CCGG 3 cut(s) 530, 818, 850
Hin1II CATG 2 cut(s) 718, 974
HinfI GANTC 5 cut(s) 177, 188, 213, 318, 485
HpaII CCGG 3 cut(s) 530, 818, 850
HphI GGTGA 4 cut(s) 50, 152, 241, 784
Hpy166II GTNNAC 3 cut(s) 779, 792, 911
Hpy188I TCNGA 4 cut(s) 112, 411, 420, 573
Hpy188III TCNNGA 4 cut(s) 70, 208, 236, 999
Hpy8I GTNNAC 3 cut(s) 779, 792, 911
Hpy99I CGWCG 1 cut(s) 617
HpyAV CCTTC 2 cut(s) 439, 594
HpyCH4III ACNGT 6 cut(s) 172, 243, 274, 661, 678, 1145
HpyCH4IV ACGT 2 cut(s) 400, 843
HpyF10VI GCNNNNNNNGC 2 cut(s) 401, 422
HpyF3I CTNAG 4 cut(s) 417, 879, 948, 1061
HpySE526I ACGT 2 cut(s) 400, 843
Hsp92II CATG 2 cut(s) 718, 974
KpnI GGTACC 1 cut(s) 979
Ksp22I TGATCA 1 cut(s) 367
Kzo9I GATC 5 cut(s) 142, 367, 609, 995, 1240
LmnI GCTCC 3 cut(s) 95, 161, 514
Lsp1109I GCAGC 7 cut(s) 379, 382, 437, 460, 463, 719, 1200
LweI GCATC 7 cut(s) 103, 143, 277, 299, 973, 1128, 1144
MabI ACCWGGT 1 cut(s) 781
MaeI CTAG 4 cut(s) 62, 711, 867, 906
MaeII ACGT 2 cut(s) 400, 843
MaeIII GTNAC 5 cut(s) 4, 525, 839, 940, 1145
MalI GATC 5 cut(s) 144, 369, 611, 997, 1242
MboI GATC 5 cut(s) 142, 367, 609, 995, 1240
MboII GAAGA 2 cut(s) 238, 959
MflI RGATCY 1 cut(s) 1240
MhlI GDGCHC 1 cut(s) 100
MlsI TGGCCA 1 cut(s) 339
MluCI AATT 6 cut(s) 83, 201, 500, 824, 915, 1037
MluNI TGGCCA 1 cut(s) 339
MlyI GAGTC 1 cut(s) 327
MmeI TCCRAC 1 cut(s) 973
MnlI CCTC 7 cut(s) 66, 86, 825, 943, 1055, 1056, 1239
Mox20I TGGCCA 1 cut(s) 339
Mph1103I ATGCAT 3 cut(s) 118, 292, 966
MroXI GAANNNNTTC 1 cut(s) 305
MscI TGGCCA 1 cut(s) 339
MseI TTAA 4 cut(s) 269, 651, 755, 893
MslI CAYNNNNRTG 4 cut(s) 387, 969, 984, 1152
Msp20I TGGCCA 1 cut(s) 339
MspA1I CMGCKG 1 cut(s) 1213
MspI CCGG 3 cut(s) 530, 818, 850
MspR9I CCNGG 7 cut(s) 138, 336, 590, 783, 851, 1086, 1125
Mva1269I GAATGC 1 cut(s) 427
MvaI CCWGG 6 cut(s) 138, 336, 590, 783, 1086, 1125
MwoI GCNNNNNNNGC 2 cut(s) 401, 422
NciI CCSGG 1 cut(s) 851
NdeII GATC 5 cut(s) 142, 367, 609, 995, 1240
NheI GCTAGC 1 cut(s) 710
NlaIII CATG 2 cut(s) 718, 974
NlaIV GGNNCC 2 cut(s) 56, 977
NmuCI GTSAC 2 cut(s) 940, 1145
NsiI ATGCAT 3 cut(s) 118, 292, 966
PctI GAATGC 1 cut(s) 427
PdmI GAANNNNTTC 1 cut(s) 305
PfeI GAWTC 4 cut(s) 177, 188, 213, 485
PflMI CCANNNNNTGG 1 cut(s) 76
PkrI GCNGC 7 cut(s) 394, 397, 427, 475, 478, 709, 1215
PleI GAGTC 1 cut(s) 326
PmaCI CACGTG 1 cut(s) 401
PmlI CACGTG 1 cut(s) 401
PpsI GAGTC 1 cut(s) 326
Ppu21I YACGTR 1 cut(s) 401
PpuMI RGGWCCY 1 cut(s) 332
PsiI TTATAA 1 cut(s) 30
Psp5II RGGWCCY 1 cut(s) 332
Psp6I CCWGG 6 cut(s) 136, 334, 588, 781, 1084, 1123
PspCI CACGTG 1 cut(s) 401
PspFI CCCAGC 2 cut(s) 1030, 1234
PspGI CCWGG 6 cut(s) 136, 334, 588, 781, 1084, 1123
PspN4I GGNNCC 2 cut(s) 56, 977
PspPI GGNCC 5 cut(s) 332, 592, 686, 952, 1208
PspPPI RGGWCCY 1 cut(s) 332
PstI CTGCAG 1 cut(s) 1218
PstNI CAGNNNCTG 1 cut(s) 76
PsuI RGATCY 1 cut(s) 1240
RsaI GTAC 3 cut(s) 516, 912, 977
RsaNI GTAC 3 cut(s) 515, 911, 976
RseI CAYNNNNRTG 4 cut(s) 387, 969, 984, 1152
SaqAI TTAA 4 cut(s) 269, 651, 755, 893
SatI GCNGC 7 cut(s) 393, 396, 426, 474, 477, 708, 1214
Sau3AI GATC 5 cut(s) 142, 367, 609, 995, 1240
Sau96I GGNCC 5 cut(s) 332, 592, 686, 952, 1208
ScaI AGTACT 1 cut(s) 516
SchI GAGTC 1 cut(s) 327
ScrFI CCNGG 7 cut(s) 138, 336, 590, 783, 851, 1086, 1125
SduI GDGCHC 1 cut(s) 100
SexAI ACCWGGT 1 cut(s) 781
SfaNI GCATC 7 cut(s) 103, 143, 277, 299, 973, 1128, 1144
SfcI CTRYAG 2 cut(s) 345, 1214
SinI GGWCC 5 cut(s) 332, 592, 686, 952, 1208
SmiMI CAYNNNNRTG 4 cut(s) 387, 969, 984, 1152
SmlI CTYRAG 1 cut(s) 208
SmoI CTYRAG 1 cut(s) 208
Sse9I AATT 6 cut(s) 83, 201, 500, 824, 915, 1037
SsiI CCGC 3 cut(s) 552, 806, 1211
SspMI CTAG 4 cut(s) 62, 711, 867, 906
StyD4I CCNGG 7 cut(s) 136, 334, 588, 781, 849, 1084, 1123
TaaI ACNGT 6 cut(s) 172, 243, 274, 661, 678, 1145
TaiI ACGT 2 cut(s) 403, 846
TaqI TCGA 3 cut(s) 432, 612, 1105
TasI AATT 6 cut(s) 83, 201, 500, 824, 915, 1037
TatI WGTACW 2 cut(s) 514, 910
TfiI GAWTC 4 cut(s) 177, 188, 213, 485
Tru1I TTAA 4 cut(s) 269, 651, 755, 893
Tru9I TTAA 4 cut(s) 269, 651, 755, 893
TscAI CASTG 4 cut(s) 189, 454, 1065, 1148
TseFI GTSAC 2 cut(s) 940, 1145
TseI GCWGC 7 cut(s) 392, 395, 425, 473, 476, 707, 1213
Tsp45I GTSAC 2 cut(s) 940, 1145
TspDTI ATGAA 3 cut(s) 619, 731, 959
TspRI CASTG 4 cut(s) 189, 454, 1065, 1148
Van91I CCANNNNNTGG 1 cut(s) 76
VpaK11BI GGWCC 5 cut(s) 332, 592, 686, 952, 1208
XapI RAATTY 2 cut(s) 500, 1037
XmiI GTMKAC 1 cut(s) 778
XmnI GAANNNNTTC 1 cut(s) 305
XspI CTAG 4 cut(s) 62, 711, 867, 906
ZrmI AGTACT 1 cut(s) 516
Zsp2I ATGCAT 3 cut(s) 118, 292, 966
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.