Rh7DG376600

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7D
OG0017200
Physical Location & Seq
Reverse (-)
51202199 .. 51205621
3423 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7DG376600.1

Sequence Viewer

Length: 1152 bp
ATGTTAAAAGATACACTGTATATAGGTGAGTGGTGGAAGAGAGATGTCATGGAGATACCAAGTACTGCAAATTTAACAGGAGGAGAACCTATACTCTCAGATGCCTATACTATAAATGGAGAACCAGGCTTTCTATATCCATGCTCCAAAAAAGGGACCTTTAATATGCTAGTTGAACATGGAAAAACCTATCTTCTTCGGATCATTTGTGCGGTAATGGACGAAGAGCTATTCTTCGGCATTGCACATCACAAGCTGATTTTAGTCGGAAAAGATGGTTCCTATACAAAACAAGTTGAAACCTCCTACATAATGATAGCCCCTGGCCAATCCATGGACCTGTTACTAGAAGCAAACCAACCTCACGGGCTCTATGTCATGGCTGCAAGAGCATATTCAAGCGCCATCGGAGCTGGTTTCGACAAGACCATGACATCTGCCATTGTTAAATATCATGGTTCAGATGATCACGACCACCAGCCTCGAGGACGTCCTGCTTTCCCACATCTTCCACCCTATAACAGAACACAAGCAGCAACAGACTTTACCGAGCAATTTAGGAGCCTTGCAACCAAAGACCACCCTACCAAAGTCCCATTACAAGTAGACACCCACTTGTTTTTTACCATATCCGTAAACCTACTTAACTGCAGTAATAAACCATGCACTGGTCCCTTTGGGAAAAGATTTTCAGCTAGTGTCAACAACATAAGCTTTGTCATGCCACCGTCGATTGACATCCTTCGAGCTTACTATTATAAAATTCCGGGGGTATTCGAGAAGGATTTTCCAGAAAAACCGCCAAAGGAATTCAATTACACTGGTGATGATCTTCCAGAGAGATTTTTGGCACCTTCCTATGGGACTAAGGTGATGCTTTTGAAGTACAATGCAAGTGTTGAGCTGGTTTTGCAAGGGACCAATGTGTTAGCAAGTGATAACCATCCTGTACATTTACATGGATATAGCTTCTATGTTGTTGGCTCCGGGTTCGGAAATTTCAACCCTAAACAGGATCCTTTGAGATACAATCTTGTTGATCCTCCTGAGGAGAGTACTGTTGGAGTACCTAAAAATGGCTGGGTCGCAATCCGATTCAGAGCAGATAATCCAGGTGATGATCATGACTTTACTGGTATTCTTTTCCGGTAG
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

383

Amino Acids

42.84

Weight (kDa)

6.27

Isoelectric Point (pI)

29.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase PF00394 5 - 154 4.3e-34 Multicopper oxidase
Cu-oxidase_2 PF07731 262 - 372 1e-28 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0017200)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G09360
fragaria_vesca FvH4_5g30720
malus_domestica MD15G1412600.v1.1
prunus_persica Prupe.1G559300_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0225621
rosa_laevigata RLG00000001800
rosa_multiflora Rmu_co8516127.1_g000001
rosa_roxburghii Rroxscaffold_3G00233630
rosa_rugosa Rorug07G0231900
rosa_samantha Rh7AG371900 Rh7BG365800 Rh7DG376600
rosa_wichuraiana Rw7G031780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 759
AatII GACGTC 1 cut(s) 493
AbsI CCTCGAGG 1 cut(s) 483
AccB1I GGYRCC 1 cut(s) 850
AccB7I CCANNNNNTGG 2 cut(s) 334, 668
AccI GTMKAC 1 cut(s) 606
AciI CCGC 2 cut(s) 212, 800
AclWI GGATC 4 cut(s) 209, 1010, 1023, 1034
AcoI YGGCCR 1 cut(s) 325
AcsI RAATTY 4 cut(s) 70, 762, 809, 997
AcyI GRCGYC 1 cut(s) 490
AfaI GTAC 5 cut(s) 64, 887, 951, 1057, 1068
AfiI CCNNNNNNNGG 6 cut(s) 153, 334, 668, 860, 1012, 1076
AgsI TTSAA 6 cut(s) 176, 299, 399, 814, 883, 1003
AjnI CCWGG 3 cut(s) 124, 322, 1111
AluBI AGCT 8 cut(s) 229, 256, 413, 695, 714, 749, 904, 969
AluI AGCT 8 cut(s) 229, 256, 413, 695, 714, 749, 904, 969
AlwI GGATC 4 cut(s) 209, 1010, 1023, 1034
Ama87I CYCGRG 1 cut(s) 483
AoxI GGCC 1 cut(s) 325
ApeKI GCWGC 2 cut(s) 383, 533
ApoI RAATTY 4 cut(s) 70, 762, 809, 997
AspLEI GCGC 1 cut(s) 404
AspS9I GGNCC 4 cut(s) 156, 337, 671, 918
AsuC2I CCSGG 2 cut(s) 768, 988
AsuHPI GGTGA 4 cut(s) 38, 836, 883, 1127
AvaI CYCGRG 1 cut(s) 483
AvaII GGWCC 4 cut(s) 156, 337, 671, 918
AxyI CCTNAGG 1 cut(s) 1047
BalI TGGCCA 1 cut(s) 327
BamHI GGATCC 1 cut(s) 1015
BanI GGYRCC 1 cut(s) 850
BanII GRGCYC 1 cut(s) 372
BbvI GCAGC 2 cut(s) 370, 545
BccI CCATC 3 cut(s) 269, 413, 951
BciT130I CCWGG 3 cut(s) 126, 324, 1113
BclI TGATCA 2 cut(s) 466, 1120
BcnI CCSGG 2 cut(s) 768, 988
BfaI CTAG 3 cut(s) 170, 347, 696
BfmI CTRYAG 1 cut(s) 649
BfoI RGCGCY 1 cut(s) 405
BisI GCNGC 2 cut(s) 384, 534
BlsI GCNGC 2 cut(s) 385, 535
BmcAI AGTACT 2 cut(s) 64, 1057
Bme1390I CCNGG 5 cut(s) 126, 324, 768, 988, 1113
Bme18I GGWCC 4 cut(s) 156, 337, 671, 918
BmeT110I CYCGRG 1 cut(s) 483
BmgT120I GGNCC 4 cut(s) 156, 337, 671, 918
BmiI GGNNCC 8 cut(s) 157, 280, 563, 673, 852, 919, 985, 1017
BmrFI CCNGG 5 cut(s) 126, 324, 768, 988, 1113
BmsI GCATC 2 cut(s) 91, 864
BpuMI CCSGG 2 cut(s) 768, 988
BsaBI GATNNNNATC 2 cut(s) 737, 942
BsaHI GRCGYC 1 cut(s) 490
BsaJI CCNNGG 3 cut(s) 322, 333, 767
BsaWI WCCGGW 1 cut(s) 1146
Bsc4I CCNNNNNNNGG 6 cut(s) 153, 334, 668, 860, 1012, 1076
Bse1I ACTGG 3 cut(s) 673, 826, 1138
Bse21I CCTNAGG 1 cut(s) 1047
Bse3DI GCAATG 1 cut(s) 240
Bse8I GATNNNNATC 2 cut(s) 737, 942
BseBI CCWGG 3 cut(s) 126, 324, 1113
BseDI CCNNGG 3 cut(s) 322, 333, 767
BseGI GGATG 2 cut(s) 738, 943
BseJI GATNNNNATC 2 cut(s) 737, 942
BseLI CCNNNNNNNGG 6 cut(s) 153, 334, 668, 860, 1012, 1076
BseMI GCAATG 1 cut(s) 240
BseMII CTCAG 2 cut(s) 111, 1038
BseNI ACTGG 3 cut(s) 673, 826, 1138
BseRI GAGGAG 2 cut(s) 96, 1064
BseXI GCAGC 2 cut(s) 370, 545
BseYI CCCAGC 1 cut(s) 1080
BshFI GGCC 1 cut(s) 327
BshNI GGYRCC 1 cut(s) 850
BsiHKCI CYCGRG 1 cut(s) 483
BsiSI CCGG 3 cut(s) 767, 987, 1147
BslFI GGGAC 5 cut(s) 169, 578, 657, 877, 931
BslI CCNNNNNNNGG 6 cut(s) 153, 334, 668, 860, 1012, 1076
BsmFI GGGAC 5 cut(s) 169, 578, 657, 877, 931
BsnI GGCC 1 cut(s) 327
BsoBI CYCGRG 1 cut(s) 483
Bsp1286I GDGCHC 1 cut(s) 372
Bsp1407I TGTACA 1 cut(s) 949
Bsp143I GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
Bsp19I CCATGG 1 cut(s) 333
BspACI CCGC 2 cut(s) 212, 800
BspANI GGCC 1 cut(s) 327
BspCNI CTCAG 2 cut(s) 110, 1039
BspHI TCATGA 1 cut(s) 1123
BspLI GGNNCC 8 cut(s) 157, 280, 563, 673, 852, 919, 985, 1017
BspMAI CTGCAG 1 cut(s) 653
BspPI GGATC 4 cut(s) 209, 1010, 1023, 1034
BspQI GCTCTTC 1 cut(s) 219
BspT107I GGYRCC 1 cut(s) 850
BsrDI GCAATG 1 cut(s) 240
BsrGI TGTACA 1 cut(s) 949
BsrI ACTGG 3 cut(s) 673, 826, 1138
BssECI CCNNGG 3 cut(s) 322, 333, 767
BssMI GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
BssNI GRCGYC 1 cut(s) 490
BssT1I CCWWGG 1 cut(s) 333
Bst2UI CCWGG 3 cut(s) 126, 324, 1113
Bst4CI ACNGT 3 cut(s) 18, 729, 1060
Bst6I CTCTTC 2 cut(s) 32, 219
BstACI GRCGYC 1 cut(s) 490
BstAUI TGTACA 1 cut(s) 949
BstDEI CTNAG 3 cut(s) 97, 867, 1047
BstDSI CCRYGG 1 cut(s) 333
BstF5I GGATG 2 cut(s) 738, 943
BstH2I RGCGCY 1 cut(s) 405
BstHHI GCGC 1 cut(s) 404
BstKTI GATC 6 cut(s) 204, 469, 832, 1018, 1042, 1123
BstMBI GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
BstMWI GCNNNNNNNGC 3 cut(s) 389, 410, 910
BstNI CCWGG 3 cut(s) 126, 324, 1113
BstSCI CCNGG 5 cut(s) 124, 322, 766, 986, 1111
BstSFI CTRYAG 1 cut(s) 649
BstV1I GCAGC 2 cut(s) 370, 545
BstX2I RGATCY 1 cut(s) 1015
BstYI RGATCY 1 cut(s) 1015
Bsu36I CCTNAGG 1 cut(s) 1047
BsuRI GGCC 1 cut(s) 327
BtgI CCRYGG 1 cut(s) 333
BtsCI GGATG 2 cut(s) 738, 943
BtsIMutI CAGTG 3 cut(s) 14, 666, 819
CciI TCATGA 1 cut(s) 1123
CfoI GCGC 1 cut(s) 404
Cfr13I GGNCC 4 cut(s) 156, 337, 671, 918
Csp6I GTAC 5 cut(s) 63, 886, 950, 1056, 1067
CviQI GTAC 5 cut(s) 63, 886, 950, 1056, 1067
DdeI CTNAG 3 cut(s) 97, 867, 1047
DpnI GATC 6 cut(s) 203, 468, 831, 1017, 1041, 1122
DpnII GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
EaeI YGGCCR 1 cut(s) 325
Eam1104I CTCTTC 2 cut(s) 32, 219
EarI CTCTTC 2 cut(s) 32, 219
Eco130I CCWWGG 1 cut(s) 333
Eco24I GRGCYC 1 cut(s) 372
Eco47I GGWCC 4 cut(s) 156, 337, 671, 918
Eco81I CCTNAGG 1 cut(s) 1047
Eco88I CYCGRG 1 cut(s) 483
EcoO109I RGGNCCY 1 cut(s) 156
EcoRI GAATTC 1 cut(s) 809
EcoRII CCWGG 3 cut(s) 124, 322, 1111
EcoT14I CCWWGG 1 cut(s) 333
EcoT38I GRGCYC 1 cut(s) 372
ErhI CCWWGG 1 cut(s) 333
FaqI GGGAC 5 cut(s) 169, 578, 657, 877, 931
FbaI TGATCA 2 cut(s) 466, 1120
FblI GTMKAC 1 cut(s) 606
Fnu4HI GCNGC 2 cut(s) 384, 534
FokI GGATG 2 cut(s) 725, 930
FriOI GRGCYC 1 cut(s) 372
Fsp4HI GCNGC 2 cut(s) 384, 534
FspBI CTAG 3 cut(s) 170, 347, 696
GlaI GCGC 1 cut(s) 403
GluI GCNGC 2 cut(s) 384, 534
GsaI CCCAGC 1 cut(s) 1084
HaeII RGCGCY 1 cut(s) 405
HaeIII GGCC 1 cut(s) 327
HapII CCGG 3 cut(s) 767, 987, 1147
HhaI GCGC 1 cut(s) 404
Hin1I GRCGYC 1 cut(s) 490
Hin6I GCGC 1 cut(s) 402
HinP1I GCGC 1 cut(s) 402
HincII GTYRAC 1 cut(s) 703
HindII GTYRAC 1 cut(s) 703
HindIII AAGCTT 1 cut(s) 712
HinfI GANTC 1 cut(s) 1095
HpaII CCGG 3 cut(s) 767, 987, 1147
HphI GGTGA 4 cut(s) 38, 836, 883, 1127
Hpy166II GTNNAC 3 cut(s) 607, 637, 703
Hpy188I TCNGA 8 cut(s) 100, 201, 269, 410, 463, 995, 1094, 1100
Hpy188III TCNNGA 6 cut(s) 470, 778, 791, 836, 1046, 1124
Hpy8I GTNNAC 3 cut(s) 607, 637, 703
Hpy99I CGWCG 1 cut(s) 733
HpyAV CCTTC 3 cut(s) 752, 775, 864
HpyCH4III ACNGT 3 cut(s) 18, 729, 1060
HpyCH4IV ACGT 1 cut(s) 490
HpyCH4V TGCA 8 cut(s) 68, 245, 386, 569, 651, 666, 893, 913
HpyF10VI GCNNNNNNNGC 3 cut(s) 389, 410, 910
HpyF3I CTNAG 3 cut(s) 97, 867, 1047
HpySE526I ACGT 1 cut(s) 490
Hsp92I GRCGYC 1 cut(s) 490
HspAI GCGC 1 cut(s) 402
Ksp22I TGATCA 2 cut(s) 466, 1120
Kzo9I GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
LguI GCTCTTC 1 cut(s) 219
LmnI GCTCC 4 cut(s) 149, 410, 561, 989
Lsp1109I GCAGC 2 cut(s) 370, 545
LweI GCATC 2 cut(s) 91, 864
MaeI CTAG 3 cut(s) 170, 347, 696
MaeII ACGT 1 cut(s) 490
MaeIII GTNAC 1 cut(s) 342
MalI GATC 6 cut(s) 203, 468, 831, 1017, 1041, 1122
MboI GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
MboII GAAGA 7 cut(s) 49, 185, 188, 226, 236, 500, 824
MflI RGATCY 1 cut(s) 1015
MhlI GDGCHC 1 cut(s) 372
MlsI TGGCCA 1 cut(s) 327
MluCI AATT 6 cut(s) 70, 554, 762, 809, 814, 997
MluNI TGGCCA 1 cut(s) 327
MmeI TCCRAC 2 cut(s) 247, 1042
MnlI CCTC 7 cut(s) 74, 313, 372, 479, 492, 1042, 1053
Mox20I TGGCCA 1 cut(s) 327
MscI TGGCCA 1 cut(s) 327
MseI TTAA 5 cut(s) 5, 74, 162, 447, 645
MslI CAYNNNNRTG 1 cut(s) 957
Msp20I TGGCCA 1 cut(s) 327
MspI CCGG 3 cut(s) 767, 987, 1147
MspR9I CCNGG 5 cut(s) 126, 324, 768, 988, 1113
MvaI CCWGG 3 cut(s) 126, 324, 1113
MwoI GCNNNNNNNGC 3 cut(s) 389, 410, 910
NciI CCSGG 2 cut(s) 768, 988
NcoI CCATGG 1 cut(s) 333
NdeII GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
NlaIV GGNNCC 8 cut(s) 157, 280, 563, 673, 852, 919, 985, 1017
PaeR7I CTCGAG 1 cut(s) 483
PagI TCATGA 1 cut(s) 1123
PciSI GCTCTTC 1 cut(s) 219
PfeI GAWTC 1 cut(s) 1095
PflMI CCANNNNNTGG 2 cut(s) 334, 668
PkrI GCNGC 2 cut(s) 385, 535
PpuMI RGGWCCY 1 cut(s) 156
PsiI TTATAA 1 cut(s) 759
Psp5II RGGWCCY 1 cut(s) 156
Psp6I CCWGG 3 cut(s) 124, 322, 1111
PspFI CCCAGC 1 cut(s) 1080
PspGI CCWGG 3 cut(s) 124, 322, 1111
PspN4I GGNNCC 8 cut(s) 157, 280, 563, 673, 852, 919, 985, 1017
PspPI GGNCC 4 cut(s) 156, 337, 671, 918
PspPPI RGGWCCY 1 cut(s) 156
PspXI VCTCGAGB 1 cut(s) 483
PstI CTGCAG 1 cut(s) 653
PsuI RGATCY 1 cut(s) 1015
RsaI GTAC 5 cut(s) 64, 887, 951, 1057, 1068
RsaNI GTAC 5 cut(s) 63, 886, 950, 1056, 1067
RseI CAYNNNNRTG 1 cut(s) 957
SapI GCTCTTC 1 cut(s) 219
SaqAI TTAA 5 cut(s) 5, 74, 162, 447, 645
SatI GCNGC 2 cut(s) 384, 534
Sau3AI GATC 6 cut(s) 201, 466, 829, 1015, 1039, 1120
Sau96I GGNCC 4 cut(s) 156, 337, 671, 918
ScaI AGTACT 2 cut(s) 64, 1057
ScrFI CCNGG 5 cut(s) 126, 324, 768, 988, 1113
SduI GDGCHC 1 cut(s) 372
SfaNI GCATC 2 cut(s) 91, 864
SfcI CTRYAG 1 cut(s) 649
Sfr274I CTCGAG 1 cut(s) 483
SinI GGWCC 4 cut(s) 156, 337, 671, 918
SlaI CTCGAG 1 cut(s) 483
SmiMI CAYNNNNRTG 1 cut(s) 957
SmlI CTYRAG 1 cut(s) 483
SmoI CTYRAG 1 cut(s) 483
Sse9I AATT 6 cut(s) 70, 554, 762, 809, 814, 997
SsiI CCGC 2 cut(s) 212, 800
SspMI CTAG 3 cut(s) 170, 347, 696
StyD4I CCNGG 5 cut(s) 124, 322, 766, 986, 1111
StyI CCWWGG 1 cut(s) 333
TaaI ACNGT 3 cut(s) 18, 729, 1060
TaiI ACGT 1 cut(s) 493
TaqI TCGA 5 cut(s) 420, 484, 731, 745, 777
TasI AATT 6 cut(s) 70, 554, 762, 809, 814, 997
TatI WGTACW 4 cut(s) 62, 885, 949, 1055
TfiI GAWTC 1 cut(s) 1095
Tru1I TTAA 5 cut(s) 5, 74, 162, 447, 645
Tru9I TTAA 5 cut(s) 5, 74, 162, 447, 645
TscAI CASTG 3 cut(s) 21, 673, 826
TseI GCWGC 2 cut(s) 383, 533
TspGWI ACGGA 1 cut(s) 622
TspRI CASTG 3 cut(s) 21, 673, 826
Van91I CCANNNNNTGG 2 cut(s) 334, 668
VpaK11BI GGWCC 4 cut(s) 156, 337, 671, 918
XapI RAATTY 4 cut(s) 70, 762, 809, 997
XhoI CTCGAG 1 cut(s) 483
XmiI GTMKAC 1 cut(s) 606
XspI CTAG 3 cut(s) 170, 347, 696
ZraI GACGTC 1 cut(s) 491
ZrmI AGTACT 2 cut(s) 64, 1057
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.