Rh6DG274700

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000359
Physical Location & Seq
Reverse (-)
46850029 .. 46850625
597 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG274700.1

Sequence Viewer

Length: 420 bp
ATGCGAAACAGAGAGCATGTTTGTTGTAAACGACATTTTCCCAGGGCCGGGATACGAGTTCATAAAGGGGATACGATCTATGTAAATGTTCATAATCAAGGATATTATGGTCTCACTATTCACTGGCATGGAATAATGCAATCAAGAAATCCATGGTCAGATGGTCCTGAGTATATCACACAGTGTCCAATCCAACCAGGGACTAATTTCACATACGAGGTCTTGTTATCTACGGAAGAAGGAACTGTATGGTGGCATGCTCATGGTGACTGGACGCGAGCCAGCGTTCGTGGCGCCATTGTCATCTTGCCTACTGTTGGAAGCACATATCCATTTCCTCAACCCGATGAAGATGAGGTCATTATATTATCATCCTGGTACTTGGGAGATTTGAAAGCAAGGGTTGATGATAGGCTATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00053 ko01100 map00053 map01100
Pfam Domains
Protein Families
Cu-oxidase Cu-oxidase_2 Cu-oxidase_3

Protein Analysis

139

Amino Acids

16.03

Weight (kDa)

6.43

Isoelectric Point (pI)

29.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase_3 PF07732 4 - 104 4.8e-32 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: OG0000359)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G48100
fragaria_vesca FvH4_1g24380 FvH4_2g05800 FvH4_5g30730
malus_domestica MD01G1234900.v1.1 MD01G1235100.v1.1 MD01G1235200.v1.1 MD07G1307400.v1.1 MD07G1308000.v1.1 MD10G1042300.v1.1 MD10G1042400.v1.1 MD10G1042500.v1.1 MD10G1042700.v1.1
prunus_persica Prupe.2G325200_v2.0.a1 Prupe.6G242000_v2.0.a1 Prupe.8G046800_v2.0.a1 Prupe.8G046900_v2.0.a1 Prupe.8G046900_v2.0.a1 Prupe.8G046900_v2.0.a1
pyrus_communis pycom01g24320 pycom01g24330 pycom07g28020 pycom10g02950 pycom17g03690
rosa_chinensis RchiOBHm_Chr1g0384031 RchiOBHm_Chr2g0120941 RchiOBHm_Chr2g0120971 RchiOBHm_Chr2g0121051 RchiOBHm_Chr2g0121181 RchiOBHm_Chr2g0121211 RchiOBHm_Chr3g0473931 RchiOBHm_Chr3g0473941 RchiOBHm_Chr6g0257941 RchiOBHm_Chr6g0284781
rosa_laevigata RLG00000008541 RLG00000014737 RLG00000018604 RLG00000018607 RLG00000018608 RLG00000018610 RLG00000018611 RLG00000018613 RLG00000023967 RLG00000023970 RLG00000026078 RLG00000035183
rosa_multiflora Rmu_sc0000079.1_g000043 Rmu_sc0000079.1_g000062 Rmu_sc0000079.1_g000069 Rmu_sc0000621.1_g000019 Rmu_sc0000621.1_g000025 Rmu_sc0000621.1_g000041 Rmu_sc0000652.1_g000018 Rmu_sc0002414.1_g000030 Rmu_sc0002414.1_g000033 Rmu_sc0002843.1_g000016 Rmu_sc0005137.1_g000035 Rmu_sc0005139.1_g000021
rosa_roxburghii Rroxscaffold_2G00122530 Rroxscaffold_2G00122570 Rroxscaffold_2G00122580 Rroxscaffold_2G00122650 Rroxscaffold_4G00277080 Rroxscaffold_6G00407610 Rroxscaffold_6G00407620 Rroxscaffold_7G00209050
rosa_rugosa Rorug01G0444300 Rorug02G0232700 Rorug02G0232700 Rorug02G0232900 Rorug03G0137100 Rorug05G0565600 Rorug05G0566500
rosa_samantha Rh1BG427300 Rh1CG440100 Rh2CG278100 Rh2CG278200 Rh2CG278700 Rh2CG278800 Rh2CG279100 Rh2DG314200 Rh2DG314300 Rh2DG314600 Rh3AG187200 Rh3DG211700 Rh3DG211800 Rh5AG356600 Rh6BG078000 Rh6BG078700 Rh6CG073300 Rh6DG070300 Rh6DG190200 Rh6DG274700 Rh7BG365900
rosa_wichuraiana Rw0G018400 Rw1G040270 Rw2G023160 Rw2G023170 Rw2G023190 Rw2G023200 Rw2G023220 Rw2G023230 Rw3G017140 Rw3G017150 Rw4G012840 Rw6G007580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 293
AccII CGCG 1 cut(s) 277
AcyI GRCGYC 1 cut(s) 294
AdeI CACNNNGTG 1 cut(s) 183
AfaI GTAC 1 cut(s) 380
AfiI CCNNNNNNNGG 3 cut(s) 47, 48, 317
AgsI TTSAA 1 cut(s) 394
AjnI CCWGG 3 cut(s) 41, 196, 374
Alw26I GTCTC 1 cut(s) 116
AoxI GGCC 1 cut(s) 45
AspLEI GCGC 1 cut(s) 296
AspS9I GGNCC 2 cut(s) 45, 164
AsuC2I CCSGG 1 cut(s) 49
AsuHPI GGTGA 1 cut(s) 278
AvaII GGWCC 1 cut(s) 164
BanI GGYRCC 1 cut(s) 293
BccI CCATC 1 cut(s) 155
BciT130I CCWGG 3 cut(s) 43, 198, 376
BciVI GTATCC 2 cut(s) 45, 64
BcnI CCSGG 1 cut(s) 49
BcoDI GTCTC 1 cut(s) 116
BfmI CTRYAG 1 cut(s) 416
BfoI RGCGCY 1 cut(s) 297
BfuI GTATCC 2 cut(s) 45, 64
Bme1390I CCNGG 4 cut(s) 43, 49, 198, 376
Bme18I GGWCC 1 cut(s) 164
BmgT120I GGNCC 2 cut(s) 45, 164
BmiI GGNNCC 1 cut(s) 295
BmrFI CCNGG 4 cut(s) 43, 49, 198, 376
BpuMI CCSGG 1 cut(s) 49
BsaHI GRCGYC 1 cut(s) 294
BsaI GGTCTC 1 cut(s) 116
BsaJI CCNNGG 4 cut(s) 41, 42, 152, 197
Bsc4I CCNNNNNNNGG 3 cut(s) 47, 48, 317
Bse1I ACTGG 2 cut(s) 128, 275
BseBI CCWGG 3 cut(s) 43, 198, 376
BseDI CCNNGG 4 cut(s) 41, 42, 152, 197
BseGI GGATG 1 cut(s) 371
BseLI CCNNNNNNNGG 3 cut(s) 47, 48, 317
BseMII CTCAG 1 cut(s) 159
BseNI ACTGG 2 cut(s) 128, 275
Bsh1236I CGCG 1 cut(s) 277
BshFI GGCC 1 cut(s) 47
BshNI GGYRCC 1 cut(s) 293
BsiSI CCGG 1 cut(s) 48
BslFI GGGAC 1 cut(s) 214
BslI CCNNNNNNNGG 3 cut(s) 47, 48, 317
BsmAI GTCTC 1 cut(s) 116
BsmFI GGGAC 1 cut(s) 214
BsnI GGCC 1 cut(s) 47
Bso31I GGTCTC 1 cut(s) 116
Bsp143I GATC 1 cut(s) 75
Bsp19I CCATGG 1 cut(s) 152
BspANI GGCC 1 cut(s) 47
BspCNI CTCAG 1 cut(s) 160
BspFNI CGCG 1 cut(s) 277
BspLI GGNNCC 1 cut(s) 295
BspT107I GGYRCC 1 cut(s) 293
BspTNI GGTCTC 1 cut(s) 116
BsrI ACTGG 2 cut(s) 128, 275
BssECI CCNNGG 4 cut(s) 41, 42, 152, 197
BssMI GATC 1 cut(s) 75
BssNI GRCGYC 1 cut(s) 294
BssT1I CCWWGG 1 cut(s) 152
Bst2UI CCWGG 3 cut(s) 43, 198, 376
Bst4CI ACNGT 3 cut(s) 183, 247, 316
BstACI GRCGYC 1 cut(s) 294
BstC8I GCNNGC 3 cut(s) 258, 279, 283
BstDEI CTNAG 1 cut(s) 168
BstDSI CCRYGG 1 cut(s) 152
BstF5I GGATG 1 cut(s) 371
BstFNI CGCG 1 cut(s) 277
BstH2I RGCGCY 1 cut(s) 297
BstHHI GCGC 1 cut(s) 296
BstKTI GATC 1 cut(s) 78
BstMAI GTCTC 1 cut(s) 116
BstMBI GATC 1 cut(s) 75
BstMWI GCNNNNNNNGC 1 cut(s) 291
BstNI CCWGG 3 cut(s) 43, 198, 376
BstNSI RCATGY 2 cut(s) 20, 260
BstSCI CCNGG 4 cut(s) 41, 47, 196, 374
BstSFI CTRYAG 1 cut(s) 416
BstUI CGCG 1 cut(s) 277
BsuI GTATCC 2 cut(s) 45, 64
BsuRI GGCC 1 cut(s) 47
BtgI CCRYGG 1 cut(s) 152
BtsCI GGATG 1 cut(s) 371
BtsIMutI CAGTG 2 cut(s) 121, 188
Cac8I GCNNGC 3 cut(s) 258, 279, 283
CfoI GCGC 1 cut(s) 296
Cfr13I GGNCC 2 cut(s) 45, 164
CseI GACGC 1 cut(s) 283
Csp6I GTAC 1 cut(s) 379
CviAII CATG 5 cut(s) 17, 128, 153, 257, 263
CviJI RGCY 3 cut(s) 47, 281, 415
CviKI_1 RGCY 3 cut(s) 47, 281, 415
CviQI GTAC 1 cut(s) 379
DdeI CTNAG 1 cut(s) 168
DinI GGCGCC 1 cut(s) 295
DpnI GATC 1 cut(s) 77
DpnII GATC 1 cut(s) 75
DraIII CACNNNGTG 1 cut(s) 183
Eco130I CCWWGG 1 cut(s) 152
Eco31I GGTCTC 1 cut(s) 116
Eco47I GGWCC 1 cut(s) 164
EcoRII CCWGG 3 cut(s) 41, 196, 374
EcoT14I CCWWGG 1 cut(s) 152
EgeI GGCGCC 1 cut(s) 295
EheI GGCGCC 1 cut(s) 295
ErhI CCWWGG 1 cut(s) 152
FaeI CATG 5 cut(s) 20, 131, 156, 260, 266
FaqI GGGAC 1 cut(s) 214
FatI CATG 5 cut(s) 16, 127, 152, 256, 262
FokI GGATG 1 cut(s) 358
GlaI GCGC 1 cut(s) 295
HaeII RGCGCY 1 cut(s) 297
HaeIII GGCC 1 cut(s) 47
HapII CCGG 1 cut(s) 48
HgaI GACGC 1 cut(s) 283
HhaI GCGC 1 cut(s) 296
Hin1I GRCGYC 1 cut(s) 294
Hin1II CATG 5 cut(s) 20, 131, 156, 260, 266
Hin6I GCGC 1 cut(s) 294
HinP1I GCGC 1 cut(s) 294
HpaII CCGG 1 cut(s) 48
HphI GGTGA 1 cut(s) 278
Hpy166II GTNNAC 1 cut(s) 29
Hpy188I TCNGA 1 cut(s) 160
Hpy188III TCNNGA 2 cut(s) 144, 167
Hpy8I GTNNAC 1 cut(s) 29
HpyAV CCTTC 1 cut(s) 233
HpyCH4III ACNGT 3 cut(s) 183, 247, 316
HpyCH4V TGCA 1 cut(s) 139
HpyF10VI GCNNNNNNNGC 1 cut(s) 291
HpyF3I CTNAG 1 cut(s) 168
Hsp92I GRCGYC 1 cut(s) 294
Hsp92II CATG 5 cut(s) 20, 131, 156, 260, 266
HspAI GCGC 1 cut(s) 294
KasI GGCGCC 1 cut(s) 293
Kzo9I GATC 1 cut(s) 75
MaeIII GTNAC 1 cut(s) 266
MalI GATC 1 cut(s) 77
MboI GATC 1 cut(s) 75
MboII GAAGA 2 cut(s) 248, 362
MluCI AATT 1 cut(s) 205
Mly113I GGCGCC 1 cut(s) 294
MmeI TCCRAC 2 cut(s) 217, 298
MnlI CCTC 3 cut(s) 211, 348, 349
MslI CAYNNNNRTG 2 cut(s) 126, 261
MspI CCGG 1 cut(s) 48
MspR9I CCNGG 4 cut(s) 43, 49, 198, 376
MvaI CCWGG 3 cut(s) 43, 198, 376
MvnI CGCG 1 cut(s) 277
MwoI GCNNNNNNNGC 1 cut(s) 291
NarI GGCGCC 1 cut(s) 294
NciI CCSGG 1 cut(s) 49
NcoI CCATGG 1 cut(s) 152
NdeII GATC 1 cut(s) 75
NlaIII CATG 5 cut(s) 20, 131, 156, 260, 266
NlaIV GGNNCC 1 cut(s) 295
NmuCI GTSAC 1 cut(s) 266
NspI RCATGY 2 cut(s) 20, 260
PaeI GCATGC 1 cut(s) 260
PasI CCCWGGG 1 cut(s) 42
PluTI GGCGCC 1 cut(s) 297
Psp6I CCWGG 3 cut(s) 41, 196, 374
PspGI CCWGG 3 cut(s) 41, 196, 374
PspN4I GGNNCC 1 cut(s) 295
PspPI GGNCC 2 cut(s) 45, 164
RsaI GTAC 1 cut(s) 380
RsaNI GTAC 1 cut(s) 379
RseI CAYNNNNRTG 2 cut(s) 126, 261
Sau3AI GATC 1 cut(s) 75
Sau96I GGNCC 2 cut(s) 45, 164
ScrFI CCNGG 4 cut(s) 43, 49, 198, 376
SetI ASST 2 cut(s) 222, 360
SfcI CTRYAG 1 cut(s) 416
SfoI GGCGCC 1 cut(s) 295
SinI GGWCC 1 cut(s) 164
SmiMI CAYNNNNRTG 2 cut(s) 126, 261
SphI GCATGC 1 cut(s) 260
Sse9I AATT 1 cut(s) 205
SspDI GGCGCC 1 cut(s) 293
StyD4I CCNGG 4 cut(s) 41, 47, 196, 374
StyI CCWWGG 1 cut(s) 152
TaaI ACNGT 3 cut(s) 183, 247, 316
TasI AATT 1 cut(s) 205
TscAI CASTG 2 cut(s) 128, 188
TseFI GTSAC 1 cut(s) 266
Tsp45I GTSAC 1 cut(s) 266
TspDTI ATGAA 3 cut(s) 50, 80, 363
TspGWI ACGGA 1 cut(s) 248
TspRI CASTG 2 cut(s) 128, 188
VpaK11BI GGWCC 1 cut(s) 164
XceI RCATGY 2 cut(s) 20, 260
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.