Rh5AG356600

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000359
Physical Location & Seq
Reverse (-)
59167085 .. 59168563
1479 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG356600.1

Sequence Viewer

Length: 255 bp
ATGGAAGGAACAGGGTTTTTCGCTTTTTGTGCTGTTTTTCTTGTTCTTGATGCTGCAAATGGGAAAACTCATCACCACAAATTTGTGGTAAAATCGTCTTCTTATAGTCGACTATGTAGTAGCAAGGACATCTTGACTGTGAATGGGAGATACCCAGGGCCAACTTTGAAAGCTCACAAAAGGGATGAATTGGTTATTGAAGTCCATAGCAAGGCAAACTATAATATCACTCTTCACTGGCACGGAGACAAGTAA
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

84

Amino Acids

9.43

Weight (kDa)

9.26

Isoelectric Point (pI)

33.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase_3 PF07732 30 - 82 1.1e-12 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)
AccI GTMKAC 1 cut(s) 109
AcsI RAATTY 1 cut(s) 80
AfiI CCNNNNNNNGG 1 cut(s) 211
AgsI TTSAA 2 cut(s) 169, 200
AjnI CCWGG 1 cut(s) 154
AluBI AGCT 1 cut(s) 173
AluI AGCT 1 cut(s) 173
Alw26I GTCTC 1 cut(s) 240
AoxI GGCC 1 cut(s) 158
ApeKI GCWGC 1 cut(s) 53
ApoI RAATTY 1 cut(s) 80
AspS9I GGNCC 1 cut(s) 158
AsuHPI GGTGA 1 cut(s) 65
BbsI GAAGAC 1 cut(s) 90
BbvI GCAGC 1 cut(s) 40
BciT130I CCWGG 1 cut(s) 156
BcoDI GTCTC 1 cut(s) 240
BisI GCNGC 1 cut(s) 54
BlsI GCNGC 1 cut(s) 55
Bme1390I CCNGG 1 cut(s) 156
BmgT120I GGNCC 1 cut(s) 158
BmrFI CCNGG 1 cut(s) 156
BmsI GCATC 1 cut(s) 40
BpiI GAAGAC 1 cut(s) 90
BsaJI CCNNGG 2 cut(s) 154, 155
Bsc4I CCNNNNNNNGG 1 cut(s) 211
Bse1I ACTGG 1 cut(s) 242
BseBI CCWGG 1 cut(s) 156
BseDI CCNNGG 2 cut(s) 154, 155
BseGI GGATG 1 cut(s) 190
BseLI CCNNNNNNNGG 1 cut(s) 211
BseNI ACTGG 1 cut(s) 242
BseXI GCAGC 1 cut(s) 40
BshFI GGCC 1 cut(s) 160
BslI CCNNNNNNNGG 1 cut(s) 211
BsmAI GTCTC 1 cut(s) 240
BsnI GGCC 1 cut(s) 160
BspANI GGCC 1 cut(s) 160
BsrI ACTGG 1 cut(s) 242
BssECI CCNNGG 2 cut(s) 154, 155
Bst2UI CCWGG 1 cut(s) 156
Bst4CI ACNGT 1 cut(s) 139
Bst6I CTCTTC 1 cut(s) 237
BstF5I GGATG 1 cut(s) 190
BstMAI GTCTC 1 cut(s) 240
BstMWI GCNNNNNNNGC 1 cut(s) 29
BstNI CCWGG 1 cut(s) 156
BstSCI CCNGG 1 cut(s) 154
BstV1I GCAGC 1 cut(s) 40
BstV2I GAAGAC 1 cut(s) 90
BsuRI GGCC 1 cut(s) 160
BtsCI GGATG 1 cut(s) 190
BtsIMutI CAGTG 1 cut(s) 235
Cfr13I GGNCC 1 cut(s) 158
CviJI RGCY 2 cut(s) 160, 173
CviKI_1 RGCY 2 cut(s) 160, 173
Eam1104I CTCTTC 1 cut(s) 237
EarI CTCTTC 1 cut(s) 237
EcoRII CCWGG 1 cut(s) 154
FaiI YATR 4 cut(s) 105, 115, 207, 222
FalI AAGNNNNNCTT 2 cut(s) 116, 148
FblI GTMKAC 1 cut(s) 109
Fnu4HI GCNGC 1 cut(s) 54
FokI GGATG 1 cut(s) 197
Fsp4HI GCNGC 1 cut(s) 54
GluI GCNGC 1 cut(s) 54
HaeIII GGCC 1 cut(s) 160
HincII GTYRAC 1 cut(s) 110
HindII GTYRAC 1 cut(s) 110
HphI GGTGA 1 cut(s) 65
Hpy166II GTNNAC 1 cut(s) 110
Hpy188III TCNNGA 2 cut(s) 47, 133
Hpy8I GTNNAC 1 cut(s) 110
HpyCH4III ACNGT 1 cut(s) 139
HpyCH4V TGCA 1 cut(s) 56
HpyF10VI GCNNNNNNNGC 1 cut(s) 29
LpnPI CCDG 3 cut(s) 141, 168, 223
Lsp1109I GCAGC 1 cut(s) 40
LweI GCATC 1 cut(s) 40
MboII GAAGA 2 cut(s) 90, 224
MluCI AATT 2 cut(s) 80, 188
MspR9I CCNGG 1 cut(s) 156
MvaI CCWGG 1 cut(s) 156
MwoI GCNNNNNNNGC 1 cut(s) 29
PasI CCCWGGG 1 cut(s) 155
PkrI GCNGC 1 cut(s) 55
Psp6I CCWGG 1 cut(s) 154
PspGI CCWGG 1 cut(s) 154
PspPI GGNCC 1 cut(s) 158
SalI GTCGAC 1 cut(s) 108
SatI GCNGC 1 cut(s) 54
Sau96I GGNCC 1 cut(s) 158
ScrFI CCNGG 1 cut(s) 156
SetI ASST 1 cut(s) 175
SfaNI GCATC 1 cut(s) 40
SgeI CNNG 9 cut(s) 24, 53, 59, 136, 145, 167, 168, 223, 250
Sse9I AATT 2 cut(s) 80, 188
StyD4I CCNGG 1 cut(s) 154
TaaI ACNGT 1 cut(s) 139
TaqI TCGA 1 cut(s) 109
TasI AATT 2 cut(s) 80, 188
TscAI CASTG 1 cut(s) 242
TseI GCWGC 1 cut(s) 53
TspDTI ATGAA 1 cut(s) 201
TspRI CASTG 1 cut(s) 242
XapI RAATTY 1 cut(s) 80
XmiI GTMKAC 1 cut(s) 109
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.