Rh6DG274500

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000320
Physical Location & Seq
Reverse (-)
46848297 .. 46849360
1064 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG274500.1

Sequence Viewer

Length: 678 bp
ATGAATTCACTCTACTGTGAAGATTCAGGCTTCTTGAGCTGCATGGAGATACCCGTTGCTACAAGCGTAAATAACATTAGCTGGGTGAACCCGTGGAGCACAGATCTCTTGCAAGCTTACTACAGGAACATAAGTGGGGTTTACTCAACAGATTTTCCAGACCACCCGCCTACTTATTATAACTTTACAGACAAAACTTACTCGAAATATACCGTGTTAACGGTACAAGGGACAAAGGTGAAGGTGTTAAGTTATAATGAGTCGGTTGAGATTGTGTTCCAAGGGACTGATGTGCAAGGAGGCTCTGTGAATCATCCACTGCATATGCACGGATATAAGTTCTATGTCGTTGGATATGGTTTCGGAAATTATGACAATGAGACTGACCCGAAAGGGTTTGATTTGGTTGATCCTCCTCATGTCACTACATTTGGAGTTCCCAAAAATGGATGGCTGGCTATCAGATTCATAGCAAATAATCCTGGTGTTTGGTTTTGGCATTGTCATATGGAAAGACACACGACTTTGGGTATGGAAGCTGCATTCATAGTGAAGAATGGGGACACCGCTGAAACTAGCATACTCGAACCCCCAGCTTACACGCCTTCCTGTAATGTTCCATTGGTTTCTCGTATCGAAAATTCTGATGAGTTTGTTGAAAAGTTAATAGATCAGTAG
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

225

Amino Acids

25.39

Weight (kDa)

4.92

Isoelectric Point (pI)

35.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase_2 PF07731 52 - 187 6.8e-38 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: OG0000320)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g12640 FvH4_2g18980 FvH4_2g18990 FvH4_2g40270 FvH4_2g40270 FvH4_4g22740 FvH4_4g22740 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g35760 FvH4_5g36460 FvH4_5g36460 FvH4_6g39950 FvH4_6g39970 FvH4_6g39983 FvH4_6g39990
rosa_chinensis RchiOBHm_Chr2g0154481 RchiOBHm_Chr2g0154511 RchiOBHm_Chr4g0428961 RchiOBHm_Chr6g0252431 RchiOBHm_Chr6g0273301 RchiOBHm_Chr6g0273631 RchiOBHm_Chr6g0273651 RchiOBHm_Chr6g0284751 RchiOBHm_Chr6g0284761 RchiOBHm_Chr6g0300491 RchiOBHm_Chr7g0237421 RchiOBHm_Chr7g0238581
rosa_laevigata RLG00000000906 RLG00000001006 RLG00000007110 RLG00000011333 RLG00000012721 RLG00000013605 RLG00000013626 RLG00000020780 RLG00000020782 RLG00000020783 RLG00000020786
rosa_multiflora Rmu_co8321753.1_g000001 Rmu_sc0000239.1_g000020 Rmu_sc0000686.1_g000001 Rmu_sc0000686.1_g000003 Rmu_sc0000686.1_g000005 Rmu_sc0001476.1_g000011 Rmu_sc0002231.1_g000002 Rmu_sc0002231.1_g000016 Rmu_sc0002690.1_g000003 Rmu_sc0002717.1_g000015 Rmu_sc0002923.1_g000026 Rmu_sc0003808.1_g000016 Rmu_sc0006475.1_g000008 Rmu_sc0006475.1_g000012 Rmu_sc0006475.1_g000018 Rmu_sc0014815.1_g000004 Rmu_sc0015313.1_g000012
rosa_roxburghii Rroxscaffold_2G00094270 Rroxscaffold_2G00094290 Rroxscaffold_3G00222950 Rroxscaffold_3G00224250 Rroxscaffold_5G00370630 Rroxscaffold_7G00167740 Rroxscaffold_7G00184410 Rroxscaffold_7G00195190 Rroxscaffold_7G00195460
rosa_rugosa Rorug02G0444600 Rorug04G0231100 Rorug04G0231200 Rorug06G0074000 Rorug06G0076800 Rorug06G0166400 Rorug06G0166500 Rorug06G0166600 Rorug06G0296400 Rorug07G0303000
rosa_samantha Rh2CG494600 Rh2CG494700 Rh2DG530800 Rh2DG530900 Rh2DG531000 Rh4AG287500 Rh4AG403800 Rh4BG293400 Rh4BG415100 Rh4DG290500 Rh6AG191000 Rh6AG191300 Rh6BG192500 Rh6BG194800 Rh6BG195200 Rh6BG279500 Rh6BG279600 Rh6DG183900 Rh6DG186600 Rh6DG274300 Rh6DG274500 Rh6DG409500 Rh7AG460600 Rh7AG468200 Rh7BG430200
rosa_wichuraiana Rw2G041820 Rw2G041830 Rw2G041840 Rw4G024930 Rw6G016470 Rw6G016720 Rw6G016730 Rw6G024020 Rw6G024030 Rw6G035790 Rw7G038130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 180, 255
AciI CCGC 2 cut(s) 167, 567
AclWI GGATC 1 cut(s) 404
AcsI RAATTY 2 cut(s) 4, 640
AfaI GTAC 1 cut(s) 225
AfiI CCNNNNNNNGG 1 cut(s) 446
AgsI TTSAA 1 cut(s) 659
AjnI CCWGG 1 cut(s) 481
AluBI AGCT 5 cut(s) 39, 81, 116, 539, 596
AluI AGCT 5 cut(s) 39, 81, 116, 539, 596
Alw21I GWGCWC 1 cut(s) 101
Alw26I GTCTC 1 cut(s) 374
AlwI GGATC 1 cut(s) 404
ApeKI GCWGC 2 cut(s) 39, 539
ApoI RAATTY 2 cut(s) 4, 640
AsuHPI GGTGA 2 cut(s) 97, 250
Bbv12I GWGCWC 1 cut(s) 101
BbvI GCAGC 2 cut(s) 26, 526
BccI CCATC 1 cut(s) 444
BciT130I CCWGG 1 cut(s) 483
BcoDI GTCTC 1 cut(s) 374
BfaI CTAG 1 cut(s) 576
BfmI CTRYAG 1 cut(s) 121
BglII AGATCT 1 cut(s) 103
BisI GCNGC 2 cut(s) 40, 540
BlsI GCNGC 2 cut(s) 41, 541
Bme1390I CCNGG 1 cut(s) 483
BmrFI CCNGG 1 cut(s) 483
BpuEI CTTGAG 1 cut(s) 55
BsaJI CCNNGG 2 cut(s) 92, 280
BsaXI ACNNNNNCTCC 2 cut(s) 291, 321
Bsc4I CCNNNNNNNGG 1 cut(s) 446
BseBI CCWGG 1 cut(s) 483
BseDI CCNNGG 2 cut(s) 92, 280
BseGI GGATG 2 cut(s) 313, 455
BseLI CCNNNNNNNGG 1 cut(s) 446
BseRI GAGGAG 1 cut(s) 405
BseXI GCAGC 2 cut(s) 26, 526
BseYI CCCAGC 2 cut(s) 81, 592
BsiHKAI GWGCWC 1 cut(s) 101
BslFI GGGAC 3 cut(s) 244, 298, 575
BslI CCNNNNNNNGG 1 cut(s) 446
BsmAI GTCTC 1 cut(s) 374
BsmFI GGGAC 3 cut(s) 244, 298, 575
BsmI GAATGC 1 cut(s) 542
Bsp1286I GDGCHC 1 cut(s) 101
Bsp143I GATC 3 cut(s) 103, 409, 670
BspACI CCGC 2 cut(s) 167, 567
BspPI GGATC 1 cut(s) 404
BssECI CCNNGG 2 cut(s) 92, 280
BssMI GATC 3 cut(s) 103, 409, 670
BssT1I CCWWGG 1 cut(s) 280
Bst2UI CCWGG 1 cut(s) 483
Bst4CI ACNGT 3 cut(s) 17, 214, 223
BstC8I GCNNGC 2 cut(s) 114, 456
BstDSI CCRYGG 1 cut(s) 92
BstF5I GGATG 2 cut(s) 313, 455
BstKTI GATC 3 cut(s) 106, 412, 673
BstMAI GTCTC 1 cut(s) 374
BstMBI GATC 3 cut(s) 103, 409, 670
BstMWI GCNNNNNNNGC 1 cut(s) 36
BstNI CCWGG 1 cut(s) 483
BstSCI CCNGG 1 cut(s) 481
BstSFI CTRYAG 1 cut(s) 121
BstV1I GCAGC 2 cut(s) 26, 526
BstX2I RGATCY 1 cut(s) 103
BstYI RGATCY 1 cut(s) 103
BtgI CCRYGG 1 cut(s) 92
BtsCI GGATG 2 cut(s) 313, 455
BtsI GCAGTG 1 cut(s) 317
BtsIMutI CAGTG 1 cut(s) 317
Cac8I GCNNGC 2 cut(s) 114, 456
Csp6I GTAC 1 cut(s) 224
CviAII CATG 2 cut(s) 43, 419
CviJI RGCY 9 cut(s) 30, 39, 81, 116, 303, 454, 458, 539, 596
CviKI_1 RGCY 9 cut(s) 30, 39, 81, 116, 303, 454, 458, 539, 596
CviQI GTAC 1 cut(s) 224
DpnI GATC 3 cut(s) 105, 411, 672
DpnII GATC 3 cut(s) 103, 409, 670
Eco130I CCWWGG 1 cut(s) 280
EcoRI GAATTC 1 cut(s) 4
EcoRII CCWGG 1 cut(s) 481
EcoT14I CCWWGG 1 cut(s) 280
ErhI CCWWGG 1 cut(s) 280
FaeI CATG 2 cut(s) 46, 422
FaqI GGGAC 3 cut(s) 244, 298, 575
FatI CATG 2 cut(s) 42, 418
FauI CCCGC 1 cut(s) 174
FauNDI CATATG 2 cut(s) 324, 507
Fnu4HI GCNGC 2 cut(s) 40, 540
FokI GGATG 2 cut(s) 300, 462
Fsp4HI GCNGC 2 cut(s) 40, 540
FspBI CTAG 1 cut(s) 576
GluI GCNGC 2 cut(s) 40, 540
GsaI CCCAGC 2 cut(s) 85, 596
Hin1II CATG 2 cut(s) 46, 422
HincII GTYRAC 1 cut(s) 219
HindII GTYRAC 1 cut(s) 219
HindIII AAGCTT 1 cut(s) 114
HinfI GANTC 4 cut(s) 23, 260, 310, 465
HpaI GTTAAC 1 cut(s) 219
HphI GGTGA 2 cut(s) 97, 250
Hpy166II GTNNAC 3 cut(s) 88, 142, 219
Hpy188I TCNGA 3 cut(s) 365, 464, 646
Hpy188III TCNNGA 2 cut(s) 34, 158
Hpy8I GTNNAC 3 cut(s) 88, 142, 219
HpyAV CCTTC 2 cut(s) 235, 615
HpyCH4III ACNGT 3 cut(s) 17, 214, 223
HpyCH4V TGCA 6 cut(s) 42, 112, 295, 322, 328, 542
HpyF10VI GCNNNNNNNGC 1 cut(s) 36
Hsp92II CATG 2 cut(s) 46, 422
KspAI GTTAAC 1 cut(s) 219
Kzo9I GATC 3 cut(s) 103, 409, 670
LmnI GCTCC 1 cut(s) 96
LpnPI CCDG 9 cut(s) 12, 67, 109, 171, 440, 468, 495, 606, 622
Lsp1109I GCAGC 2 cut(s) 26, 526
MaeI CTAG 1 cut(s) 576
MaeIII GTNAC 1 cut(s) 421
MalI GATC 3 cut(s) 105, 411, 672
MboI GATC 3 cut(s) 103, 409, 670
MboII GAAGA 2 cut(s) 32, 565
MflI RGATCY 1 cut(s) 103
MhlI GDGCHC 1 cut(s) 101
MluCI AATT 3 cut(s) 4, 367, 640
MlyI GAGTC 1 cut(s) 269
MmeI TCCRAC 1 cut(s) 331
MnlI CCTC 3 cut(s) 293, 423, 426
MseI TTAA 3 cut(s) 218, 248, 665
MspA1I CMGCKG 1 cut(s) 569
MspR9I CCNGG 1 cut(s) 483
Mva1269I GAATGC 1 cut(s) 542
MvaI CCWGG 1 cut(s) 483
MwoI GCNNNNNNNGC 1 cut(s) 36
NdeI CATATG 2 cut(s) 324, 507
NdeII GATC 3 cut(s) 103, 409, 670
NlaIII CATG 2 cut(s) 46, 422
NmuCI GTSAC 1 cut(s) 421
PctI GAATGC 1 cut(s) 542
PfeI GAWTC 3 cut(s) 23, 310, 465
PkrI GCNGC 2 cut(s) 41, 541
PleI GAGTC 1 cut(s) 268
PpsI GAGTC 1 cut(s) 268
PsiI TTATAA 2 cut(s) 180, 255
Psp6I CCWGG 1 cut(s) 481
PspFI CCCAGC 2 cut(s) 81, 592
PspGI CCWGG 1 cut(s) 481
PsuI RGATCY 1 cut(s) 103
RsaI GTAC 1 cut(s) 225
RsaNI GTAC 1 cut(s) 224
SaqAI TTAA 3 cut(s) 218, 248, 665
SatI GCNGC 2 cut(s) 40, 540
Sau3AI GATC 3 cut(s) 103, 409, 670
SchI GAGTC 1 cut(s) 269
ScrFI CCNGG 1 cut(s) 483
SduI GDGCHC 1 cut(s) 101
SetI ASST 7 cut(s) 41, 83, 118, 240, 246, 541, 598
SfcI CTRYAG 1 cut(s) 121
SmlI CTYRAG 1 cut(s) 34
SmoI CTYRAG 1 cut(s) 34
Sse9I AATT 3 cut(s) 4, 367, 640
SsiI CCGC 2 cut(s) 167, 567
SspMI CTAG 1 cut(s) 576
StyD4I CCNGG 1 cut(s) 481
StyI CCWWGG 1 cut(s) 280
TaaI ACNGT 3 cut(s) 17, 214, 223
TaqI TCGA 3 cut(s) 203, 585, 636
TasI AATT 3 cut(s) 4, 367, 640
TfiI GAWTC 3 cut(s) 23, 310, 465
Tru1I TTAA 3 cut(s) 218, 248, 665
Tru9I TTAA 3 cut(s) 218, 248, 665
TscAI CASTG 1 cut(s) 324
TseFI GTSAC 1 cut(s) 421
TseI GCWGC 2 cut(s) 39, 539
Tsp45I GTSAC 1 cut(s) 421
TspDTI ATGAA 3 cut(s) 17, 457, 535
TspGWI ACGGA 1 cut(s) 345
TspRI CASTG 1 cut(s) 324
XapI RAATTY 2 cut(s) 4, 640
XspI CTAG 1 cut(s) 576
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.