Rh5BG001200

Lignin degradation and detoxification of lignin-derived products

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0022552
Physical Location & Seq
Forward (+)
104256 .. 105015
760 bp
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UTR
Exon/CDS
Intron
Rh5BG001200.1

Sequence Viewer

Length: 567 bp
ATGCTTCAATTTATAGGAGATTGGTGGAATGTAGATCCTGAAGCAGTCATAAACAAGGCACTAAAAATTGGTGGAGGCCCAAATGTCTCAGACGCCTATACCATTAATGGACTGCCAGGACCATTGTATAACTGTTCGGCCAAAGATACTTTCAAGCTGAAGGTTCAAGCTGGGAAAACATACCTTCTTCGCCTAATCAATGCAACACTAAATGACGAGCTCTTCTTCAGCATTGCAAATCATACCCTCAAAGTGGTCGAAACAGACGCCGTTTATGTCAAGCCCTTCGACACCAACACCATTCTCATTGCCCTGGGACAAACCACAAACGTTCTTCTCAAAACCAAACCCAACTTCCCAAATGCTACATTTCTCATGACCGCAAGGCCATATGTGACTGGTCTAGGCACCTTCGACAACTCCACTCTTGCTGGCATTCTAGAGTTCGAAACGACCGCATTTCACTCAAACCTCCCACTGAACAAACTTCCACTCCACAAACCAACTCTGCCAGCTCTAAATGACACACGTTTGCAACAAAGTTCGCCAACAAACTCCGCAGCTTAA

Protein Analysis

188

Amino Acids

20.52

Weight (kDa)

7.83

Isoelectric Point (pI)

23.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Cu-oxidase PF00394 5 - 148 2.6e-40 Multicopper oxidase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0022552)

Species Orthologous Gene IDs
pyrus_communis pycom11g10030
rosa_samantha Rh5BG001200 Rh5DG433300 Rh5DG434200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 407
AciI CCGC 3 cut(s) 381, 456, 558
AclI AACGTT 1 cut(s) 330
AclWI GGATC 1 cut(s) 29
AcoI YGGCCR 1 cut(s) 138
AcuI CTGAAG 3 cut(s) 60, 179, 211
AcyI GRCGYC 2 cut(s) 93, 267
AfiI CCNNNNNNNGG 1 cut(s) 253
AflIII ACRYGT 1 cut(s) 527
AgsI TTSAA 3 cut(s) 8, 154, 167
AjnI CCWGG 2 cut(s) 115, 312
AjuI GAANNNNNNNTTGG 4 cut(s) 134, 166, 338, 370
AluBI AGCT 5 cut(s) 157, 170, 220, 515, 563
AluI AGCT 5 cut(s) 157, 170, 220, 515, 563
Alw21I GWGCWC 1 cut(s) 222
Alw26I GTCTC 1 cut(s) 91
AlwI GGATC 1 cut(s) 29
AoxI GGCC 3 cut(s) 76, 138, 386
ApeKI GCWGC 1 cut(s) 560
AseI ATTAAT 1 cut(s) 105
AspS9I GGNCC 2 cut(s) 77, 119
AsuII TTCGAA 1 cut(s) 447
AvaII GGWCC 1 cut(s) 119
BanI GGYRCC 1 cut(s) 407
BanII GRGCYC 1 cut(s) 222
Bbv12I GWGCWC 1 cut(s) 222
BceAI ACGGC 1 cut(s) 254
BciT130I CCWGG 2 cut(s) 117, 314
BcoDI GTCTC 1 cut(s) 91
BfaI CTAG 2 cut(s) 404, 440
BisI GCNGC 1 cut(s) 561
BlsI GCNGC 1 cut(s) 562
Bme1390I CCNGG 2 cut(s) 117, 314
Bme18I GGWCC 1 cut(s) 119
BmgT120I GGNCC 2 cut(s) 77, 119
BmiI GGNNCC 1 cut(s) 409
BmrFI CCNGG 2 cut(s) 117, 314
Bpu14I TTCGAA 1 cut(s) 447
BsaHI GRCGYC 2 cut(s) 93, 267
BsaJI CCNNGG 2 cut(s) 312, 313
BsaXI ACNNNNNCTCC 2 cut(s) 477, 507
Bsc4I CCNNNNNNNGG 1 cut(s) 253
Bse1I ACTGG 1 cut(s) 403
Bse3DI GCAATG 2 cut(s) 231, 306
BseBI CCWGG 2 cut(s) 117, 314
BseDI CCNNGG 2 cut(s) 312, 313
BseLI CCNNNNNNNGG 1 cut(s) 253
BseMI GCAATG 2 cut(s) 231, 306
BseMII CTCAG 1 cut(s) 102
BseNI ACTGG 1 cut(s) 403
BseYI CCCAGC 1 cut(s) 170
Bsh1285I CGRYCG 1 cut(s) 456
BshFI GGCC 3 cut(s) 78, 140, 388
BshNI GGYRCC 1 cut(s) 407
BsiEI CGRYCG 1 cut(s) 456
BsiHKAI GWGCWC 1 cut(s) 222
BslFI GGGAC 1 cut(s) 330
BslI CCNNNNNNNGG 1 cut(s) 253
BsmAI GTCTC 1 cut(s) 91
BsmFI GGGAC 1 cut(s) 330
BsmI GAATGC 1 cut(s) 435
BsnI GGCC 3 cut(s) 78, 140, 388
Bsp119I TTCGAA 1 cut(s) 447
Bsp1286I GDGCHC 1 cut(s) 222
Bsp143I GATC 1 cut(s) 34
BspACI CCGC 3 cut(s) 381, 456, 558
BspANI GGCC 3 cut(s) 78, 140, 388
BspCNI CTCAG 1 cut(s) 101
BspHI TCATGA 1 cut(s) 375
BspLI GGNNCC 1 cut(s) 409
BspPI GGATC 1 cut(s) 29
BspQI GCTCTTC 1 cut(s) 227
BspT104I TTCGAA 1 cut(s) 447
BspT107I GGYRCC 1 cut(s) 407
BsrDI GCAATG 2 cut(s) 231, 306
BsrI ACTGG 1 cut(s) 403
BssECI CCNNGG 2 cut(s) 312, 313
BssMI GATC 1 cut(s) 34
BssNI GRCGYC 2 cut(s) 93, 267
Bst2UI CCWGG 2 cut(s) 117, 314
Bst4CI ACNGT 1 cut(s) 134
Bst6I CTCTTC 1 cut(s) 227
BstACI GRCGYC 2 cut(s) 93, 267
BstBI TTCGAA 1 cut(s) 447
BstC8I GCNNGC 2 cut(s) 433, 513
BstDEI CTNAG 1 cut(s) 88
BstKTI GATC 1 cut(s) 37
BstMAI GTCTC 1 cut(s) 91
BstMBI GATC 1 cut(s) 34
BstMCI CGRYCG 1 cut(s) 456
BstNI CCWGG 2 cut(s) 117, 314
BstSCI CCNGG 2 cut(s) 115, 312
BstX2I RGATCY 1 cut(s) 34
BstYI RGATCY 1 cut(s) 34
BsuRI GGCC 3 cut(s) 78, 140, 388
BtsIMutI CAGTG 1 cut(s) 476
Cac8I GCNNGC 2 cut(s) 433, 513
CciI TCATGA 1 cut(s) 375
Cfr13I GGNCC 2 cut(s) 77, 119
CseI GACGC 2 cut(s) 101, 275
CviAII CATG 1 cut(s) 376
CviJI RGCY 9 cut(s) 78, 140, 157, 170, 220, 283, 388, 515, 563
CviKI_1 RGCY 9 cut(s) 78, 140, 157, 170, 220, 283, 388, 515, 563
DdeI CTNAG 1 cut(s) 88
DpnI GATC 1 cut(s) 36
DpnII GATC 1 cut(s) 34
EaeI YGGCCR 1 cut(s) 138
Eam1104I CTCTTC 1 cut(s) 227
EarI CTCTTC 1 cut(s) 227
Ecl136II GAGCTC 1 cut(s) 220
Eco24I GRGCYC 1 cut(s) 222
Eco47I GGWCC 1 cut(s) 119
Eco53kI GAGCTC 1 cut(s) 220
Eco57I CTGAAG 3 cut(s) 60, 179, 211
EcoICRI GAGCTC 1 cut(s) 220
EcoRII CCWGG 2 cut(s) 115, 312
EcoT38I GRGCYC 1 cut(s) 222
FaeI CATG 1 cut(s) 379
FaqI GGGAC 1 cut(s) 330
FatI CATG 1 cut(s) 375
FauNDI CATATG 1 cut(s) 391
Fnu4HI GCNGC 1 cut(s) 561
FriOI GRGCYC 1 cut(s) 222
Fsp4HI GCNGC 1 cut(s) 561
FspBI CTAG 2 cut(s) 404, 440
GluI GCNGC 1 cut(s) 561
GsaI CCCAGC 1 cut(s) 174
HaeIII GGCC 3 cut(s) 78, 140, 388
HgaI GACGC 2 cut(s) 101, 275
Hin1I GRCGYC 2 cut(s) 93, 267
Hin1II CATG 1 cut(s) 379
Hpy188I TCNGA 1 cut(s) 91
Hpy188III TCNNGA 3 cut(s) 38, 376, 440
HpyAV CCTTC 4 cut(s) 154, 194, 295, 421
HpyCH4III ACNGT 1 cut(s) 134
HpyCH4IV ACGT 2 cut(s) 330, 529
HpyCH4V TGCA 3 cut(s) 203, 236, 535
HpyF3I CTNAG 1 cut(s) 88
HpySE526I ACGT 2 cut(s) 330, 529
Hsp92I GRCGYC 2 cut(s) 93, 267
Hsp92II CATG 1 cut(s) 379
Kzo9I GATC 1 cut(s) 34
LguI GCTCTTC 1 cut(s) 227
LpnPI CCDG 9 cut(s) 51, 102, 129, 156, 299, 326, 384, 417, 525
MaeI CTAG 2 cut(s) 404, 440
MaeII ACGT 2 cut(s) 330, 529
MaeIII GTNAC 1 cut(s) 394
MalI GATC 1 cut(s) 36
MboI GATC 1 cut(s) 34
MboII GAAGA 4 cut(s) 179, 214, 217, 326
MflI RGATCY 1 cut(s) 34
MhlI GDGCHC 1 cut(s) 222
MluCI AATT 2 cut(s) 8, 66
MnlI CCTC 3 cut(s) 68, 257, 482
MseI TTAA 2 cut(s) 105, 565
MspR9I CCNGG 2 cut(s) 117, 314
Mva1269I GAATGC 1 cut(s) 435
MvaI CCWGG 2 cut(s) 117, 314
NdeI CATATG 1 cut(s) 391
NdeII GATC 1 cut(s) 34
NlaIII CATG 1 cut(s) 379
NlaIV GGNNCC 1 cut(s) 409
NmuCI GTSAC 1 cut(s) 394
NspV TTCGAA 1 cut(s) 447
PagI TCATGA 1 cut(s) 375
PasI CCCWGGG 1 cut(s) 313
PciSI GCTCTTC 1 cut(s) 227
PctI GAATGC 1 cut(s) 435
PkrI GCNGC 1 cut(s) 562
PshBI ATTAAT 1 cut(s) 105
Psp124BI GAGCTC 1 cut(s) 222
Psp1406I AACGTT 1 cut(s) 330
Psp6I CCWGG 2 cut(s) 115, 312
PspFI CCCAGC 1 cut(s) 170
PspGI CCWGG 2 cut(s) 115, 312
PspN4I GGNNCC 1 cut(s) 409
PspPI GGNCC 2 cut(s) 77, 119
PsuI RGATCY 1 cut(s) 34
SacI GAGCTC 1 cut(s) 222
SapI GCTCTTC 1 cut(s) 227
SaqAI TTAA 2 cut(s) 105, 565
SatI GCNGC 1 cut(s) 561
Sau3AI GATC 1 cut(s) 34
Sau96I GGNCC 2 cut(s) 77, 119
ScrFI CCNGG 2 cut(s) 117, 314
SduI GDGCHC 1 cut(s) 222
SfuI TTCGAA 1 cut(s) 447
SinI GGWCC 1 cut(s) 119
Sse9I AATT 2 cut(s) 8, 66
SsiI CCGC 3 cut(s) 381, 456, 558
SspMI CTAG 2 cut(s) 404, 440
SstI GAGCTC 1 cut(s) 222
StyD4I CCNGG 2 cut(s) 115, 312
TaaI ACNGT 1 cut(s) 134
TaiI ACGT 2 cut(s) 333, 532
TaqI TCGA 4 cut(s) 258, 288, 414, 447
TasI AATT 2 cut(s) 8, 66
Tru1I TTAA 2 cut(s) 105, 565
Tru9I TTAA 2 cut(s) 105, 565
TscAI CASTG 1 cut(s) 483
TseFI GTSAC 1 cut(s) 394
TseI GCWGC 1 cut(s) 560
Tsp45I GTSAC 1 cut(s) 394
TspRI CASTG 1 cut(s) 483
VpaK11BI GGWCC 1 cut(s) 119
VspI ATTAAT 1 cut(s) 105
XbaI TCTAGA 1 cut(s) 439
XspI CTAG 2 cut(s) 404, 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.