Rw3G019350

Homogentisate phytyltransferase 2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0008712
Physical Location & Seq
Forward (+)
21958741 .. 21962835
4095 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G019350.1

Sequence Viewer

Length: 1182 bp
ATGGAGCTCTCACTCGCTCCTTCCCCCTCCTCCTCCTCTCCGCTTCGGATTCGATTCTCTCATTGCACCACCACCAAACCCTCTTCTTTCCCTTCTTCAATTGTCACTACTACTTCCAAATCCCACTCCCTTTCTTCTCTCTCACAATGCACTCACAGCTCCAACTCATTTCGCCTCTACACATGCTCTACATCATCCCTCAACTTCCACAGGAGGCCAAATTCCATCTGGGCCTGCAGTCAAGCTGAAGCTGCTGGGCCTGATCCCGTGCTGGCCAAAGTTTCGGATTTTAAGGATGCTTGTTGGAGATTCCTGAGGCCCCATACCATACGAGGAACAGCTCTTGGGTCAACTGCTTTGGTGACAAGGGCGTTGATTGAGAACTCCCATTTGATAAAGTGGACTCTGCTGTTTAAGGCATTCTCTGGTCTTTTTGCTCTGCTGTGTGGGAATGGCTATATTGTTGGCATCAATCAGATATATGATATCAAAATTGACAAGGTAAACAAACCTTATTTACCCATAGCAGCAGGAGATCTCTCCGTCAAATCAGCATGGCTCTTGGTTATATTCTTTGCAGTTGCTGGCCTGTTGATTGTTGGATTCAATTTTGGGCCATTCATTACTTCTCTTTACAGTCTTGGTCTTTTCCTTGGCACCATCTATTCTGTTCCTCCATTTAGAATGAAGAGATTTCCTGTTGCGGCATTTCTTATAATTGCCACGGTACGGGGTTTCCTTCTTAATTTTGGAGTATATTATGCCACTAGAGCTGCCCTCGGACTTCAATTTGAGTGGAGCGCCCCCGTCGCTTTTATCACTACCTTCGTAACATTGTTTGCTCTGGTGATTGCCATAACGAAAGATCTTCCAGATGTAGAGGGGGACCGCAAGTTTCAGATATCAACCTTTGCAACAAAACTTGGAGTTAGAAAAATTGCCTTCCTTGGTTCTGGGCTACTGCTGGTAAATTATGTCGGTTCTATATTGGCAGCAAGTTTCATGCCAGAGGCATTCAGGCGCAGCTTAATGATACCTACCCATACAATATTGGCATTGGGTTTGATTTTTCAGACCTGGGTGCTCGAGCAAGCAAGTTACACTAAGGAAGCCATTGCCAACTACTATAGGTTCATATGGAATCTCTTTTATGCAGAGTATATCATTTTTCCTTTCATCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00130 map00130
Pfam Domains
Protein Families
UbiA

Protein Analysis

393

Amino Acids

43.5

Weight (kDa)

9.69

Isoelectric Point (pI)

35.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UbiA PF01040 118 - 382 7.7e-37 UbiA prenyltransferase family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 716
AccB1I GGYRCC 1 cut(s) 656
AciI CCGC 3 cut(s) 41, 704, 889
AclWI GGATC 1 cut(s) 257
AcoI YGGCCR 1 cut(s) 273
AcsI RAATTY 1 cut(s) 220
AcuI CTGAAG 1 cut(s) 267
AfaI GTAC 1 cut(s) 729
AfiI CCNNNNNNNGG 1 cut(s) 729
AgsI TTSAA 3 cut(s) 99, 607, 788
AjnI CCWGG 1 cut(s) 1076
AluBI AGCT 7 cut(s) 7, 159, 245, 251, 341, 773, 1026
AluI AGCT 7 cut(s) 7, 159, 245, 251, 341, 773, 1026
Alw21I GWGCWC 2 cut(s) 9, 1086
AlwI GGATC 1 cut(s) 257
AlwNI CAGNNNCTG 1 cut(s) 584
Ama87I CYCGRG 1 cut(s) 1085
AoxI GGCC 7 cut(s) 215, 231, 257, 273, 317, 586, 614
ApeKI GCWGC 5 cut(s) 251, 527, 773, 992, 1023
ApoI RAATTY 1 cut(s) 220
AspLEI GCGC 2 cut(s) 803, 1023
AspS9I GGNCC 5 cut(s) 231, 257, 318, 614, 886
AsuHPI GGTGA 2 cut(s) 373, 859
AvaI CYCGRG 1 cut(s) 1085
AvaII GGWCC 1 cut(s) 886
AxyI CCTNAGG 1 cut(s) 314
BalI TGGCCA 1 cut(s) 275
BanI GGYRCC 1 cut(s) 656
BanII GRGCYC 1 cut(s) 9
Bbv12I GWGCWC 2 cut(s) 9, 1086
BbvI GCAGC 5 cut(s) 238, 539, 760, 1004, 1035
BccI CCATC 2 cut(s) 233, 668
BciT130I CCWGG 1 cut(s) 1078
BfaI CTAG 2 cut(s) 768, 1180
BfmI CTRYAG 2 cut(s) 235, 1126
BfoI RGCGCY 1 cut(s) 804
BglII AGATCT 2 cut(s) 535, 865
BisI GCNGC 6 cut(s) 252, 528, 705, 774, 993, 1024
BlsI GCNGC 6 cut(s) 253, 529, 706, 775, 994, 1025
Bme1390I CCNGG 1 cut(s) 1078
Bme18I GGWCC 1 cut(s) 886
BmeT110I CYCGRG 1 cut(s) 1085
BmgT120I GGNCC 5 cut(s) 231, 257, 318, 614, 886
BmiI GGNNCC 3 cut(s) 320, 658, 887
BmrFI CCNGG 1 cut(s) 1078
BmsI GCATC 2 cut(s) 286, 477
BplI GAGNNNNNCTC 2 cut(s) 762, 794
BsaJI CCNNGG 5 cut(s) 652, 723, 778, 946, 1077
Bsc4I CCNNNNNNNGG 1 cut(s) 729
Bse21I CCTNAGG 1 cut(s) 314
Bse3DI GCAATG 2 cut(s) 61, 1113
BseBI CCWGG 1 cut(s) 1078
BseDI CCNNGG 5 cut(s) 652, 723, 778, 946, 1077
BseGI GGATG 2 cut(s) 194, 301
BseLI CCNNNNNNNGG 1 cut(s) 729
BseMI GCAATG 2 cut(s) 61, 1113
BseMII CTCAG 1 cut(s) 305
BseRI GAGGAG 3 cut(s) 19, 22, 25
BseXI GCAGC 5 cut(s) 238, 539, 760, 1004, 1035
BseYI CCCAGC 1 cut(s) 254
BshFI GGCC 7 cut(s) 217, 233, 259, 275, 319, 588, 616
BshNI GGYRCC 1 cut(s) 656
BsiHKAI GWGCWC 2 cut(s) 9, 1086
BsiHKCI CYCGRG 1 cut(s) 1085
BslFI GGGAC 1 cut(s) 899
BslI CCNNNNNNNGG 1 cut(s) 729
BsmFI GGGAC 1 cut(s) 899
BsmI GAATGC 2 cut(s) 419, 1013
BsnI GGCC 7 cut(s) 217, 233, 259, 275, 319, 588, 616
BsoBI CYCGRG 1 cut(s) 1085
Bsp1286I GDGCHC 2 cut(s) 9, 1086
Bsp143I GATC 3 cut(s) 262, 535, 865
BspACI CCGC 3 cut(s) 41, 704, 889
BspANI GGCC 7 cut(s) 217, 233, 259, 275, 319, 588, 616
BspCNI CTCAG 1 cut(s) 306
BspLI GGNNCC 3 cut(s) 320, 658, 887
BspMAI CTGCAG 1 cut(s) 239
BspPI GGATC 1 cut(s) 257
BspT107I GGYRCC 1 cut(s) 656
BsrDI GCAATG 2 cut(s) 61, 1113
BssECI CCNNGG 5 cut(s) 652, 723, 778, 946, 1077
BssMI GATC 3 cut(s) 262, 535, 865
BssT1I CCWWGG 2 cut(s) 652, 946
Bst2UI CCWGG 1 cut(s) 1078
Bst4CI ACNGT 2 cut(s) 638, 727
Bst6I CTCTTC 2 cut(s) 88, 683
BstC8I GCNNGC 4 cut(s) 235, 273, 586, 1092
BstDEI CTNAG 2 cut(s) 314, 1104
BstDSI CCRYGG 1 cut(s) 723
BstF5I GGATG 2 cut(s) 194, 301
BstH2I RGCGCY 1 cut(s) 804
BstHHI GCGC 2 cut(s) 803, 1023
BstKTI GATC 3 cut(s) 265, 538, 868
BstMBI GATC 3 cut(s) 262, 535, 865
BstMWI GCNNNNNNNGC 4 cut(s) 156, 251, 770, 809
BstNI CCWGG 1 cut(s) 1078
BstNSI RCATGY 1 cut(s) 186
BstSCI CCNGG 1 cut(s) 1076
BstSFI CTRYAG 2 cut(s) 235, 1126
BstV1I GCAGC 5 cut(s) 238, 539, 760, 1004, 1035
BstX2I RGATCY 2 cut(s) 535, 865
BstYI RGATCY 2 cut(s) 535, 865
Bsu36I CCTNAGG 1 cut(s) 314
BsuRI GGCC 7 cut(s) 217, 233, 259, 275, 319, 588, 616
BtgI CCRYGG 1 cut(s) 723
BtsCI GGATG 2 cut(s) 194, 301
Cac8I GCNNGC 4 cut(s) 235, 273, 586, 1092
CaiI CAGNNNCTG 1 cut(s) 584
CfoI GCGC 2 cut(s) 803, 1023
Cfr13I GGNCC 5 cut(s) 231, 257, 318, 614, 886
Csp6I GTAC 1 cut(s) 728
CspCI CAANNNNNGTGG 2 cut(s) 776, 811
CviAII CATG 3 cut(s) 183, 555, 1003
CviQI GTAC 1 cut(s) 728
DdeI CTNAG 2 cut(s) 314, 1104
DpnI GATC 3 cut(s) 264, 537, 867
DpnII GATC 3 cut(s) 262, 535, 865
EaeI YGGCCR 1 cut(s) 273
Eam1104I CTCTTC 2 cut(s) 88, 683
EarI CTCTTC 2 cut(s) 88, 683
Ecl136II GAGCTC 1 cut(s) 7
Eco130I CCWWGG 2 cut(s) 652, 946
Eco24I GRGCYC 1 cut(s) 9
Eco32I GATATC 2 cut(s) 487, 903
Eco47I GGWCC 1 cut(s) 886
Eco53kI GAGCTC 1 cut(s) 7
Eco57I CTGAAG 1 cut(s) 267
Eco81I CCTNAGG 1 cut(s) 314
Eco88I CYCGRG 1 cut(s) 1085
EcoICRI GAGCTC 1 cut(s) 7
EcoO109I RGGNCCY 1 cut(s) 318
EcoRII CCWGG 1 cut(s) 1076
EcoRV GATATC 2 cut(s) 487, 903
EcoT14I CCWWGG 2 cut(s) 652, 946
EcoT38I GRGCYC 1 cut(s) 9
ErhI CCWWGG 2 cut(s) 652, 946
FaeI CATG 3 cut(s) 186, 558, 1006
FaqI GGGAC 1 cut(s) 899
FatI CATG 3 cut(s) 182, 554, 1002
FauNDI CATATG 1 cut(s) 1136
Fnu4HI GCNGC 6 cut(s) 252, 528, 705, 774, 993, 1024
FokI GGATG 2 cut(s) 181, 308
FriOI GRGCYC 1 cut(s) 9
Fsp4HI GCNGC 6 cut(s) 252, 528, 705, 774, 993, 1024
FspBI CTAG 2 cut(s) 768, 1180
GlaI GCGC 2 cut(s) 802, 1022
GluI GCNGC 6 cut(s) 252, 528, 705, 774, 993, 1024
GsaI CCCAGC 1 cut(s) 258
HaeII RGCGCY 1 cut(s) 804
HaeIII GGCC 7 cut(s) 217, 233, 259, 275, 319, 588, 616
HhaI GCGC 2 cut(s) 803, 1023
Hin1II CATG 3 cut(s) 186, 558, 1006
Hin6I GCGC 2 cut(s) 801, 1021
HinP1I GCGC 2 cut(s) 801, 1021
HincII GTYRAC 1 cut(s) 351
HindII GTYRAC 1 cut(s) 351
HinfI GANTC 6 cut(s) 49, 54, 309, 403, 603, 1141
HphI GGTGA 2 cut(s) 373, 859
Hpy166II GTNNAC 3 cut(s) 351, 402, 505
Hpy188I TCNGA 6 cut(s) 48, 286, 477, 782, 900, 1074
Hpy188III TCNNGA 2 cut(s) 313, 872
Hpy8I GTNNAC 3 cut(s) 351, 402, 505
Hpy99I CGWCG 1 cut(s) 812
HpyAV CCTTC 5 cut(s) 30, 102, 749, 835, 952
HpyCH4III ACNGT 2 cut(s) 638, 727
HpyCH4V TGCA 6 cut(s) 66, 150, 237, 578, 914, 1154
HpyF10VI GCNNNNNNNGC 4 cut(s) 156, 251, 770, 809
HpyF3I CTNAG 2 cut(s) 314, 1104
Hsp92II CATG 3 cut(s) 186, 558, 1006
HspAI GCGC 2 cut(s) 801, 1021
Kzo9I GATC 3 cut(s) 262, 535, 865
LmnI GCTCC 4 cut(s) 4, 22, 164, 798
Lsp1109I GCAGC 5 cut(s) 238, 539, 760, 1004, 1035
LweI GCATC 2 cut(s) 286, 477
MaeI CTAG 2 cut(s) 768, 1180
MaeIII GTNAC 4 cut(s) 103, 361, 829, 1097
MalI GATC 3 cut(s) 264, 537, 867
MboI GATC 3 cut(s) 262, 535, 865
MboII GAAGA 5 cut(s) 75, 87, 126, 700, 860
MfeI CAATTG 1 cut(s) 99
MflI RGATCY 2 cut(s) 535, 865
MhlI GDGCHC 2 cut(s) 9, 1086
MlsI TGGCCA 1 cut(s) 275
MluCI AATT 9 cut(s) 99, 220, 492, 607, 717, 745, 788, 936, 970
MluNI TGGCCA 1 cut(s) 275
MlyI GAGTC 1 cut(s) 397
MmeI TCCRAC 3 cut(s) 186, 284, 580
Mox20I TGGCCA 1 cut(s) 275
MscI TGGCCA 1 cut(s) 275
MseI TTAA 4 cut(s) 291, 414, 744, 1028
Msp20I TGGCCA 1 cut(s) 275
MspR9I CCNGG 1 cut(s) 1078
MunI CAATTG 1 cut(s) 99
Mva1269I GAATGC 2 cut(s) 419, 1013
MvaI CCWGG 1 cut(s) 1078
MwoI GCNNNNNNNGC 4 cut(s) 156, 251, 770, 809
NdeI CATATG 1 cut(s) 1136
NdeII GATC 3 cut(s) 262, 535, 865
NlaIII CATG 3 cut(s) 186, 558, 1006
NlaIV GGNNCC 3 cut(s) 320, 658, 887
NmuCI GTSAC 2 cut(s) 103, 361
NspI RCATGY 1 cut(s) 186
PaeR7I CTCGAG 1 cut(s) 1085
PctI GAATGC 2 cut(s) 419, 1013
PfeI GAWTC 5 cut(s) 49, 54, 309, 603, 1141
PkrI GCNGC 6 cut(s) 253, 529, 706, 775, 994, 1025
PleI GAGTC 1 cut(s) 397
PpsI GAGTC 1 cut(s) 397
PsiI TTATAA 1 cut(s) 716
Psp124BI GAGCTC 1 cut(s) 9
Psp6I CCWGG 1 cut(s) 1076
PspFI CCCAGC 1 cut(s) 254
PspGI CCWGG 1 cut(s) 1076
PspN4I GGNNCC 3 cut(s) 320, 658, 887
PspPI GGNCC 5 cut(s) 231, 257, 318, 614, 886
PspXI VCTCGAGB 1 cut(s) 1085
PstI CTGCAG 1 cut(s) 239
PstNI CAGNNNCTG 1 cut(s) 584
PsuI RGATCY 2 cut(s) 535, 865
RsaI GTAC 1 cut(s) 729
RsaNI GTAC 1 cut(s) 728
SacI GAGCTC 1 cut(s) 9
SaqAI TTAA 4 cut(s) 291, 414, 744, 1028
SatI GCNGC 6 cut(s) 252, 528, 705, 774, 993, 1024
Sau3AI GATC 3 cut(s) 262, 535, 865
Sau96I GGNCC 5 cut(s) 231, 257, 318, 614, 886
SchI GAGTC 1 cut(s) 397
ScrFI CCNGG 1 cut(s) 1078
SduI GDGCHC 2 cut(s) 9, 1086
SfaNI GCATC 2 cut(s) 286, 477
SfcI CTRYAG 2 cut(s) 235, 1126
Sfr274I CTCGAG 1 cut(s) 1085
SinI GGWCC 1 cut(s) 886
SlaI CTCGAG 1 cut(s) 1085
SmlI CTYRAG 1 cut(s) 1085
SmoI CTYRAG 1 cut(s) 1085
Sse9I AATT 9 cut(s) 99, 220, 492, 607, 717, 745, 788, 936, 970
SsiI CCGC 3 cut(s) 41, 704, 889
SspI AATATT 1 cut(s) 1050
SspMI CTAG 2 cut(s) 768, 1180
SstI GAGCTC 1 cut(s) 9
StyD4I CCNGG 1 cut(s) 1076
StyI CCWWGG 2 cut(s) 652, 946
TaaI ACNGT 2 cut(s) 638, 727
TaqI TCGA 2 cut(s) 52, 1086
TasI AATT 9 cut(s) 99, 220, 492, 607, 717, 745, 788, 936, 970
TauI GCSGC 1 cut(s) 707
TfiI GAWTC 5 cut(s) 49, 54, 309, 603, 1141
Tru1I TTAA 4 cut(s) 291, 414, 744, 1028
Tru9I TTAA 4 cut(s) 291, 414, 744, 1028
TseFI GTSAC 2 cut(s) 103, 361
TseI GCWGC 5 cut(s) 251, 527, 773, 992, 1023
Tsp45I GTSAC 2 cut(s) 103, 361
TspDTI ATGAA 5 cut(s) 610, 701, 991, 1123, 1165
TspGWI ACGGA 1 cut(s) 532
VpaK11BI GGWCC 1 cut(s) 886
XapI RAATTY 1 cut(s) 220
XceI RCATGY 1 cut(s) 186
XcmI CCANNNNNNNNNTGG 1 cut(s) 225
XhoI CTCGAG 1 cut(s) 1085
XspI CTAG 2 cut(s) 768, 1180
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.