Rroxscaffold_7G00168360

homogentisate phytyltransferase 1, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0017256
Physical Location & Seq
Reverse (-)
9245634 .. 9248307
2674 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00168360.1

Sequence Viewer

Length: 1257 bp
ATGCCCCTCCTTCAAGTAGTAGCGCCGGCGCCAGTGAAGCTAAGACTGTGCAACTTATTAATCAAGGACAAAAGCAACAAGCCATTGCCCTTCCCTTCCCTGCAGCCACATTATCGTTATTATTATTCATCATCTTTAGGTGGCAGCATTGTTACTGCCAATGCAAATCCAAATCTAAATATTCCAAACTGTGATGATCGGCAAATCACAGTAACCAAAAAAAGAAGAGGAGACATTGGTCGTAAAAAACATAACGGGGCACCGTTGTCCTATGCCTCACAATCACGATCAGAGAAGATCGATGTTAATATTGATGGACAATCCCTGAATAGATTTCAGATTGGCGACGGCTTTTCTAAACAATGGGACGCTTTTCATCGCTTTTGTCGTCCTCATACTGTAATCGGCACTGTTATAGGTATATTATCGGTTTCTCTTCTTCCATTGGAACAAATTGGGGACTTGTCTCCTGCATTTTTTATAGGAATACTGAAGGCATTGGTTCCCTCGGTGTTAATGAACATCTATGTGGTGGGATTGAATCAAGTGTTTGATGTCGAAATAGACAAGGTTAACAAACCTGATCTCCCACTAGCTTCTGGTGAATTCTCTATGGGAACTGGGATCACAATCGTTTCCACAGTTTTGCTGATGAGTTTTGCTATGGGAGTTATGTTCAAGTCTCCACCTCTGTTCTCTGCCCTTGCCATTAGCTTTTTCTTGGAAGTGCTTATTCCATTGAGGCATCCGCTGCTCAGGTGGAAGAGACATGCAATTCTTGCTGCTGCTTGCATCCTAATTGTGAGAGCTGTCGTCGTCCAGCTTGCCTTCTTTGTACACATCCAGAAGTATGTGCTTGGTAGAGAAATTTCAATTACAAGACCATTGGTATTTGCAGTGGTTTTCATGTGCATCTTCTCCTCTGTTATTGCGTTGTTCAAGGATATACCTGATGTGGATGGTGATAGAGATTTTGGTATCCAATCTTTCAGTGTCAGCCTTGGGCAAGAAAAGGTGTATTGGGTTTGCGTAAATATGTTGTTACTGGCATATGGGGCAGCAGTGGTGATTGGAGTGTCTTCTTCCTTCCTACCAAGCAAGGTTTTCACAATAATAGGTCATGGCGCACTGGCTTCCCTTCTGTGGCTTCGAGCTCAATCAACAGATATAGCCAATAAAGCCTCCCTAACTTCTTTTTACATGTTCATTTGGAAGCTGTTTTACGCCGAGTATCTGCTTATTCCTTTTGTACGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00130 ko01100 ko01110 map00130 map01100 map01110
Pfam Domains
Protein Families
UbiA

Protein Analysis

418

Amino Acids

46.33

Weight (kDa)

9.53

Isoelectric Point (pI)

49.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UbiA PF01040 152 - 406 3.3e-35 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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Orthologous Genes (Group: OG0017256)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g40790
malus_domestica MD08G1060100.v1.1
prunus_persica Prupe.1G390700_v2.0.a1
pyrus_communis pycom08g05010
rosa_chinensis RchiOBHm_Chr6g0299791
rosa_laevigata RLG00000011387
rosa_roxburghii Rroxscaffold_7G00168360
rosa_rugosa Rorug06G0292300
rosa_samantha Rh6AG403400 Rh6BG411800 Rh6CG417900 Rh6DG404700
rosa_wichuraiana Rw6G035300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 28, 259
AciI CCGC 1 cut(s) 749
AclWI GGATC 1 cut(s) 632
AcsI RAATTY 2 cut(s) 605, 867
AcuI CTGAAG 1 cut(s) 512
AcyI GRCGYC 1 cut(s) 29
AfaI GTAC 2 cut(s) 837, 1251
AfiI CCNNNNNNNGG 1 cut(s) 1143
AflIII ACRYGT 1 cut(s) 1200
AgsI TTSAA 5 cut(s) 14, 541, 679, 873, 940
AluBI AGCT 7 cut(s) 40, 596, 714, 809, 823, 1154, 1216
AluI AGCT 7 cut(s) 40, 596, 714, 809, 823, 1154, 1216
Alw21I GWGCWC 1 cut(s) 1156
Alw26I GTCTC 4 cut(s) 225, 471, 687, 760
AlwI GGATC 1 cut(s) 632
ApeKI GCWGC 6 cut(s) 103, 144, 751, 782, 785, 1058
ApoI RAATTY 2 cut(s) 605, 867
AseI ATTAAT 1 cut(s) 59
AspLEI GCGC 3 cut(s) 25, 31, 1127
AsuHPI GGTGA 3 cut(s) 614, 974, 1078
BaeGI GKGCMC 1 cut(s) 262
BanI GGYRCC 2 cut(s) 28, 259
BanII GRGCYC 1 cut(s) 1156
BarI GAAGNNNNNNTAC 2 cut(s) 1205, 1237
BbsI GAAGAC 1 cut(s) 1071
Bbv12I GWGCWC 1 cut(s) 1156
BbvI GCAGC 6 cut(s) 115, 156, 738, 769, 772, 1070
BccI CCATC 2 cut(s) 308, 953
BceAI ACGGC 1 cut(s) 364
BciVI GTATCC 1 cut(s) 989
BcoDI GTCTC 4 cut(s) 225, 471, 687, 760
BfaI CTAG 1 cut(s) 593
BfmI CTRYAG 1 cut(s) 101
BfoI RGCGCY 2 cut(s) 26, 32
BfuI GTATCC 1 cut(s) 989
BisI GCNGC 6 cut(s) 104, 145, 752, 783, 786, 1059
BlsI GCNGC 6 cut(s) 105, 146, 753, 784, 787, 1060
BmiI GGNNCC 3 cut(s) 30, 261, 504
BmrI ACTGGG 1 cut(s) 630
BmsI GCATC 3 cut(s) 754, 801, 921
BmuI ACTGGG 1 cut(s) 630
BoxI GACNNNNGTC 1 cut(s) 237
BpiI GAAGAC 1 cut(s) 1071
Bpu10I CCTNAGC 1 cut(s) 755
Bsa29I ATCGAT 1 cut(s) 300
BsaBI GATNNNNATC 1 cut(s) 629
BsaHI GRCGYC 1 cut(s) 29
BsaJI CCNNGG 2 cut(s) 507, 1000
BsaXI ACNNNNNCTCC 2 cut(s) 570, 600
Bsc4I CCNNNNNNNGG 1 cut(s) 1143
Bse118I RCCGGY 1 cut(s) 25
Bse1I ACTGG 4 cut(s) 32, 625, 1050, 1134
Bse3DI GCAATG 1 cut(s) 83
Bse8I GATNNNNATC 1 cut(s) 629
BseCI ATCGAT 1 cut(s) 300
BseDI CCNNGG 2 cut(s) 507, 1000
BseGI GGATG 4 cut(s) 745, 792, 840, 964
BseJI GATNNNNATC 1 cut(s) 629
BseLI CCNNNNNNNGG 1 cut(s) 1143
BseMI GCAATG 1 cut(s) 83
BseMII CTCAG 1 cut(s) 769
BseNI ACTGG 4 cut(s) 32, 625, 1050, 1134
BseRI GAGGAG 2 cut(s) 243, 910
BseSI GKGCMC 1 cut(s) 262
BseXI GCAGC 6 cut(s) 115, 156, 738, 769, 772, 1070
BshNI GGYRCC 2 cut(s) 28, 259
BshVI ATCGAT 1 cut(s) 300
BsiHKAI GWGCWC 1 cut(s) 1156
BsiSI CCGG 1 cut(s) 26
BslFI GGGAC 2 cut(s) 380, 473
BslI CCNNNNNNNGG 1 cut(s) 1143
BsmAI GTCTC 4 cut(s) 225, 471, 687, 760
BsmFI GGGAC 2 cut(s) 380, 473
Bsp1286I GDGCHC 2 cut(s) 262, 1156
Bsp1407I TGTACA 1 cut(s) 835
Bsp143I GATC 5 cut(s) 196, 287, 297, 583, 624
BspACI CCGC 1 cut(s) 749
BspCNI CTCAG 1 cut(s) 768
BspDI ATCGAT 1 cut(s) 300
BspLI GGNNCC 3 cut(s) 30, 261, 504
BspMAI CTGCAG 1 cut(s) 105
BspPI GGATC 1 cut(s) 632
BspT107I GGYRCC 2 cut(s) 28, 259
BsrDI GCAATG 1 cut(s) 83
BsrFI RCCGGY 1 cut(s) 25
BsrGI TGTACA 1 cut(s) 835
BsrI ACTGG 4 cut(s) 32, 625, 1050, 1134
BssAI RCCGGY 1 cut(s) 25
BssECI CCNNGG 2 cut(s) 507, 1000
BssMI GATC 5 cut(s) 196, 287, 297, 583, 624
BssNI GRCGYC 1 cut(s) 29
BssT1I CCWWGG 1 cut(s) 1000
Bst4CI ACNGT 7 cut(s) 48, 191, 211, 264, 400, 412, 643
Bst6I CTCTTC 3 cut(s) 220, 441, 758
BstACI GRCGYC 1 cut(s) 29
BstAPI GCANNNNNTGC 2 cut(s) 751, 779
BstAUI TGTACA 1 cut(s) 835
BstC8I GCNNGC 3 cut(s) 27, 790, 825
BstDEI CTNAG 2 cut(s) 41, 755
BstF5I GGATG 4 cut(s) 745, 792, 840, 964
BstH2I RGCGCY 2 cut(s) 26, 32
BstHHI GCGC 3 cut(s) 25, 31, 1127
BstKTI GATC 5 cut(s) 199, 290, 300, 586, 627
BstMAI GTCTC 4 cut(s) 225, 471, 687, 760
BstMBI GATC 5 cut(s) 196, 287, 297, 583, 624
BstMWI GCNNNNNNNGC 5 cut(s) 37, 751, 779, 1055, 1178
BstNSI RCATGY 2 cut(s) 773, 1204
BstPAI GACNNNNGTC 1 cut(s) 237
BstSFI CTRYAG 1 cut(s) 101
BstSLI GKGCMC 1 cut(s) 262
BstV1I GCAGC 6 cut(s) 115, 156, 738, 769, 772, 1070
BstV2I GAAGAC 1 cut(s) 1071
Bsu15I ATCGAT 1 cut(s) 300
BsuI GTATCC 1 cut(s) 989
BsuTUI ATCGAT 1 cut(s) 300
BtgZI GCGATG 1 cut(s) 362
BtsCI GGATG 4 cut(s) 745, 792, 840, 964
BtsI GCAGTG 2 cut(s) 903, 1068
BtsIMutI CAGTG 6 cut(s) 39, 408, 903, 997, 1068, 1127
Cac8I GCNNGC 3 cut(s) 27, 790, 825
CfoI GCGC 3 cut(s) 25, 31, 1127
Cfr10I RCCGGY 1 cut(s) 25
ClaI ATCGAT 1 cut(s) 300
CseI GACGC 1 cut(s) 377
Csp6I GTAC 2 cut(s) 836, 1250
CviAII CATG 4 cut(s) 770, 907, 1121, 1201
CviQI GTAC 2 cut(s) 836, 1250
DdeI CTNAG 2 cut(s) 41, 755
DinI GGCGCC 1 cut(s) 30
DpnI GATC 5 cut(s) 198, 289, 299, 585, 626
DpnII GATC 5 cut(s) 196, 287, 297, 583, 624
Eam1104I CTCTTC 3 cut(s) 220, 441, 758
EarI CTCTTC 3 cut(s) 220, 441, 758
Ecl136II GAGCTC 1 cut(s) 1154
Eco130I CCWWGG 1 cut(s) 1000
Eco24I GRGCYC 1 cut(s) 1156
Eco53kI GAGCTC 1 cut(s) 1154
Eco57I CTGAAG 1 cut(s) 512
EcoICRI GAGCTC 1 cut(s) 1154
EcoRI GAATTC 1 cut(s) 605
EcoT14I CCWWGG 1 cut(s) 1000
EcoT38I GRGCYC 1 cut(s) 1156
EgeI GGCGCC 1 cut(s) 30
EheI GGCGCC 1 cut(s) 30
ErhI CCWWGG 1 cut(s) 1000
FaeI CATG 4 cut(s) 773, 910, 1124, 1204
FaqI GGGAC 2 cut(s) 380, 473
FatI CATG 4 cut(s) 769, 906, 1120, 1200
FauNDI CATATG 1 cut(s) 1051
Fnu4HI GCNGC 6 cut(s) 104, 145, 752, 783, 786, 1059
FokI GGATG 4 cut(s) 732, 779, 827, 971
FriOI GRGCYC 1 cut(s) 1156
Fsp4HI GCNGC 6 cut(s) 104, 145, 752, 783, 786, 1059
FspBI CTAG 1 cut(s) 593
GlaI GCGC 3 cut(s) 24, 30, 1126
GluI GCNGC 6 cut(s) 104, 145, 752, 783, 786, 1059
HaeII RGCGCY 2 cut(s) 26, 32
HapII CCGG 1 cut(s) 26
HgaI GACGC 1 cut(s) 377
HhaI GCGC 3 cut(s) 25, 31, 1127
Hin1I GRCGYC 1 cut(s) 29
Hin1II CATG 4 cut(s) 773, 910, 1124, 1204
Hin6I GCGC 3 cut(s) 23, 29, 1125
HinP1I GCGC 3 cut(s) 23, 29, 1125
HincII GTYRAC 1 cut(s) 574
HindII GTYRAC 1 cut(s) 574
HinfI GANTC 1 cut(s) 541
HpaI GTTAAC 1 cut(s) 574
HpaII CCGG 1 cut(s) 26
HphI GGTGA 3 cut(s) 614, 974, 1078
Hpy166II GTNNAC 2 cut(s) 574, 838
Hpy188I TCNGA 2 cut(s) 292, 339
Hpy188III TCNNGA 2 cut(s) 285, 844
Hpy8I GTNNAC 2 cut(s) 574, 838
Hpy99I CGWCG 2 cut(s) 350, 818
HpyAV CCTTC 7 cut(s) 20, 100, 105, 487, 838, 1096, 1148
HpyCH4III ACNGT 7 cut(s) 48, 191, 211, 264, 400, 412, 643
HpyCH4IV ACGT 1 cut(s) 1252
HpyCH4V TGCA 8 cut(s) 51, 103, 164, 473, 773, 792, 896, 912
HpyF10VI GCNNNNNNNGC 5 cut(s) 37, 751, 779, 1055, 1178
HpyF3I CTNAG 2 cut(s) 41, 755
HpySE526I ACGT 1 cut(s) 1252
Hsp92I GRCGYC 1 cut(s) 29
Hsp92II CATG 4 cut(s) 773, 910, 1124, 1204
HspAI GCGC 3 cut(s) 23, 29, 1125
KasI GGCGCC 1 cut(s) 28
KroI GCCGGC 1 cut(s) 25
KroNI GCCGGC 1 cut(s) 27
KspAI GTTAAC 1 cut(s) 574
Kzo9I GATC 5 cut(s) 196, 287, 297, 583, 624
Lsp1109I GCAGC 6 cut(s) 115, 156, 738, 769, 772, 1070
LweI GCATC 3 cut(s) 754, 801, 921
MaeI CTAG 1 cut(s) 593
MaeII ACGT 1 cut(s) 1252
MaeIII GTNAC 3 cut(s) 151, 211, 1041
MalI GATC 5 cut(s) 198, 289, 299, 585, 626
MboI GATC 5 cut(s) 196, 287, 297, 583, 624
MboII GAAGA 8 cut(s) 237, 307, 428, 431, 775, 907, 1071, 1074
MhlI GDGCHC 2 cut(s) 262, 1156
MluCI AATT 6 cut(s) 453, 605, 774, 798, 867, 873
Mly113I GGCGCC 1 cut(s) 29
MnlI CCTC 9 cut(s) 17, 221, 286, 402, 517, 699, 735, 931, 1192
MreI CGCCGGCG 1 cut(s) 25
MroNI GCCGGC 1 cut(s) 25
MseI TTAA 4 cut(s) 59, 306, 515, 573
MslI CAYNNNNRTG 1 cut(s) 527
MspA1I CMGCKG 1 cut(s) 751
MspI CCGG 1 cut(s) 26
MwoI GCNNNNNNNGC 5 cut(s) 37, 751, 779, 1055, 1178
NaeI GCCGGC 1 cut(s) 27
NarI GGCGCC 1 cut(s) 29
NdeI CATATG 1 cut(s) 1051
NdeII GATC 5 cut(s) 196, 287, 297, 583, 624
NgoMIV GCCGGC 1 cut(s) 25
NlaIII CATG 4 cut(s) 773, 910, 1124, 1204
NlaIV GGNNCC 3 cut(s) 30, 261, 504
NmeAIII GCCGAG 1 cut(s) 1252
NspI RCATGY 2 cut(s) 773, 1204
PciI ACATGT 1 cut(s) 1200
PcsI WCGNNNNNNNCGW 1 cut(s) 385
PdiI GCCGGC 1 cut(s) 27
PfeI GAWTC 1 cut(s) 541
PkrI GCNGC 6 cut(s) 105, 146, 753, 784, 787, 1060
PluTI GGCGCC 1 cut(s) 32
PscI ACATGT 1 cut(s) 1200
PshAI GACNNNNGTC 1 cut(s) 237
PshBI ATTAAT 1 cut(s) 59
Psp124BI GAGCTC 1 cut(s) 1156
PspN4I GGNNCC 3 cut(s) 30, 261, 504
PstI CTGCAG 1 cut(s) 105
RsaI GTAC 2 cut(s) 837, 1251
RsaNI GTAC 2 cut(s) 836, 1250
RseI CAYNNNNRTG 1 cut(s) 527
SacI GAGCTC 1 cut(s) 1156
SaqAI TTAA 4 cut(s) 59, 306, 515, 573
SatI GCNGC 6 cut(s) 104, 145, 752, 783, 786, 1059
Sau3AI GATC 5 cut(s) 196, 287, 297, 583, 624
SduI GDGCHC 2 cut(s) 262, 1156
SfaNI GCATC 3 cut(s) 754, 801, 921
SfcI CTRYAG 1 cut(s) 101
SfoI GGCGCC 1 cut(s) 30
SgrAI CRCCGGYG 1 cut(s) 25
SmiMI CAYNNNNRTG 1 cut(s) 527
Sse9I AATT 6 cut(s) 453, 605, 774, 798, 867, 873
SsiI CCGC 1 cut(s) 749
SspDI GGCGCC 1 cut(s) 28
SspI AATATT 2 cut(s) 181, 310
SspMI CTAG 1 cut(s) 593
SstI GAGCTC 1 cut(s) 1156
StyI CCWWGG 1 cut(s) 1000
TaaI ACNGT 7 cut(s) 48, 191, 211, 264, 400, 412, 643
TaiI ACGT 1 cut(s) 1255
TaqI TCGA 3 cut(s) 300, 558, 1150
TasI AATT 6 cut(s) 453, 605, 774, 798, 867, 873
TatI WGTACW 1 cut(s) 835
TfiI GAWTC 1 cut(s) 541
Tru1I TTAA 4 cut(s) 59, 306, 515, 573
Tru9I TTAA 4 cut(s) 59, 306, 515, 573
TscAI CASTG 6 cut(s) 39, 415, 903, 997, 1068, 1134
TseI GCWGC 6 cut(s) 103, 144, 751, 782, 785, 1058
TspDTI ATGAA 5 cut(s) 117, 365, 533, 895, 1195
TspRI CASTG 6 cut(s) 39, 415, 903, 997, 1068, 1134
VspI ATTAAT 1 cut(s) 59
XapI RAATTY 2 cut(s) 605, 867
XceI RCATGY 2 cut(s) 773, 1204
XspI CTAG 1 cut(s) 593
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.