Rh6DG404700

homogentisate phytyltransferase 1, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0017256
Physical Location & Seq
Forward (+)
59249044 .. 59252069
3026 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG404700.1

Sequence Viewer

Length: 1254 bp
ATGCCCCTCCTTCAAGTAGTAGCGCCGGCGCCAGTGAAGCTAAGACAGTGCAACTTATTAATCAAGAACAAAAGCAACAAGCCATTGCCCTTCCCTTCCCTGCAGCCACATTATCGTTATTATCATTCATCATCTTTAGGTGGCAGCATTGTTACTGCCAATGCAAATCCAAATCTAAATATTCCAAACTGTGATGATCGGCAAATCACAGTAACCAAAAGAAGAGGAGACCATGGTCGTAAAAAACATAACGGGGCACCGTTGTCCTATGCCTCACAATCACGATCAGAGAAGATCGATGTTAATATTGATGGACAATCCCTGAATAGATTTCAGATTGGCGGCCGCTTTTCTAAACAATGGGACGCTTTTCATCGCTTTTGTCGTCCTCATACTGTAATCGGCACTGTTATAGGTATATTATCGGTCTCTCTTCTTCCATTGGAACAAATTGGGGACTTGTCTCCTGCATTTTTTATAGGAATACTGAAGGCATTGGTTCCCTCGGTGTTAATGAACATCTATGTGGTGGGATTGAATCAAGTGTTTGATGTCGAAATAGACAAGGTTAACAAACCTGATCTCCCACTAGCTTCTGGTGAATTCTCTATGGGAACTGGGATCACAATCGTTTCCACAGTTTTGCTGATGAGTTTTGCTATGGGAGTTATGTTCAAGTCTCCACCTCTGTTCTCTGCCCTTGCCATTAGCTTTTTTCTTGGAAGTGCTTATTCCATTGAGCATCCGCTGCTCAGGTGGAAGAGACATGCAATTCTTGCTGCTGCTTGCATCCTAATTGTGAGAGCTGTCGTCGTCCAGCTTGCCTTCTTTGTACACATCCAGAAGTATGTGCTTGGTAGAGAAATTTCAATTACAAGACCATTGGTATTTGCAGTGGTTTTCATGTGCATCTTCTCCTCTGTTATTGCGTTGTTCAAGGATATACCTGATGTGGATGGTGATAGAGATTTTGGTATCCAATCTTTCAGTGTCAGCCTTGGGCAAGAAAAGGTGTATTGGGTTTGTGTAAATATGTTGTTACTGGCATATGGGGCAGCAGTGGTGATTGGAGCCTCTTCTTCCTTCCTACCAAGCAAGGTTTTCACTATAATAGGTCATGGTGCACTGGCTTCCCTTCTGTGGCTTCGAGCTCAATCAACAGATTTAGCCAATAAAGCCTCCCTAACTTCTTTTTACATGTTCATTTGGAAGCTGTTTTACGCCGAGTATCTGCTTATTCCTTTTGTACGTTGA
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

417

Amino Acids

46.11

Weight (kDa)

9.6

Isoelectric Point (pI)

50.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UbiA PF01040 151 - 405 5.8e-38 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, 256
AciI CCGC 3 cut(s) 342, 346, 746
AclWI GGATC 1 cut(s) 629
AcoI YGGCCR 1 cut(s) 343
AcsI RAATTY 2 cut(s) 602, 864
AcuI CTGAAG 1 cut(s) 509
AcyI GRCGYC 1 cut(s) 29
AfaI GTAC 2 cut(s) 834, 1248
AfiI CCNNNNNNNGG 1 cut(s) 1140
AflIII ACRYGT 1 cut(s) 1197
AgsI TTSAA 5 cut(s) 14, 538, 676, 870, 937
AluBI AGCT 7 cut(s) 40, 593, 711, 806, 820, 1151, 1213
AluI AGCT 7 cut(s) 40, 593, 711, 806, 820, 1151, 1213
Alw21I GWGCWC 2 cut(s) 1126, 1153
Alw26I GTCTC 5 cut(s) 222, 433, 468, 684, 757
Alw44I GTGCAC 1 cut(s) 1122
AlwI GGATC 1 cut(s) 629
AoxI GGCC 1 cut(s) 343
ApaLI GTGCAC 1 cut(s) 1122
ApeKI GCWGC 6 cut(s) 103, 144, 748, 779, 782, 1055
ApoI RAATTY 2 cut(s) 602, 864
AseI ATTAAT 1 cut(s) 59
AspLEI GCGC 2 cut(s) 25, 31
AsuHPI GGTGA 3 cut(s) 611, 971, 1075
BaeGI GKGCMC 2 cut(s) 259, 1126
BanI GGYRCC 2 cut(s) 28, 256
BanII GRGCYC 1 cut(s) 1153
BarI GAAGNNNNNNTAC 2 cut(s) 1202, 1234
Bbv12I GWGCWC 2 cut(s) 1126, 1153
BbvI GCAGC 6 cut(s) 115, 156, 735, 766, 769, 1067
BccI CCATC 2 cut(s) 305, 950
BciVI GTATCC 1 cut(s) 986
BcoDI GTCTC 5 cut(s) 222, 433, 468, 684, 757
BfaI CTAG 1 cut(s) 590
BfmI CTRYAG 1 cut(s) 101
BfoI RGCGCY 2 cut(s) 26, 32
BfuI GTATCC 1 cut(s) 986
BisI GCNGC 8 cut(s) 104, 145, 343, 346, 749, 780, 783, 1056
BlsI GCNGC 8 cut(s) 105, 146, 344, 347, 750, 781, 784, 1057
BmiI GGNNCC 4 cut(s) 30, 258, 501, 1072
BmrI ACTGGG 1 cut(s) 627
BmsI GCATC 3 cut(s) 751, 798, 918
BmuI ACTGGG 1 cut(s) 627
BoxI GACNNNNGTC 1 cut(s) 234
Bpu10I CCTNAGC 1 cut(s) 752
Bsa29I ATCGAT 1 cut(s) 297
BsaBI GATNNNNATC 1 cut(s) 626
BsaHI GRCGYC 1 cut(s) 29
BsaI GGTCTC 2 cut(s) 222, 433
BsaJI CCNNGG 3 cut(s) 232, 504, 997
BsaXI ACNNNNNCTCC 2 cut(s) 567, 597
Bsc4I CCNNNNNNNGG 1 cut(s) 1140
Bse118I RCCGGY 1 cut(s) 25
Bse1I ACTGG 4 cut(s) 32, 622, 1047, 1131
Bse3DI GCAATG 1 cut(s) 83
Bse8I GATNNNNATC 1 cut(s) 626
BseCI ATCGAT 1 cut(s) 297
BseDI CCNNGG 3 cut(s) 232, 504, 997
BseGI GGATG 4 cut(s) 742, 789, 837, 961
BseJI GATNNNNATC 1 cut(s) 626
BseLI CCNNNNNNNGG 1 cut(s) 1140
BseMI GCAATG 1 cut(s) 83
BseMII CTCAG 1 cut(s) 766
BseNI ACTGG 4 cut(s) 32, 622, 1047, 1131
BseRI GAGGAG 2 cut(s) 240, 907
BseSI GKGCMC 2 cut(s) 259, 1126
BseX3I CGGCCG 1 cut(s) 343
BseXI GCAGC 6 cut(s) 115, 156, 735, 766, 769, 1067
Bsh1285I CGRYCG 1 cut(s) 346
BshFI GGCC 1 cut(s) 345
BshNI GGYRCC 2 cut(s) 28, 256
BshVI ATCGAT 1 cut(s) 297
BsiEI CGRYCG 1 cut(s) 346
BsiHKAI GWGCWC 2 cut(s) 1126, 1153
BsiSI CCGG 1 cut(s) 26
BslFI GGGAC 2 cut(s) 377, 470
BslI CCNNNNNNNGG 1 cut(s) 1140
BsmAI GTCTC 5 cut(s) 222, 433, 468, 684, 757
BsmFI GGGAC 2 cut(s) 377, 470
BsnI GGCC 1 cut(s) 345
Bso31I GGTCTC 2 cut(s) 222, 433
Bsp1286I GDGCHC 3 cut(s) 259, 1126, 1153
Bsp1407I TGTACA 1 cut(s) 832
Bsp143I GATC 5 cut(s) 196, 284, 294, 580, 621
Bsp19I CCATGG 1 cut(s) 232
BspACI CCGC 3 cut(s) 342, 346, 746
BspANI GGCC 1 cut(s) 345
BspCNI CTCAG 1 cut(s) 765
BspDI ATCGAT 1 cut(s) 297
BspLI GGNNCC 4 cut(s) 30, 258, 501, 1072
BspMAI CTGCAG 1 cut(s) 105
BspPI GGATC 1 cut(s) 629
BspT107I GGYRCC 2 cut(s) 28, 256
BspTNI GGTCTC 2 cut(s) 222, 433
BsrDI GCAATG 1 cut(s) 83
BsrFI RCCGGY 1 cut(s) 25
BsrGI TGTACA 1 cut(s) 832
BsrI ACTGG 4 cut(s) 32, 622, 1047, 1131
BssAI RCCGGY 1 cut(s) 25
BssECI CCNNGG 3 cut(s) 232, 504, 997
BssMI GATC 5 cut(s) 196, 284, 294, 580, 621
BssNI GRCGYC 1 cut(s) 29
BssT1I CCWWGG 2 cut(s) 232, 997
Bst4CI ACNGT 7 cut(s) 48, 191, 211, 261, 397, 409, 640
Bst6I CTCTTC 4 cut(s) 217, 438, 755, 1081
BstACI GRCGYC 1 cut(s) 29
BstAPI GCANNNNNTGC 2 cut(s) 748, 776
BstAUI TGTACA 1 cut(s) 832
BstC8I GCNNGC 3 cut(s) 27, 787, 822
BstDEI CTNAG 2 cut(s) 41, 752
BstDSI CCRYGG 1 cut(s) 232
BstF5I GGATG 4 cut(s) 742, 789, 837, 961
BstH2I RGCGCY 2 cut(s) 26, 32
BstHHI GCGC 2 cut(s) 25, 31
BstKTI GATC 5 cut(s) 199, 287, 297, 583, 624
BstMAI GTCTC 5 cut(s) 222, 433, 468, 684, 757
BstMBI GATC 5 cut(s) 196, 284, 294, 580, 621
BstMCI CGRYCG 1 cut(s) 346
BstMWI GCNNNNNNNGC 5 cut(s) 37, 748, 776, 1052, 1175
BstNSI RCATGY 2 cut(s) 770, 1201
BstPAI GACNNNNGTC 1 cut(s) 234
BstSFI CTRYAG 1 cut(s) 101
BstSLI GKGCMC 2 cut(s) 259, 1126
BstV1I GCAGC 6 cut(s) 115, 156, 735, 766, 769, 1067
BstZI CGGCCG 1 cut(s) 343
Bsu15I ATCGAT 1 cut(s) 297
BsuI GTATCC 1 cut(s) 986
BsuRI GGCC 1 cut(s) 345
BsuTUI ATCGAT 1 cut(s) 297
BtgI CCRYGG 1 cut(s) 232
BtgZI GCGATG 1 cut(s) 359
BtsCI GGATG 4 cut(s) 742, 789, 837, 961
BtsI GCAGTG 2 cut(s) 900, 1065
BtsIMutI CAGTG 7 cut(s) 39, 53, 405, 900, 994, 1065, 1124
Cac8I GCNNGC 3 cut(s) 27, 787, 822
CciNI GCGGCCGC 1 cut(s) 343
CfoI GCGC 2 cut(s) 25, 31
Cfr10I RCCGGY 1 cut(s) 25
ClaI ATCGAT 1 cut(s) 297
CseI GACGC 1 cut(s) 374
Csp6I GTAC 2 cut(s) 833, 1247
CviAII CATG 5 cut(s) 233, 767, 904, 1118, 1198
CviQI GTAC 2 cut(s) 833, 1247
DdeI CTNAG 2 cut(s) 41, 752
DinI GGCGCC 1 cut(s) 30
DpnI GATC 5 cut(s) 198, 286, 296, 582, 623
DpnII GATC 5 cut(s) 196, 284, 294, 580, 621
EaeI YGGCCR 1 cut(s) 343
EagI CGGCCG 1 cut(s) 343
Eam1104I CTCTTC 4 cut(s) 217, 438, 755, 1081
EarI CTCTTC 4 cut(s) 217, 438, 755, 1081
Ecl136II GAGCTC 1 cut(s) 1151
EclXI CGGCCG 1 cut(s) 343
Eco130I CCWWGG 2 cut(s) 232, 997
Eco24I GRGCYC 1 cut(s) 1153
Eco31I GGTCTC 2 cut(s) 222, 433
Eco52I CGGCCG 1 cut(s) 343
Eco53kI GAGCTC 1 cut(s) 1151
Eco57I CTGAAG 1 cut(s) 509
EcoICRI GAGCTC 1 cut(s) 1151
EcoRI GAATTC 1 cut(s) 602
EcoT14I CCWWGG 2 cut(s) 232, 997
EcoT38I GRGCYC 1 cut(s) 1153
EgeI GGCGCC 1 cut(s) 30
EheI GGCGCC 1 cut(s) 30
ErhI CCWWGG 2 cut(s) 232, 997
FaeI CATG 5 cut(s) 236, 770, 907, 1121, 1201
FaqI GGGAC 2 cut(s) 377, 470
FatI CATG 5 cut(s) 232, 766, 903, 1117, 1197
FauNDI CATATG 1 cut(s) 1048
Fnu4HI GCNGC 8 cut(s) 104, 145, 343, 346, 749, 780, 783, 1056
FokI GGATG 4 cut(s) 729, 776, 824, 968
FriOI GRGCYC 1 cut(s) 1153
Fsp4HI GCNGC 8 cut(s) 104, 145, 343, 346, 749, 780, 783, 1056
FspBI CTAG 1 cut(s) 590
GlaI GCGC 2 cut(s) 24, 30
GluI GCNGC 8 cut(s) 104, 145, 343, 346, 749, 780, 783, 1056
HaeII RGCGCY 2 cut(s) 26, 32
HaeIII GGCC 1 cut(s) 345
HapII CCGG 1 cut(s) 26
HgaI GACGC 1 cut(s) 374
HhaI GCGC 2 cut(s) 25, 31
Hin1I GRCGYC 1 cut(s) 29
Hin1II CATG 5 cut(s) 236, 770, 907, 1121, 1201
Hin6I GCGC 2 cut(s) 23, 29
HinP1I GCGC 2 cut(s) 23, 29
HincII GTYRAC 1 cut(s) 571
HindII GTYRAC 1 cut(s) 571
HinfI GANTC 1 cut(s) 538
HpaI GTTAAC 1 cut(s) 571
HpaII CCGG 1 cut(s) 26
HphI GGTGA 3 cut(s) 611, 971, 1075
Hpy166II GTNNAC 3 cut(s) 571, 835, 1124
Hpy188I TCNGA 2 cut(s) 289, 336
Hpy188III TCNNGA 3 cut(s) 64, 282, 841
Hpy8I GTNNAC 3 cut(s) 571, 835, 1124
Hpy99I CGWCG 1 cut(s) 815
HpyAV CCTTC 7 cut(s) 20, 100, 105, 484, 835, 1093, 1145
HpyCH4III ACNGT 7 cut(s) 48, 191, 211, 261, 397, 409, 640
HpyCH4IV ACGT 1 cut(s) 1249
HpyCH4V TGCA 9 cut(s) 51, 103, 164, 470, 770, 789, 893, 909, 1124
HpyF10VI GCNNNNNNNGC 5 cut(s) 37, 748, 776, 1052, 1175
HpyF3I CTNAG 2 cut(s) 41, 752
HpySE526I ACGT 1 cut(s) 1249
Hsp92I GRCGYC 1 cut(s) 29
Hsp92II CATG 5 cut(s) 236, 770, 907, 1121, 1201
HspAI GCGC 2 cut(s) 23, 29
KasI GGCGCC 1 cut(s) 28
KroI GCCGGC 1 cut(s) 25
KroNI GCCGGC 1 cut(s) 27
KspAI GTTAAC 1 cut(s) 571
Kzo9I GATC 5 cut(s) 196, 284, 294, 580, 621
LmnI GCTCC 1 cut(s) 1070
Lsp1109I GCAGC 6 cut(s) 115, 156, 735, 766, 769, 1067
LweI GCATC 3 cut(s) 751, 798, 918
MaeI CTAG 1 cut(s) 590
MaeII ACGT 1 cut(s) 1249
MaeIII GTNAC 3 cut(s) 151, 211, 1038
MalI GATC 5 cut(s) 198, 286, 296, 582, 623
MboI GATC 5 cut(s) 196, 284, 294, 580, 621
MboII GAAGA 8 cut(s) 234, 304, 425, 428, 772, 904, 1068, 1071
MhlI GDGCHC 3 cut(s) 259, 1126, 1153
MluCI AATT 6 cut(s) 450, 602, 771, 795, 864, 870
Mly113I GGCGCC 1 cut(s) 29
MnlI CCTC 9 cut(s) 17, 218, 283, 399, 514, 696, 928, 1084, 1189
MreI CGCCGGCG 1 cut(s) 25
MroNI GCCGGC 1 cut(s) 25
MseI TTAA 4 cut(s) 59, 303, 512, 570
MslI CAYNNNNRTG 1 cut(s) 524
MspA1I CMGCKG 1 cut(s) 748
MspI CCGG 1 cut(s) 26
MwoI GCNNNNNNNGC 5 cut(s) 37, 748, 776, 1052, 1175
NaeI GCCGGC 1 cut(s) 27
NarI GGCGCC 1 cut(s) 29
NcoI CCATGG 1 cut(s) 232
NdeI CATATG 1 cut(s) 1048
NdeII GATC 5 cut(s) 196, 284, 294, 580, 621
NgoMIV GCCGGC 1 cut(s) 25
NlaIII CATG 5 cut(s) 236, 770, 907, 1121, 1201
NlaIV GGNNCC 4 cut(s) 30, 258, 501, 1072
NmeAIII GCCGAG 1 cut(s) 1249
NotI GCGGCCGC 1 cut(s) 343
NspI RCATGY 2 cut(s) 770, 1201
PciI ACATGT 1 cut(s) 1197
PcsI WCGNNNNNNNCGW 1 cut(s) 382
PdiI GCCGGC 1 cut(s) 27
PfeI GAWTC 1 cut(s) 538
PkrI GCNGC 8 cut(s) 105, 146, 344, 347, 750, 781, 784, 1057
PluTI GGCGCC 1 cut(s) 32
PscI ACATGT 1 cut(s) 1197
PshAI GACNNNNGTC 1 cut(s) 234
PshBI ATTAAT 1 cut(s) 59
Psp124BI GAGCTC 1 cut(s) 1153
PspN4I GGNNCC 4 cut(s) 30, 258, 501, 1072
PstI CTGCAG 1 cut(s) 105
RsaI GTAC 2 cut(s) 834, 1248
RsaNI GTAC 2 cut(s) 833, 1247
RseI CAYNNNNRTG 1 cut(s) 524
SacI GAGCTC 1 cut(s) 1153
SaqAI TTAA 4 cut(s) 59, 303, 512, 570
SatI GCNGC 8 cut(s) 104, 145, 343, 346, 749, 780, 783, 1056
Sau3AI GATC 5 cut(s) 196, 284, 294, 580, 621
SduI GDGCHC 3 cut(s) 259, 1126, 1153
SfaNI GCATC 3 cut(s) 751, 798, 918
SfcI CTRYAG 1 cut(s) 101
SfoI GGCGCC 1 cut(s) 30
SgrAI CRCCGGYG 1 cut(s) 25
SmiMI CAYNNNNRTG 1 cut(s) 524
Sse9I AATT 6 cut(s) 450, 602, 771, 795, 864, 870
SsiI CCGC 3 cut(s) 342, 346, 746
SspDI GGCGCC 1 cut(s) 28
SspI AATATT 2 cut(s) 181, 307
SspMI CTAG 1 cut(s) 590
SstI GAGCTC 1 cut(s) 1153
StyI CCWWGG 2 cut(s) 232, 997
TaaI ACNGT 7 cut(s) 48, 191, 211, 261, 397, 409, 640
TaiI ACGT 1 cut(s) 1252
TaqI TCGA 3 cut(s) 297, 555, 1147
TaqII GACCGA 1 cut(s) 415
TasI AATT 6 cut(s) 450, 602, 771, 795, 864, 870
TatI WGTACW 1 cut(s) 832
TauI GCSGC 2 cut(s) 345, 348
TfiI GAWTC 1 cut(s) 538
Tru1I TTAA 4 cut(s) 59, 303, 512, 570
Tru9I TTAA 4 cut(s) 59, 303, 512, 570
TscAI CASTG 7 cut(s) 39, 53, 412, 900, 994, 1065, 1131
TseI GCWGC 6 cut(s) 103, 144, 748, 779, 782, 1055
TspDTI ATGAA 5 cut(s) 117, 362, 530, 892, 1192
TspRI CASTG 7 cut(s) 39, 53, 412, 900, 994, 1065, 1131
VneI GTGCAC 1 cut(s) 1122
VspI ATTAAT 1 cut(s) 59
XapI RAATTY 2 cut(s) 602, 864
XceI RCATGY 2 cut(s) 770, 1201
XspI CTAG 1 cut(s) 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.