MD08G1060100.v1.1

homogentisate phytyltransferase 1, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0017256
Physical Location & Seq
Forward (+)
4781994 .. 4784322
2329 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1060100.v1.1.491

Sequence Viewer

Length: 1158 bp
ATGCCAGTTCAAGTGGCAGTACTGAAGCTAACACATTGCAACTTAACCAAGAACAAGAAGCCATTCCCGCGATGTTGTTCCGGATCAACGATATTATCTGTTCCCACAAATGCAAATCCAAATTGTGATCAGAAGAAGATCACAGTCGCCACCAGAAACCGTGGTAAAAGATTCAAGAAATGGTATTGCCTACCTATTTCTTTTCAAAATGGCTACGCATCAGCAAAACCAGAAAGTGGTGATGAATTTCTGACTCGCTTTCAAGCTGGCCTTAGTAAACAATGGGATGCCTTTCGTCGATTTTGTCGTCCTCACACTGTAATTGGCACTGTTATAGGAATATCGTCGGTCTCTCTTCTTCCATTAGAAAATGTTACTGACCTGTCCACTGCATTTTTTGTAGGACTGTTGAAGGTAAAAAATTCAATATATGTATACATATATATATTTATATGTTACATTTTTTCCCCAAATGATCATATCTTTCTGCAGGCATTGGTGCCCTCAATACTAATGAACATTTATGTGGTGGGATTGAATCAATTGTACGACGTCGAAATAGACAAGGTTAACAAACCCGAACTCCCGCTTGCTTCGGGTGAATTCTCCATGGGGGCTGGGATCACAATTGTTTCCACAGTTCTGCTGATGAGTTTTGCAATGGGATTTATGTTCAAGTCTCCGCCGCTGTTTTCTGCGCTTGTGATTAGTTTTCTTCTCGGAACGGCTTATTCCGTTGAGCTTCCCTTGCTTAGGTGGAAGAGGCATGCATTTCTTGCAGCTACTTGCATCCTAATCGTGAGGGCTATCGTTGTCCAGCTTGCTTTCTACGTGCACATCCAGAAATATGTCCTCGGTAGACCAGTTATACTTACAAGATCACTGGCGTTTGCGGTGTTTTTCATGTGCATCTTCTCCTCCGTCATTGCTCTATTCAAGGATATACCAGATGTGGATGGTGATAGAGATTTTGGCATTCAATCATTCAGTGTTAGCCTTGGGCAAGAGAAGATAATAGGGCACAGTGCACTCGCTTCCCTTCTGTGGATTCGAGCTCGGTCCGTCGACATAGCCAATAAAGCGTCACTCACTTCGTTTTACATGTTCATCTGGAAGCTGTTTTATGCCGAGTACTTCCTCATTCCCTTCGTACGCTGA
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

386

Amino Acids

43.27

Weight (kDa)

9.52

Isoelectric Point (pI)

39.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UbiA PF01040 156 - 355 6.5e-30 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)
AatII GACGTC 1 cut(s) 555
AccB1I GGYRCC 1 cut(s) 499
AccB7I CCANNNNNTGG 1 cut(s) 236
AccI GTMKAC 3 cut(s) 435, 859, 1065
AccII CGCG 1 cut(s) 70
AccIII TCCGGA 1 cut(s) 80
AciI CCGC 5 cut(s) 68, 587, 683, 686, 893
AclWI GGATC 2 cut(s) 91, 629
AcsI RAATTY 3 cut(s) 245, 421, 602
AcuI CTGAAG 1 cut(s) 44
AcyI GRCGYC 1 cut(s) 552
AfaI GTAC 4 cut(s) 21, 548, 1133, 1152
AfiI CCNNNNNNNGG 3 cut(s) 236, 753, 1044
AflIII ACRYGT 1 cut(s) 1101
AluBI AGCT 7 cut(s) 28, 266, 742, 782, 820, 1055, 1117
AluI AGCT 7 cut(s) 28, 266, 742, 782, 820, 1055, 1117
Alw21I GWGCWC 3 cut(s) 837, 1030, 1057
Alw26I GTCTC 2 cut(s) 355, 684
Alw44I GTGCAC 2 cut(s) 833, 1026
AlwI GGATC 2 cut(s) 91, 629
Aor13HI TCCGGA 1 cut(s) 80
AoxI GGCC 1 cut(s) 268
ApaLI GTGCAC 2 cut(s) 833, 1026
ApeKI GCWGC 1 cut(s) 779
ApoI RAATTY 3 cut(s) 245, 421, 602
Asp700I GAANNNNTTC 1 cut(s) 62
AspLEI GCGC 1 cut(s) 700
AspS9I GGNCC 1 cut(s) 1059
AsuHPI GGTGA 3 cut(s) 251, 611, 971
AvaII GGWCC 1 cut(s) 1059
BaeGI GKGCMC 4 cut(s) 504, 837, 1023, 1030
BanI GGYRCC 1 cut(s) 499
BanII GRGCYC 1 cut(s) 1057
Bbv12I GWGCWC 3 cut(s) 837, 1030, 1057
BbvI GCAGC 1 cut(s) 791
BccI CCATC 1 cut(s) 950
BceAI ACGGC 1 cut(s) 741
BcgI CGANNNNNNTGC 2 cut(s) 778, 812
BclI TGATCA 2 cut(s) 127, 475
BcoDI GTCTC 2 cut(s) 355, 684
BfmI CTRYAG 1 cut(s) 488
BisI GCNGC 2 cut(s) 686, 780
BlsI GCNGC 2 cut(s) 687, 781
BmcAI AGTACT 2 cut(s) 21, 1133
Bme18I GGWCC 1 cut(s) 1059
BmgT120I GGNCC 1 cut(s) 1059
BmiI GGNNCC 1 cut(s) 501
BmsI GCATC 4 cut(s) 227, 277, 798, 918
Bpu10I CCTNAGC 1 cut(s) 752
BsaAI YACGTR 1 cut(s) 832
BsaHI GRCGYC 1 cut(s) 552
BsaI GGTCTC 1 cut(s) 355
BsaJI CCNNGG 4 cut(s) 160, 609, 853, 997
BsaWI WCCGGW 1 cut(s) 80
BsaXI ACNNNNNCTCC 2 cut(s) 567, 597
Bsc4I CCNNNNNNNGG 3 cut(s) 236, 753, 1044
Bse1I ACTGG 3 cut(s) 5, 863, 888
Bse3DI GCAATG 3 cut(s) 34, 666, 924
BseAI TCCGGA 1 cut(s) 80
BseDI CCNNGG 4 cut(s) 160, 609, 853, 997
BseGI GGATG 4 cut(s) 292, 789, 837, 961
BseLI CCNNNNNNNGG 3 cut(s) 236, 753, 1044
BseMI GCAATG 3 cut(s) 34, 666, 924
BseNI ACTGG 3 cut(s) 5, 863, 888
BseRI GAGGAG 1 cut(s) 907
BseSI GKGCMC 4 cut(s) 504, 837, 1023, 1030
BseXI GCAGC 1 cut(s) 791
BseYI CCCAGC 1 cut(s) 617
Bsh1236I CGCG 1 cut(s) 70
BshFI GGCC 1 cut(s) 270
BshNI GGYRCC 1 cut(s) 499
BsiHKAI GWGCWC 3 cut(s) 837, 1030, 1057
BsiSI CCGG 1 cut(s) 81
BsiWI CGTACG 1 cut(s) 1150
BslI CCNNNNNNNGG 3 cut(s) 236, 753, 1044
BsmAI GTCTC 2 cut(s) 355, 684
BsmI GAATGC 1 cut(s) 975
BsnI GGCC 1 cut(s) 270
Bso31I GGTCTC 1 cut(s) 355
Bsp1286I GDGCHC 5 cut(s) 504, 837, 1023, 1030, 1057
Bsp13I TCCGGA 1 cut(s) 80
Bsp143I GATC 6 cut(s) 83, 127, 138, 475, 621, 878
Bsp19I CCATGG 1 cut(s) 609
BspACI CCGC 5 cut(s) 68, 587, 683, 686, 893
BspANI GGCC 1 cut(s) 270
BspEI TCCGGA 1 cut(s) 80
BspFNI CGCG 1 cut(s) 70
BspLI GGNNCC 1 cut(s) 501
BspMAI CTGCAG 1 cut(s) 492
BspPI GGATC 2 cut(s) 91, 629
BspT107I GGYRCC 1 cut(s) 499
BspTNI GGTCTC 1 cut(s) 355
BsrDI GCAATG 3 cut(s) 34, 666, 924
BsrI ACTGG 3 cut(s) 5, 863, 888
BssECI CCNNGG 4 cut(s) 160, 609, 853, 997
BssMI GATC 6 cut(s) 83, 127, 138, 475, 621, 878
BssNAI GTATAC 1 cut(s) 436
BssNI GRCGYC 1 cut(s) 552
BssT1I CCWWGG 2 cut(s) 609, 997
Bst1107I GTATAC 1 cut(s) 436
Bst4CI ACNGT 7 cut(s) 145, 161, 319, 331, 408, 640, 1025
Bst6I CTCTTC 2 cut(s) 360, 755
BstACI GRCGYC 1 cut(s) 552
BstAPI GCANNNNNTGC 1 cut(s) 776
BstBAI YACGTR 1 cut(s) 832
BstC8I GCNNGC 5 cut(s) 268, 492, 591, 768, 822
BstDEI CTNAG 2 cut(s) 272, 752
BstDSI CCRYGG 2 cut(s) 160, 609
BstENI CCTNNNNNAGG 1 cut(s) 751
BstF5I GGATG 4 cut(s) 292, 789, 837, 961
BstFNI CGCG 1 cut(s) 70
BstHHI GCGC 1 cut(s) 700
BstKTI GATC 6 cut(s) 86, 130, 141, 478, 624, 881
BstMAI GTCTC 2 cut(s) 355, 684
BstMBI GATC 6 cut(s) 83, 127, 138, 475, 621, 878
BstMWI GCNNNNNNNGC 4 cut(s) 67, 748, 776, 1079
BstNSI RCATGY 2 cut(s) 770, 1105
BstSFI CTRYAG 1 cut(s) 488
BstSLI GKGCMC 4 cut(s) 504, 837, 1023, 1030
BstUI CGCG 1 cut(s) 70
BstV1I GCAGC 1 cut(s) 791
BstZ17I GTATAC 1 cut(s) 436
BsuRI GGCC 1 cut(s) 270
BtgI CCRYGG 2 cut(s) 160, 609
BtgZI GCGATG 1 cut(s) 85
BtsCI GGATG 4 cut(s) 292, 789, 837, 961
BtsI GCAGTG 1 cut(s) 387
BtsIMutI CAGTG 6 cut(s) 315, 327, 387, 881, 994, 1030
Cac8I GCNNGC 5 cut(s) 268, 492, 591, 768, 822
CfoI GCGC 1 cut(s) 700
Cfr13I GGNCC 1 cut(s) 1059
CpoI CGGWCCG 1 cut(s) 1059
CseI GACGC 1 cut(s) 1071
Csp6I GTAC 4 cut(s) 20, 547, 1132, 1151
CspI CGGWCCG 1 cut(s) 1059
CviAII CATG 4 cut(s) 610, 767, 904, 1102
CviQI GTAC 4 cut(s) 20, 547, 1132, 1151
DdeI CTNAG 2 cut(s) 272, 752
DpnI GATC 6 cut(s) 85, 129, 140, 477, 623, 880
DpnII GATC 6 cut(s) 83, 127, 138, 475, 621, 878
Eam1104I CTCTTC 2 cut(s) 360, 755
EarI CTCTTC 2 cut(s) 360, 755
EciI GGCGGA 1 cut(s) 672
Ecl136II GAGCTC 1 cut(s) 1055
Eco130I CCWWGG 2 cut(s) 609, 997
Eco24I GRGCYC 1 cut(s) 1057
Eco31I GGTCTC 1 cut(s) 355
Eco47I GGWCC 1 cut(s) 1059
Eco53kI GAGCTC 1 cut(s) 1055
Eco57I CTGAAG 1 cut(s) 44
EcoICRI GAGCTC 1 cut(s) 1055
EcoNI CCTNNNNNAGG 1 cut(s) 751
EcoRI GAATTC 1 cut(s) 602
EcoT14I CCWWGG 2 cut(s) 609, 997
EcoT22I ATGCAT 1 cut(s) 772
EcoT38I GRGCYC 1 cut(s) 1057
ErhI CCWWGG 2 cut(s) 609, 997
FaeI CATG 4 cut(s) 613, 770, 907, 1105
FalI AAGNNNNNCTT 2 cut(s) 255, 287
FatI CATG 4 cut(s) 609, 766, 903, 1101
FauI CCCGC 2 cut(s) 75, 594
FbaI TGATCA 2 cut(s) 127, 475
FblI GTMKAC 3 cut(s) 435, 859, 1065
Fnu4HI GCNGC 2 cut(s) 686, 780
FokI GGATG 4 cut(s) 299, 776, 824, 968
FriOI GRGCYC 1 cut(s) 1057
Fsp4HI GCNGC 2 cut(s) 686, 780
GlaI GCGC 1 cut(s) 699
GluI GCNGC 2 cut(s) 686, 780
GsaI CCCAGC 1 cut(s) 621
HaeIII GGCC 1 cut(s) 270
HapII CCGG 1 cut(s) 81
HgaI GACGC 1 cut(s) 1071
HhaI GCGC 1 cut(s) 700
Hin1I GRCGYC 1 cut(s) 552
Hin1II CATG 4 cut(s) 613, 770, 907, 1105
Hin6I GCGC 1 cut(s) 698
HinP1I GCGC 1 cut(s) 698
HincII GTYRAC 2 cut(s) 571, 1066
HindII GTYRAC 2 cut(s) 571, 1066
HinfI GANTC 4 cut(s) 171, 253, 538, 1048
HpaI GTTAAC 1 cut(s) 571
HpaII CCGG 1 cut(s) 81
HphI GGTGA 3 cut(s) 251, 611, 971
Hpy166II GTNNAC 8 cut(s) 278, 387, 436, 571, 835, 860, 1028, 1066
Hpy188I TCNGA 3 cut(s) 132, 252, 722
Hpy188III TCNNGA 5 cut(s) 81, 175, 799, 841, 1111
Hpy8I GTNNAC 8 cut(s) 278, 387, 436, 571, 835, 860, 1028, 1066
Hpy99I CGWCG 5 cut(s) 300, 349, 554, 557, 1067
HpyAV CCTTC 3 cut(s) 406, 1049, 1156
HpyCH4III ACNGT 7 cut(s) 145, 161, 319, 331, 408, 640, 1025
HpyCH4IV ACGT 2 cut(s) 552, 831
HpyF10VI GCNNNNNNNGC 4 cut(s) 67, 748, 776, 1079
HpyF3I CTNAG 2 cut(s) 272, 752
HpySE526I ACGT 2 cut(s) 552, 831
Hsp92I GRCGYC 1 cut(s) 552
Hsp92II CATG 4 cut(s) 613, 770, 907, 1105
HspAI GCGC 1 cut(s) 698
Kpn2I TCCGGA 1 cut(s) 80
Ksp22I TGATCA 2 cut(s) 127, 475
KspAI GTTAAC 1 cut(s) 571
Kzo9I GATC 6 cut(s) 83, 127, 138, 475, 621, 878
Lsp1109I GCAGC 1 cut(s) 791
LweI GCATC 4 cut(s) 227, 277, 798, 918
MaeII ACGT 2 cut(s) 552, 831
MaeIII GTNAC 3 cut(s) 373, 455, 1083
MalI GATC 6 cut(s) 85, 129, 140, 477, 623, 880
MboI GATC 6 cut(s) 83, 127, 138, 475, 621, 878
MboII GAAGA 8 cut(s) 145, 148, 347, 350, 707, 772, 904, 1021
MfeI CAATTG 2 cut(s) 542, 627
MhlI GDGCHC 5 cut(s) 504, 837, 1023, 1030, 1057
MluCI AATT 7 cut(s) 121, 245, 321, 421, 542, 602, 627
MlyI GAGTC 1 cut(s) 247
MnlI CCTC 7 cut(s) 321, 514, 756, 795, 863, 928, 1148
Mph1103I ATGCAT 1 cut(s) 772
MroI TCCGGA 1 cut(s) 80
MroXI GAANNNNTTC 1 cut(s) 62
MseI TTAA 2 cut(s) 44, 570
MslI CAYNNNNRTG 1 cut(s) 524
MspA1I CMGCKG 1 cut(s) 688
MspI CCGG 1 cut(s) 81
MunI CAATTG 2 cut(s) 542, 627
Mva1269I GAATGC 1 cut(s) 975
MvnI CGCG 1 cut(s) 70
MwoI GCNNNNNNNGC 4 cut(s) 67, 748, 776, 1079
NcoI CCATGG 1 cut(s) 609
NdeII GATC 6 cut(s) 83, 127, 138, 475, 621, 878
NlaIII CATG 4 cut(s) 613, 770, 907, 1105
NlaIV GGNNCC 1 cut(s) 501
NmeAIII GCCGAG 1 cut(s) 1153
NmuCI GTSAC 1 cut(s) 1083
NsiI ATGCAT 1 cut(s) 772
NspI RCATGY 2 cut(s) 770, 1105
PaeI GCATGC 1 cut(s) 770
PciI ACATGT 1 cut(s) 1101
PcsI WCGNNNNNNNCGW 1 cut(s) 304
PctI GAATGC 1 cut(s) 975
PdmI GAANNNNTTC 1 cut(s) 62
PfeI GAWTC 3 cut(s) 171, 538, 1048
Pfl23II CGTACG 1 cut(s) 1150
PflMI CCANNNNNTGG 1 cut(s) 236
PkrI GCNGC 2 cut(s) 687, 781
PleI GAGTC 1 cut(s) 247
PpsI GAGTC 1 cut(s) 247
Ppu21I YACGTR 1 cut(s) 832
PscI ACATGT 1 cut(s) 1101
Psp124BI GAGCTC 1 cut(s) 1057
PspFI CCCAGC 1 cut(s) 617
PspLI CGTACG 1 cut(s) 1150
PspN4I GGNNCC 1 cut(s) 501
PspPI GGNCC 1 cut(s) 1059
PstI CTGCAG 1 cut(s) 492
RsaI GTAC 4 cut(s) 21, 548, 1133, 1152
RsaNI GTAC 4 cut(s) 20, 547, 1132, 1151
RseI CAYNNNNRTG 1 cut(s) 524
Rsr2I CGGWCCG 1 cut(s) 1059
RsrII CGGWCCG 1 cut(s) 1059
SacI GAGCTC 1 cut(s) 1057
SalI GTCGAC 1 cut(s) 1064
SaqAI TTAA 2 cut(s) 44, 570
SatI GCNGC 2 cut(s) 686, 780
Sau3AI GATC 6 cut(s) 83, 127, 138, 475, 621, 878
Sau96I GGNCC 1 cut(s) 1059
ScaI AGTACT 2 cut(s) 21, 1133
SchI GAGTC 1 cut(s) 247
SduI GDGCHC 5 cut(s) 504, 837, 1023, 1030, 1057
SfaNI GCATC 4 cut(s) 227, 277, 798, 918
SfcI CTRYAG 1 cut(s) 488
SinI GGWCC 1 cut(s) 1059
SmiMI CAYNNNNRTG 1 cut(s) 524
SphI GCATGC 1 cut(s) 770
Sse9I AATT 7 cut(s) 121, 245, 321, 421, 542, 602, 627
SsiI CCGC 5 cut(s) 68, 587, 683, 686, 893
SstI GAGCTC 1 cut(s) 1057
StyI CCWWGG 2 cut(s) 609, 997
TaaI ACNGT 7 cut(s) 145, 161, 319, 331, 408, 640, 1025
TaiI ACGT 2 cut(s) 555, 834
TaqI TCGA 4 cut(s) 298, 555, 1051, 1065
TaqII GACCGA 2 cut(s) 337, 1047
TasI AATT 7 cut(s) 121, 245, 321, 421, 542, 602, 627
TatI WGTACW 2 cut(s) 19, 1131
TauI GCSGC 1 cut(s) 688
TfiI GAWTC 3 cut(s) 171, 538, 1048
Tru1I TTAA 2 cut(s) 44, 570
Tru9I TTAA 2 cut(s) 44, 570
TscAI CASTG 6 cut(s) 322, 334, 394, 888, 994, 1030
TseFI GTSAC 1 cut(s) 1083
TseI GCWGC 1 cut(s) 779
Tsp45I GTSAC 1 cut(s) 1083
TspDTI ATGAA 4 cut(s) 258, 530, 892, 1096
TspGWI ACGGA 3 cut(s) 724, 910, 1051
TspRI CASTG 6 cut(s) 322, 334, 394, 888, 994, 1030
Van91I CCANNNNNTGG 1 cut(s) 236
VneI GTGCAC 2 cut(s) 833, 1026
VpaK11BI GGWCC 1 cut(s) 1059
XagI CCTNNNNNAGG 1 cut(s) 751
XapI RAATTY 3 cut(s) 245, 421, 602
XceI RCATGY 2 cut(s) 770, 1105
XmiI GTMKAC 3 cut(s) 435, 859, 1065
XmnI GAANNNNTTC 1 cut(s) 62
ZraI GACGTC 1 cut(s) 553
ZrmI AGTACT 2 cut(s) 21, 1133
Zsp2I ATGCAT 1 cut(s) 772
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.