Rroxscaffold_5G00382370

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0014313
Physical Location & Seq
Forward (+)
62209532 .. 62213744
4213 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00382370.1

Sequence Viewer

Length: 897 bp
ATGGGCATCGCCGGCAATCTCAGTTCAGACCAAATCCAGTCCTTCAACTCCCAAGGTTATCTTGTTCTGGAATCGTTTGCGAGCCCCGAGGACATGGAAGCCATGAGGACGAGAATGGACCAGTTGCTCCACGACTTTGACTGCTCCTCCACCGCCTCTATTTTCTCTACCAAGAACCAGCAACAGTCCACCGACAATTATTTCTACGAAAGTGTCGACAAGATTTCGTTTTTCTTCGAGGAGAAAGCTTTTGGGGATGATGGAAGCCTAAAACAACCAAAGGAACTTTCCATTAATAAAGTTGGACATGCATTACATGAGCTTGATCCGGTGTTTAGAAAGTTCTCCTATTCTGAGAAAGTTTCGAGTTTGTTATCCTCATTGGGATACAAAAGGCCGATTCCCGTTCAGTCTATGTATATCTTTAAGCAACCGGGTATTGGAGGCGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGAACCACAGACTTGCACAGGGCTGTGGCTGGCCTTGGAAGACGCAACAGTAGTAAATGGCTGCCTATGGGCTATTCCTGGATCTCAAAAGAATGGCCTTGTTAGACGGTTTATTAGAGGTGAAGACGGTGTGACCTTTGATCGGCCTTCCCCTGCGTATGATCCAAAAGATTTTGTGCCTATTGAAGTCAAAGCTGGGTCTTTAATTGTTATTCATGGTGATCTTATTCATCAAAGTTTCGAGAACCAGTCTTCAAAGTCAAGGCATGCGTATAGCTTGCATGTGGTGGATACAGATGGCTGCAAATGGGCTCCAGATAACTGTTTCGACCGAGAGAAACTGTCGGGATTAATCGAGGCTCTCGGCTCTCTTATGGAGTTTTGTCGAACTGCGCCTCGAGGTCGGCCATAG

Protein Analysis

298

Amino Acids

33.3

Weight (kDa)

5.3

Isoelectric Point (pI)

48.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 15 - 252 7.3e-55 Phytanoyl-CoA dioxygenase (PhyH)
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: OG0014313)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G01490 AT2G01490
fragaria_vesca FvH4_4g32640
malus_domestica MD13G1023900.v1.1 MD16G1026600.v1.1
prunus_persica Prupe.1G326800_v2.0.a1
pyrus_communis pycom16g02240
rosa_chinensis RchiOBHm_Chr4g0441521
rosa_laevigata RLG00000006088
rosa_roxburghii Rroxscaffold_5G00382370 Rroxscaffold_7G00185860
rosa_rugosa Rorug04G0334400 Rorug06G0150600
rosa_samantha Rh4BG399900 Rh4CG414900
rosa_wichuraiana Rw4G033320 Rw6G022810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 882
AccI GTMKAC 1 cut(s) 216
AciI CCGC 1 cut(s) 153
AclWI GGATC 3 cut(s) 320, 574, 641
AcoI YGGCCR 1 cut(s) 890
AfiI CCNNNNNNNGG 2 cut(s) 440, 627
AgsI TTSAA 3 cut(s) 46, 671, 741
AjnI CCWGG 1 cut(s) 562
AjuI GAANNNNNNNTTGG 2 cut(s) 271, 303
AluBI AGCT 4 cut(s) 248, 322, 680, 762
AluI AGCT 4 cut(s) 248, 322, 680, 762
AlwI GGATC 3 cut(s) 320, 574, 641
Ama87I CYCGRG 2 cut(s) 86, 882
AoxI GGCC 5 cut(s) 395, 516, 580, 629, 890
ApeKI GCWGC 2 cut(s) 546, 786
AseI ATTAAT 2 cut(s) 294, 836
AspLEI GCGC 1 cut(s) 880
AspS9I GGNCC 1 cut(s) 118
AsuC2I CCSGG 1 cut(s) 435
AsuHPI GGTGA 2 cut(s) 617, 716
AvaI CYCGRG 2 cut(s) 86, 882
AvaII GGWCC 1 cut(s) 118
BanII GRGCYC 2 cut(s) 86, 799
BbsI GAAGAC 3 cut(s) 531, 615, 729
BbvI GCAGC 2 cut(s) 533, 773
BccI CCATC 2 cut(s) 254, 776
BciT130I CCWGG 1 cut(s) 564
BciVI GTATCC 2 cut(s) 380, 769
BcnI CCSGG 1 cut(s) 435
BfuI GTATCC 2 cut(s) 380, 769
BisI GCNGC 2 cut(s) 547, 787
BlsI GCNGC 2 cut(s) 548, 788
Bme1390I CCNGG 2 cut(s) 435, 564
Bme18I GGWCC 1 cut(s) 118
BmeT110I CYCGRG 2 cut(s) 86, 882
BmgT120I GGNCC 1 cut(s) 118
BmiI GGNNCC 1 cut(s) 798
BmrFI CCNGG 2 cut(s) 435, 564
BmsI GCATC 1 cut(s) 15
BpiI GAAGAC 3 cut(s) 531, 615, 729
BpmI CTGGAG 1 cut(s) 783
BpuMI CCSGG 1 cut(s) 435
BsaJI CCNNGG 3 cut(s) 52, 87, 519
BsaWI WCCGGW 1 cut(s) 328
BsaXI ACNNNNNCTCC 4 cut(s) 131, 161, 435, 465
Bsc4I CCNNNNNNNGG 2 cut(s) 440, 627
Bse118I RCCGGY 1 cut(s) 11
Bse1I ACTGG 3 cut(s) 37, 121, 733
BseBI CCWGG 1 cut(s) 564
BseDI CCNNGG 3 cut(s) 52, 87, 519
BseGI GGATG 1 cut(s) 262
BseLI CCNNNNNNNGG 2 cut(s) 440, 627
BseMII CTCAG 2 cut(s) 34, 345
BseNI ACTGG 3 cut(s) 37, 121, 733
BseRI GAGGAG 2 cut(s) 136, 254
BseXI GCAGC 2 cut(s) 533, 773
BseYI CCCAGC 1 cut(s) 680
Bsh1285I CGRYCG 1 cut(s) 817
BshFI GGCC 5 cut(s) 397, 518, 582, 631, 892
BsiEI CGRYCG 1 cut(s) 817
BsiHKCI CYCGRG 2 cut(s) 86, 882
BsiSI CCGG 3 cut(s) 12, 329, 434
BslI CCNNNNNNNGG 2 cut(s) 440, 627
BsnI GGCC 5 cut(s) 397, 518, 582, 631, 892
BsoBI CYCGRG 2 cut(s) 86, 882
Bsp1286I GDGCHC 2 cut(s) 86, 799
Bsp143I GATC 5 cut(s) 325, 566, 625, 646, 706
BspACI CCGC 1 cut(s) 153
BspANI GGCC 5 cut(s) 397, 518, 582, 631, 892
BspCNI CTCAG 2 cut(s) 33, 346
BspLI GGNNCC 1 cut(s) 798
BspPI GGATC 3 cut(s) 320, 574, 641
BsrFI RCCGGY 1 cut(s) 11
BsrI ACTGG 3 cut(s) 37, 121, 733
BssAI RCCGGY 1 cut(s) 11
BssECI CCNNGG 3 cut(s) 52, 87, 519
BssMI GATC 5 cut(s) 325, 566, 625, 646, 706
BssT1I CCWWGG 2 cut(s) 52, 519
Bst2UI CCWGG 1 cut(s) 564
Bst4CI ACNGT 6 cut(s) 186, 535, 594, 614, 809, 828
BstC8I GCNNGC 5 cut(s) 13, 82, 516, 753, 764
BstDEI CTNAG 2 cut(s) 20, 354
BstF5I GGATG 1 cut(s) 262
BstHHI GCGC 1 cut(s) 880
BstKTI GATC 5 cut(s) 328, 569, 628, 649, 709
BstMBI GATC 5 cut(s) 325, 566, 625, 646, 706
BstMCI CGRYCG 1 cut(s) 817
BstMWI GCNNNNNNNGC 1 cut(s) 12
BstNI CCWGG 1 cut(s) 564
BstNSI RCATGY 3 cut(s) 311, 755, 770
BstSCI CCNGG 2 cut(s) 433, 562
BstV1I GCAGC 2 cut(s) 533, 773
BstV2I GAAGAC 3 cut(s) 531, 615, 729
BstX2I RGATCY 1 cut(s) 566
BstYI RGATCY 1 cut(s) 566
BsuI GTATCC 2 cut(s) 380, 769
BsuRI GGCC 5 cut(s) 397, 518, 582, 631, 892
BtsCI GGATG 1 cut(s) 262
Cac8I GCNNGC 5 cut(s) 13, 82, 516, 753, 764
CfoI GCGC 1 cut(s) 880
Cfr10I RCCGGY 1 cut(s) 11
Cfr13I GGNCC 1 cut(s) 118
CseI GACGC 1 cut(s) 536
CviAII CATG 7 cut(s) 94, 103, 308, 317, 701, 752, 767
DdeI CTNAG 2 cut(s) 20, 354
DpnI GATC 5 cut(s) 327, 568, 627, 648, 708
DpnII GATC 5 cut(s) 325, 566, 625, 646, 706
EaeI YGGCCR 1 cut(s) 890
Eco130I CCWWGG 2 cut(s) 52, 519
Eco24I GRGCYC 2 cut(s) 86, 799
Eco47I GGWCC 1 cut(s) 118
Eco88I CYCGRG 2 cut(s) 86, 882
EcoRII CCWGG 1 cut(s) 562
EcoT14I CCWWGG 2 cut(s) 52, 519
EcoT22I ATGCAT 1 cut(s) 313
EcoT38I GRGCYC 2 cut(s) 86, 799
ErhI CCWWGG 2 cut(s) 52, 519
FaeI CATG 7 cut(s) 97, 106, 311, 320, 704, 755, 770
FalI AAGNNNNNCTT 2 cut(s) 45, 77
FatI CATG 7 cut(s) 93, 102, 307, 316, 700, 751, 766
FblI GTMKAC 1 cut(s) 216
Fnu4HI GCNGC 2 cut(s) 547, 787
FokI GGATG 1 cut(s) 269
FriOI GRGCYC 2 cut(s) 86, 799
Fsp4HI GCNGC 2 cut(s) 547, 787
GlaI GCGC 1 cut(s) 879
GluI GCNGC 2 cut(s) 547, 787
GsaI CCCAGC 1 cut(s) 684
GsuI CTGGAG 1 cut(s) 783
HaeIII GGCC 5 cut(s) 397, 518, 582, 631, 892
HapII CCGG 3 cut(s) 12, 329, 434
HgaI GACGC 1 cut(s) 536
HhaI GCGC 1 cut(s) 880
Hin1II CATG 7 cut(s) 97, 106, 311, 320, 704, 755, 770
Hin6I GCGC 1 cut(s) 878
HinP1I GCGC 1 cut(s) 878
HincII GTYRAC 1 cut(s) 217
HindII GTYRAC 1 cut(s) 217
HindIII AAGCTT 1 cut(s) 246
HinfI GANTC 2 cut(s) 71, 400
HpaII CCGG 3 cut(s) 12, 329, 434
HphI GGTGA 2 cut(s) 617, 716
Hpy166II GTNNAC 2 cut(s) 189, 217
Hpy188I TCNGA 2 cut(s) 28, 355
Hpy188III TCNNGA 5 cut(s) 68, 464, 727, 800, 831
Hpy8I GTNNAC 2 cut(s) 189, 217
HpyAV CCTTC 2 cut(s) 52, 642
HpyCH4III ACNGT 6 cut(s) 186, 535, 594, 614, 809, 828
HpyCH4V TGCA 4 cut(s) 311, 501, 766, 789
HpyF10VI GCNNNNNNNGC 1 cut(s) 12
HpyF3I CTNAG 2 cut(s) 20, 354
Hsp92II CATG 7 cut(s) 97, 106, 311, 320, 704, 755, 770
HspAI GCGC 1 cut(s) 878
KroI GCCGGC 1 cut(s) 11
KroNI GCCGGC 1 cut(s) 13
Kzo9I GATC 5 cut(s) 325, 566, 625, 646, 706
LmnI GCTCC 3 cut(s) 132, 149, 802
Lsp1109I GCAGC 2 cut(s) 533, 773
LweI GCATC 1 cut(s) 15
MaeIII GTNAC 1 cut(s) 616
MalI GATC 5 cut(s) 327, 568, 627, 648, 708
MboI GATC 5 cut(s) 325, 566, 625, 646, 706
MboII GAAGA 4 cut(s) 226, 536, 620, 729
MflI RGATCY 1 cut(s) 566
MhlI GDGCHC 2 cut(s) 86, 799
MluCI AATT 2 cut(s) 196, 690
MmeI TCCRAC 1 cut(s) 283
Mph1103I ATGCAT 1 cut(s) 313
MroNI GCCGGC 1 cut(s) 11
MseI TTAA 4 cut(s) 294, 426, 689, 836
MspI CCGG 3 cut(s) 12, 329, 434
MspR9I CCNGG 2 cut(s) 435, 564
MvaI CCWGG 1 cut(s) 564
MwoI GCNNNNNNNGC 1 cut(s) 12
NaeI GCCGGC 1 cut(s) 13
NciI CCSGG 1 cut(s) 435
NdeII GATC 5 cut(s) 325, 566, 625, 646, 706
NgoMIV GCCGGC 1 cut(s) 11
NlaIII CATG 7 cut(s) 97, 106, 311, 320, 704, 755, 770
NlaIV GGNNCC 1 cut(s) 798
NmeAIII GCCGAG 1 cut(s) 828
NmuCI GTSAC 1 cut(s) 616
NsiI ATGCAT 1 cut(s) 313
NspI RCATGY 3 cut(s) 311, 755, 770
PaeI GCATGC 1 cut(s) 755
PaeR7I CTCGAG 1 cut(s) 882
PcsI WCGNNNNNNNCGW 1 cut(s) 213
PdiI GCCGGC 1 cut(s) 13
PfeI GAWTC 2 cut(s) 71, 400
PfoI TCCNGGA 1 cut(s) 562
PkrI GCNGC 2 cut(s) 548, 788
PshBI ATTAAT 2 cut(s) 294, 836
Psp6I CCWGG 1 cut(s) 562
PspFI CCCAGC 1 cut(s) 680
PspGI CCWGG 1 cut(s) 562
PspN4I GGNNCC 1 cut(s) 798
PspPI GGNCC 1 cut(s) 118
PspXI VCTCGAGB 1 cut(s) 882
PsuI RGATCY 1 cut(s) 566
SalI GTCGAC 1 cut(s) 215
SaqAI TTAA 4 cut(s) 294, 426, 689, 836
SatI GCNGC 2 cut(s) 547, 787
Sau3AI GATC 5 cut(s) 325, 566, 625, 646, 706
Sau96I GGNCC 1 cut(s) 118
ScrFI CCNGG 2 cut(s) 435, 564
SduI GDGCHC 2 cut(s) 86, 799
SetI ASST 9 cut(s) 58, 250, 324, 453, 607, 623, 682, 764, 889
SfaNI GCATC 1 cut(s) 15
Sfr274I CTCGAG 1 cut(s) 882
SinI GGWCC 1 cut(s) 118
SlaI CTCGAG 1 cut(s) 882
SmlI CTYRAG 1 cut(s) 882
SmoI CTYRAG 1 cut(s) 882
SphI GCATGC 1 cut(s) 755
Sse9I AATT 2 cut(s) 196, 690
SsiI CCGC 1 cut(s) 153
StyD4I CCNGG 2 cut(s) 433, 562
StyI CCWWGG 2 cut(s) 52, 519
TaaI ACNGT 6 cut(s) 186, 535, 594, 614, 809, 828
TaqI TCGA 8 cut(s) 216, 237, 365, 726, 813, 840, 871, 883
TaqII GACCGA 1 cut(s) 831
TasI AATT 2 cut(s) 196, 690
TfiI GAWTC 2 cut(s) 71, 400
Tru1I TTAA 4 cut(s) 294, 426, 689, 836
Tru9I TTAA 4 cut(s) 294, 426, 689, 836
TseFI GTSAC 1 cut(s) 616
TseI GCWGC 2 cut(s) 546, 786
Tsp45I GTSAC 1 cut(s) 616
TspDTI ATGAA 2 cut(s) 689, 704
VpaK11BI GGWCC 1 cut(s) 118
VspI ATTAAT 2 cut(s) 294, 836
XceI RCATGY 3 cut(s) 311, 755, 770
XhoI CTCGAG 1 cut(s) 882
XmiI GTMKAC 1 cut(s) 216
Zsp2I ATGCAT 1 cut(s) 313
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.