RchiOBHm_Chr4g0441521

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0014313
Physical Location & Seq
Forward (+)
63298380 .. 63301861
3482 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40934

Sequence Viewer

Length: 876 bp
ATGGGCATCGCCGGCAATCTCAGTTCAGACCAAATCCAGTCCTTCAACTCCCAAGGTTATCTTGTTCTGGAATCGTTTGCGAGCCCCGAGGACATCGGAGCCATGAGGGCGAGAATGGACCAGTTGCTCCACGACTTTGACTGCTCCTCCACCGCCTCTATTTTCTCTACCAAGAACCAGCAACAGTCGACCGATAATTATTTCTACGAAAGTGTCGACAAGATTTCGTTTTTCTTCGAGGAGAAAGCTTTTGGGGATGATGGAAGCCTAAAACAACCAAAGGAACTTTCCATTAATAAAGTTGGACATGCATTACATGAGCTTGATCCGGTGTTTAGAAAGCTCTCCTATTCTGAGAAAGTTTCGAGTTTGTTATCCTCATTGGGATACAAAAGGCCGATTCCCATTCAGTCTATGTATATCTTTAAGCAACCGGGTATTGGAGGCGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGAACCACAGACTTGCACAGGGCTGTGGCTGGCCTTGGAAGACGCAACAGTAGTAAATGGCTGCCTATGGGCTATTCCTGGATCTCAAAAGAATGGCCTTGTTAGACGGTTTATTAGAGGTGAAGACGGTGTGACCTTTGATCGGCCTTCCCCTGCGTATGATCCAAAAGATTTTGTGCCTATTGAAGTCAAAGCTGGGTCTTTAATTGTTATTCATGGTGATCTTATTCATCAAAGTTTTGAGAACCAGTCTTCGAAGTCAAGGCATGCGTATAGCTTGCATGTGGTGGATACAGATGGCTGCAAATGGGCTCCAGATAATTGGATTCGGCGGAAGGTGGCACCAGAGCCCATCTATGTATCTCAACATGACCTGAAAGTTGATGTCTAG

Protein Analysis

291

Amino Acids

32.56

Weight (kDa)

5.47

Isoelectric Point (pI)

49.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 15 - 252 3.6e-54 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)
AccB1I GGYRCC 1 cut(s) 826
AccI GTMKAC 2 cut(s) 188, 216
AciI CCGC 2 cut(s) 153, 817
AclWI GGATC 3 cut(s) 320, 574, 641
AfiI CCNNNNNNNGG 2 cut(s) 440, 627
AgsI TTSAA 2 cut(s) 46, 671
AjnI CCWGG 1 cut(s) 562
AjuI GAANNNNNNNTTGG 2 cut(s) 271, 303
AluBI AGCT 5 cut(s) 248, 322, 343, 680, 762
AluI AGCT 5 cut(s) 248, 322, 343, 680, 762
AlwI GGATC 3 cut(s) 320, 574, 641
Ama87I CYCGRG 1 cut(s) 86
AoxI GGCC 4 cut(s) 395, 516, 580, 629
ApeKI GCWGC 2 cut(s) 546, 786
AseI ATTAAT 1 cut(s) 294
AspS9I GGNCC 1 cut(s) 118
AsuC2I CCSGG 1 cut(s) 435
AsuHPI GGTGA 2 cut(s) 617, 716
AsuII TTCGAA 1 cut(s) 740
AvaI CYCGRG 1 cut(s) 86
AvaII GGWCC 1 cut(s) 118
BanI GGYRCC 1 cut(s) 826
BanII GRGCYC 3 cut(s) 86, 799, 837
BbsI GAAGAC 3 cut(s) 531, 615, 729
BbvI GCAGC 2 cut(s) 533, 773
BccI CCATC 3 cut(s) 254, 776, 845
BciT130I CCWGG 1 cut(s) 564
BciVI GTATCC 2 cut(s) 380, 769
BcnI CCSGG 1 cut(s) 435
BfaI CTAG 1 cut(s) 874
BfuI GTATCC 2 cut(s) 380, 769
BglI GCCNNNNNGGC 1 cut(s) 107
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 1 cut(s) 86
BmgT120I GGNCC 1 cut(s) 118
BmiI GGNNCC 3 cut(s) 100, 798, 828
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
Bpu14I TTCGAA 1 cut(s) 740
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) 192
BshFI GGCC 4 cut(s) 397, 518, 582, 631
BshNI GGYRCC 1 cut(s) 826
BsiEI CGRYCG 1 cut(s) 192
BsiHKCI CYCGRG 1 cut(s) 86
BsiSI CCGG 3 cut(s) 12, 329, 434
BslI CCNNNNNNNGG 2 cut(s) 440, 627
BsnI GGCC 4 cut(s) 397, 518, 582, 631
BsoBI CYCGRG 1 cut(s) 86
Bsp119I TTCGAA 1 cut(s) 740
Bsp1286I GDGCHC 3 cut(s) 86, 799, 837
Bsp143I GATC 5 cut(s) 325, 566, 625, 646, 706
BspACI CCGC 2 cut(s) 153, 817
BspANI GGCC 4 cut(s) 397, 518, 582, 631
BspCNI CTCAG 2 cut(s) 33, 346
BspLI GGNNCC 3 cut(s) 100, 798, 828
BspPI GGATC 3 cut(s) 320, 574, 641
BspT104I TTCGAA 1 cut(s) 740
BspT107I GGYRCC 1 cut(s) 826
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 4 cut(s) 186, 535, 594, 614
BstBI TTCGAA 1 cut(s) 740
BstC8I GCNNGC 5 cut(s) 13, 82, 516, 753, 764
BstDEI CTNAG 2 cut(s) 20, 354
BstF5I GGATG 1 cut(s) 262
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) 192
BstMWI GCNNNNNNNGC 2 cut(s) 12, 107
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
BstXI CCANNNNNNTGG 1 cut(s) 807
BstYI RGATCY 1 cut(s) 566
BsuI GTATCC 2 cut(s) 380, 769
BsuRI GGCC 4 cut(s) 397, 518, 582, 631
BtsCI GGATG 1 cut(s) 262
Cac8I GCNNGC 5 cut(s) 13, 82, 516, 753, 764
Cfr10I RCCGGY 1 cut(s) 11
Cfr13I GGNCC 1 cut(s) 118
CseI GACGC 1 cut(s) 536
CviAII CATG 7 cut(s) 103, 308, 317, 701, 752, 767, 854
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
EciI GGCGGA 1 cut(s) 832
Eco130I CCWWGG 2 cut(s) 52, 519
Eco24I GRGCYC 3 cut(s) 86, 799, 837
Eco47I GGWCC 1 cut(s) 118
Eco88I CYCGRG 1 cut(s) 86
EcoRII CCWGG 1 cut(s) 562
EcoT14I CCWWGG 2 cut(s) 52, 519
EcoT22I ATGCAT 1 cut(s) 313
EcoT38I GRGCYC 3 cut(s) 86, 799, 837
ErhI CCWWGG 2 cut(s) 52, 519
FaeI CATG 7 cut(s) 106, 311, 320, 704, 755, 770, 857
FalI AAGNNNNNCTT 2 cut(s) 45, 77
FatI CATG 7 cut(s) 102, 307, 316, 700, 751, 766, 853
FblI GTMKAC 2 cut(s) 188, 216
Fnu4HI GCNGC 2 cut(s) 547, 787
FokI GGATG 1 cut(s) 269
FriOI GRGCYC 3 cut(s) 86, 799, 837
Fsp4HI GCNGC 2 cut(s) 547, 787
FspBI CTAG 1 cut(s) 874
GluI GCNGC 2 cut(s) 547, 787
GsaI CCCAGC 1 cut(s) 684
GsuI CTGGAG 1 cut(s) 783
HaeIII GGCC 4 cut(s) 397, 518, 582, 631
HapII CCGG 3 cut(s) 12, 329, 434
HgaI GACGC 1 cut(s) 536
Hin1II CATG 7 cut(s) 106, 311, 320, 704, 755, 770, 857
HincII GTYRAC 2 cut(s) 189, 217
HindII GTYRAC 2 cut(s) 189, 217
HindIII AAGCTT 1 cut(s) 246
HinfI GANTC 3 cut(s) 71, 400, 811
HpaII CCGG 3 cut(s) 12, 329, 434
HphI GGTGA 2 cut(s) 617, 716
Hpy166II GTNNAC 2 cut(s) 189, 217
Hpy188I TCNGA 3 cut(s) 28, 98, 355
Hpy188III TCNNGA 3 cut(s) 68, 464, 800
Hpy8I GTNNAC 2 cut(s) 189, 217
HpyAV CCTTC 3 cut(s) 52, 642, 814
HpyCH4III ACNGT 4 cut(s) 186, 535, 594, 614
HpyCH4V TGCA 4 cut(s) 311, 501, 766, 789
HpyF10VI GCNNNNNNNGC 2 cut(s) 12, 107
HpyF3I CTNAG 2 cut(s) 20, 354
Hsp92II CATG 7 cut(s) 106, 311, 320, 704, 755, 770, 857
KroI GCCGGC 1 cut(s) 11
KroNI GCCGGC 1 cut(s) 13
Kzo9I GATC 5 cut(s) 325, 566, 625, 646, 706
LmnI GCTCC 4 cut(s) 98, 132, 149, 802
Lsp1109I GCAGC 2 cut(s) 533, 773
LweI GCATC 1 cut(s) 15
MaeI CTAG 1 cut(s) 874
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 3 cut(s) 86, 799, 837
MluCI AATT 3 cut(s) 196, 690, 805
MmeI TCCRAC 1 cut(s) 283
MnlI CCTC 9 cut(s) 82, 99, 157, 166, 232, 388, 437, 442, 596
Mph1103I ATGCAT 1 cut(s) 313
MroNI GCCGGC 1 cut(s) 11
MseI TTAA 3 cut(s) 294, 426, 689
MspI CCGG 3 cut(s) 12, 329, 434
MspR9I CCNGG 2 cut(s) 435, 564
MvaI CCWGG 1 cut(s) 564
MwoI GCNNNNNNNGC 2 cut(s) 12, 107
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) 106, 311, 320, 704, 755, 770, 857
NlaIV GGNNCC 3 cut(s) 100, 798, 828
NmuCI GTSAC 1 cut(s) 616
NsiI ATGCAT 1 cut(s) 313
NspI RCATGY 3 cut(s) 311, 755, 770
NspV TTCGAA 1 cut(s) 740
PaeI GCATGC 1 cut(s) 755
PcsI WCGNNNNNNNCGW 1 cut(s) 213
PdiI GCCGGC 1 cut(s) 13
PfeI GAWTC 3 cut(s) 71, 400, 811
PfoI TCCNGGA 1 cut(s) 562
PkrI GCNGC 2 cut(s) 548, 788
PshBI ATTAAT 1 cut(s) 294
Psp6I CCWGG 1 cut(s) 562
PspFI CCCAGC 1 cut(s) 680
PspGI CCWGG 1 cut(s) 562
PspN4I GGNNCC 3 cut(s) 100, 798, 828
PspPI GGNCC 1 cut(s) 118
PsuI RGATCY 1 cut(s) 566
SalI GTCGAC 2 cut(s) 187, 215
SaqAI TTAA 3 cut(s) 294, 426, 689
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 3 cut(s) 86, 799, 837
SfaNI GCATC 1 cut(s) 15
SfuI TTCGAA 1 cut(s) 740
SinI GGWCC 1 cut(s) 118
SphI GCATGC 1 cut(s) 755
Sse9I AATT 3 cut(s) 196, 690, 805
SsiI CCGC 2 cut(s) 153, 817
SspMI CTAG 1 cut(s) 874
StyD4I CCNGG 2 cut(s) 433, 562
StyI CCWWGG 2 cut(s) 52, 519
TaaI ACNGT 4 cut(s) 186, 535, 594, 614
TaqI TCGA 5 cut(s) 188, 216, 237, 365, 740
TaqII GACCGA 1 cut(s) 206
TasI AATT 3 cut(s) 196, 690, 805
TfiI GAWTC 3 cut(s) 71, 400, 811
Tru1I TTAA 3 cut(s) 294, 426, 689
Tru9I TTAA 3 cut(s) 294, 426, 689
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 1 cut(s) 294
XceI RCATGY 3 cut(s) 311, 755, 770
XmiI GTMKAC 2 cut(s) 188, 216
XspI CTAG 1 cut(s) 874
Zsp2I ATGCAT 1 cut(s) 313
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.