RLG00000006088

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0014313
Physical Location & Seq
Reverse (-)
4243591 .. 4246309
2719 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000006088

Sequence Viewer

Length: 855 bp
ATGGGCATCGCCGCCGGCAATCTCAGTTCAGACCAAATCCAGTCCTTCAACTCCCAAGGTTATCTTGTTCTGGAATCGTTTGCGAGCCCCGAGGACATCGAAGCCATGAGGACGAGAATGGACCAGTTGCTCCACGACTTTGACTGCTCCTCCACCGCCTCTATTTTCTCTACCAAGAACCAGCAAAAGTCGACCGACAATTATTTCTACGAAAGTGTCGACAAGATTTCCTTTTTCTTCGAGGAGAAAGCTTTTGGGGATGATGGAAGCCTAAAACAACCAAAGGAACTTTCCATTAATAAAGTTGGACATGCATTACATGAGCTTGATCCGGTGTTTAGAAAGTTCTCCTATTCTGAGAAAGTTTCGAGTTTGTTATCCTCATTGGGATACAAAAGGCCGATTCCCATTCAGTCTATGTATATCTTTAAGCAACCGGGTATTGGAGGCGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGAACCACAGACTTGCACAGGGCTGTGGCTGGCCTTGGAAGACGCAACAGTAGTTAATGGCTGCCTATGGGCTATTCCTGGATCTCAAAAGAATGGCCTTGTTAGACGGTTTATTAGAGGTGAAGACGGTGTGACCTTTGATCGGCCTTCCCCTGCGTATGATCCAAAAGATTTTGTGCCTATTGAAGTCAAAGCTGGGTCTTTAATTGTTATTCATGGTGATCTTATTCATCAAAGTTTTGAGAACCAGTCTTCGAAGTCAAGGCATGCGTATAGCTTGCATGTGGTGGATACAGATGGCTGCAAATGGGCTCCAGATAATTGGATTCGGCGGAAGGTGGCACCAGAACCCATCTATGTATCTTAA

Protein Analysis

285

Amino Acids

31.83

Weight (kDa)

5.5

Isoelectric Point (pI)

50.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 16 - 253 7.1e-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)
AccB1I GGYRCC 1 cut(s) 829
AccI GTMKAC 2 cut(s) 191, 219
AciI CCGC 3 cut(s) 12, 156, 820
AclWI GGATC 3 cut(s) 323, 577, 644
AfiI CCNNNNNNNGG 2 cut(s) 443, 630
AgsI TTSAA 2 cut(s) 49, 674
AjnI CCWGG 1 cut(s) 565
AjuI GAANNNNNNNTTGG 2 cut(s) 274, 306
AluBI AGCT 4 cut(s) 251, 325, 683, 765
AluI AGCT 4 cut(s) 251, 325, 683, 765
AlwI GGATC 3 cut(s) 323, 577, 644
Ama87I CYCGRG 1 cut(s) 89
AoxI GGCC 4 cut(s) 398, 519, 583, 632
ApeKI GCWGC 2 cut(s) 549, 789
AseI ATTAAT 1 cut(s) 297
AspS9I GGNCC 1 cut(s) 121
AsuC2I CCSGG 1 cut(s) 438
AsuHPI GGTGA 2 cut(s) 620, 719
AsuII TTCGAA 1 cut(s) 743
AvaI CYCGRG 1 cut(s) 89
AvaII GGWCC 1 cut(s) 121
BanI GGYRCC 1 cut(s) 829
BanII GRGCYC 2 cut(s) 89, 802
BbsI GAAGAC 3 cut(s) 534, 618, 732
BbvI GCAGC 2 cut(s) 536, 776
BccI CCATC 3 cut(s) 257, 779, 848
BciT130I CCWGG 1 cut(s) 567
BciVI GTATCC 2 cut(s) 383, 772
BcnI CCSGG 1 cut(s) 438
BfuI GTATCC 2 cut(s) 383, 772
BisI GCNGC 3 cut(s) 12, 550, 790
BlsI GCNGC 3 cut(s) 13, 551, 791
Bme1390I CCNGG 2 cut(s) 438, 567
Bme18I GGWCC 1 cut(s) 121
BmeT110I CYCGRG 1 cut(s) 89
BmgT120I GGNCC 1 cut(s) 121
BmiI GGNNCC 2 cut(s) 801, 831
BmrFI CCNGG 2 cut(s) 438, 567
BmsI GCATC 1 cut(s) 15
BpiI GAAGAC 3 cut(s) 534, 618, 732
BpmI CTGGAG 1 cut(s) 786
Bpu14I TTCGAA 1 cut(s) 743
BpuMI CCSGG 1 cut(s) 438
BsaJI CCNNGG 3 cut(s) 55, 90, 522
BsaWI WCCGGW 1 cut(s) 331
BsaXI ACNNNNNCTCC 4 cut(s) 134, 164, 438, 468
Bsc4I CCNNNNNNNGG 2 cut(s) 443, 630
Bse118I RCCGGY 1 cut(s) 14
Bse1I ACTGG 3 cut(s) 40, 124, 736
BseBI CCWGG 1 cut(s) 567
BseDI CCNNGG 3 cut(s) 55, 90, 522
BseGI GGATG 1 cut(s) 265
BseLI CCNNNNNNNGG 2 cut(s) 443, 630
BseMII CTCAG 2 cut(s) 37, 348
BseNI ACTGG 3 cut(s) 40, 124, 736
BseRI GAGGAG 2 cut(s) 139, 257
BseXI GCAGC 2 cut(s) 536, 776
BseYI CCCAGC 1 cut(s) 683
Bsh1285I CGRYCG 1 cut(s) 195
BshFI GGCC 4 cut(s) 400, 521, 585, 634
BshNI GGYRCC 1 cut(s) 829
BsiEI CGRYCG 1 cut(s) 195
BsiHKCI CYCGRG 1 cut(s) 89
BsiSI CCGG 3 cut(s) 15, 332, 437
BslI CCNNNNNNNGG 2 cut(s) 443, 630
BsnI GGCC 4 cut(s) 400, 521, 585, 634
BsoBI CYCGRG 1 cut(s) 89
Bsp119I TTCGAA 1 cut(s) 743
Bsp1286I GDGCHC 2 cut(s) 89, 802
Bsp143I GATC 5 cut(s) 328, 569, 628, 649, 709
BspACI CCGC 3 cut(s) 12, 156, 820
BspANI GGCC 4 cut(s) 400, 521, 585, 634
BspCNI CTCAG 2 cut(s) 36, 349
BspLI GGNNCC 2 cut(s) 801, 831
BspPI GGATC 3 cut(s) 323, 577, 644
BspT104I TTCGAA 1 cut(s) 743
BspT107I GGYRCC 1 cut(s) 829
BsrFI RCCGGY 1 cut(s) 14
BsrI ACTGG 3 cut(s) 40, 124, 736
BssAI RCCGGY 1 cut(s) 14
BssECI CCNNGG 3 cut(s) 55, 90, 522
BssMI GATC 5 cut(s) 328, 569, 628, 649, 709
BssT1I CCWWGG 2 cut(s) 55, 522
Bst2UI CCWGG 1 cut(s) 567
Bst4CI ACNGT 3 cut(s) 538, 597, 617
BstBI TTCGAA 1 cut(s) 743
BstC8I GCNNGC 5 cut(s) 16, 85, 519, 756, 767
BstDEI CTNAG 2 cut(s) 23, 357
BstF5I GGATG 1 cut(s) 265
BstKTI GATC 5 cut(s) 331, 572, 631, 652, 712
BstMBI GATC 5 cut(s) 328, 569, 628, 649, 709
BstMCI CGRYCG 1 cut(s) 195
BstNI CCWGG 1 cut(s) 567
BstNSI RCATGY 3 cut(s) 314, 758, 773
BstSCI CCNGG 2 cut(s) 436, 565
BstV1I GCAGC 2 cut(s) 536, 776
BstV2I GAAGAC 3 cut(s) 534, 618, 732
BstX2I RGATCY 1 cut(s) 569
BstXI CCANNNNNNTGG 1 cut(s) 810
BstYI RGATCY 1 cut(s) 569
BsuI GTATCC 2 cut(s) 383, 772
BsuRI GGCC 4 cut(s) 400, 521, 585, 634
BtsCI GGATG 1 cut(s) 265
Cac8I GCNNGC 5 cut(s) 16, 85, 519, 756, 767
Cfr10I RCCGGY 1 cut(s) 14
Cfr13I GGNCC 1 cut(s) 121
CseI GACGC 1 cut(s) 539
CviAII CATG 6 cut(s) 106, 311, 320, 704, 755, 770
DdeI CTNAG 2 cut(s) 23, 357
DpnI GATC 5 cut(s) 330, 571, 630, 651, 711
DpnII GATC 5 cut(s) 328, 569, 628, 649, 709
EciI GGCGGA 1 cut(s) 835
Eco130I CCWWGG 2 cut(s) 55, 522
Eco24I GRGCYC 2 cut(s) 89, 802
Eco47I GGWCC 1 cut(s) 121
Eco88I CYCGRG 1 cut(s) 89
EcoRII CCWGG 1 cut(s) 565
EcoT14I CCWWGG 2 cut(s) 55, 522
EcoT22I ATGCAT 1 cut(s) 316
EcoT38I GRGCYC 2 cut(s) 89, 802
ErhI CCWWGG 2 cut(s) 55, 522
FaeI CATG 6 cut(s) 109, 314, 323, 707, 758, 773
FalI AAGNNNNNCTT 4 cut(s) 48, 80, 215, 247
FatI CATG 6 cut(s) 105, 310, 319, 703, 754, 769
FblI GTMKAC 2 cut(s) 191, 219
Fnu4HI GCNGC 3 cut(s) 12, 550, 790
FokI GGATG 1 cut(s) 272
FriOI GRGCYC 2 cut(s) 89, 802
Fsp4HI GCNGC 3 cut(s) 12, 550, 790
GluI GCNGC 3 cut(s) 12, 550, 790
GsaI CCCAGC 1 cut(s) 687
GsuI CTGGAG 1 cut(s) 786
HaeIII GGCC 4 cut(s) 400, 521, 585, 634
HapII CCGG 3 cut(s) 15, 332, 437
HgaI GACGC 1 cut(s) 539
Hin1II CATG 6 cut(s) 109, 314, 323, 707, 758, 773
HincII GTYRAC 2 cut(s) 192, 220
HindII GTYRAC 2 cut(s) 192, 220
HindIII AAGCTT 1 cut(s) 249
HinfI GANTC 3 cut(s) 74, 403, 814
HpaII CCGG 3 cut(s) 15, 332, 437
HphI GGTGA 2 cut(s) 620, 719
Hpy166II GTNNAC 2 cut(s) 192, 220
Hpy188I TCNGA 2 cut(s) 31, 358
Hpy188III TCNNGA 3 cut(s) 71, 467, 803
Hpy8I GTNNAC 2 cut(s) 192, 220
HpyAV CCTTC 3 cut(s) 55, 645, 817
HpyCH4III ACNGT 3 cut(s) 538, 597, 617
HpyCH4V TGCA 4 cut(s) 314, 504, 769, 792
HpyF3I CTNAG 2 cut(s) 23, 357
Hsp92II CATG 6 cut(s) 109, 314, 323, 707, 758, 773
KroI GCCGGC 1 cut(s) 14
KroNI GCCGGC 1 cut(s) 16
Kzo9I GATC 5 cut(s) 328, 569, 628, 649, 709
LmnI GCTCC 3 cut(s) 135, 152, 805
Lsp1109I GCAGC 2 cut(s) 536, 776
LweI GCATC 1 cut(s) 15
MaeIII GTNAC 1 cut(s) 619
MalI GATC 5 cut(s) 330, 571, 630, 651, 711
MboI GATC 5 cut(s) 328, 569, 628, 649, 709
MboII GAAGA 4 cut(s) 229, 539, 623, 732
MflI RGATCY 1 cut(s) 569
MhlI GDGCHC 2 cut(s) 89, 802
MluCI AATT 3 cut(s) 199, 693, 808
MmeI TCCRAC 1 cut(s) 286
MnlI CCTC 9 cut(s) 85, 102, 160, 169, 235, 391, 440, 445, 599
Mph1103I ATGCAT 1 cut(s) 316
MroNI GCCGGC 1 cut(s) 14
MseI TTAA 5 cut(s) 297, 429, 543, 692, 853
MspI CCGG 3 cut(s) 15, 332, 437
MspR9I CCNGG 2 cut(s) 438, 567
MvaI CCWGG 1 cut(s) 567
NaeI GCCGGC 1 cut(s) 16
NciI CCSGG 1 cut(s) 438
NdeII GATC 5 cut(s) 328, 569, 628, 649, 709
NgoMIV GCCGGC 1 cut(s) 14
NlaIII CATG 6 cut(s) 109, 314, 323, 707, 758, 773
NlaIV GGNNCC 2 cut(s) 801, 831
NmuCI GTSAC 1 cut(s) 619
NsiI ATGCAT 1 cut(s) 316
NspI RCATGY 3 cut(s) 314, 758, 773
NspV TTCGAA 1 cut(s) 743
PaeI GCATGC 1 cut(s) 758
PcsI WCGNNNNNNNCGW 1 cut(s) 216
PdiI GCCGGC 1 cut(s) 16
PfeI GAWTC 3 cut(s) 74, 403, 814
PfoI TCCNGGA 1 cut(s) 565
PkrI GCNGC 3 cut(s) 13, 551, 791
PshBI ATTAAT 1 cut(s) 297
Psp6I CCWGG 1 cut(s) 565
PspFI CCCAGC 1 cut(s) 683
PspGI CCWGG 1 cut(s) 565
PspN4I GGNNCC 2 cut(s) 801, 831
PspPI GGNCC 1 cut(s) 121
PsuI RGATCY 1 cut(s) 569
SalI GTCGAC 2 cut(s) 190, 218
SaqAI TTAA 5 cut(s) 297, 429, 543, 692, 853
SatI GCNGC 3 cut(s) 12, 550, 790
Sau3AI GATC 5 cut(s) 328, 569, 628, 649, 709
Sau96I GGNCC 1 cut(s) 121
ScrFI CCNGG 2 cut(s) 438, 567
SduI GDGCHC 2 cut(s) 89, 802
SetI ASST 9 cut(s) 61, 253, 327, 456, 610, 626, 685, 767, 828
SfaNI GCATC 1 cut(s) 15
SfuI TTCGAA 1 cut(s) 743
SinI GGWCC 1 cut(s) 121
SphI GCATGC 1 cut(s) 758
Sse9I AATT 3 cut(s) 199, 693, 808
SsiI CCGC 3 cut(s) 12, 156, 820
StyD4I CCNGG 2 cut(s) 436, 565
StyI CCWWGG 2 cut(s) 55, 522
TaaI ACNGT 3 cut(s) 538, 597, 617
TaqI TCGA 6 cut(s) 99, 191, 219, 240, 368, 743
TaqII GACCGA 1 cut(s) 209
TasI AATT 3 cut(s) 199, 693, 808
TauI GCSGC 1 cut(s) 14
TfiI GAWTC 3 cut(s) 74, 403, 814
Tru1I TTAA 5 cut(s) 297, 429, 543, 692, 853
Tru9I TTAA 5 cut(s) 297, 429, 543, 692, 853
TseFI GTSAC 1 cut(s) 619
TseI GCWGC 2 cut(s) 549, 789
Tsp45I GTSAC 1 cut(s) 619
TspDTI ATGAA 2 cut(s) 692, 707
VpaK11BI GGWCC 1 cut(s) 121
VspI ATTAAT 1 cut(s) 297
XceI RCATGY 3 cut(s) 314, 758, 773
XmiI GTMKAC 2 cut(s) 191, 219
Zsp2I ATGCAT 1 cut(s) 316
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.