Rh4BG399900

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0014313
Physical Location & Seq
Forward (+)
55045962 .. 55048657
2696 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG399900.1

Sequence Viewer

Length: 855 bp
ATGGGCATCGCCGGCGGCAATCTCAGTTCAGACCAAATCCAGTCCTTCAACTCCCAAGGCTATCTTGTTCTGGAATCGTTTGCGAGCCCCGAGGACATCGAAGCCATGAGGACGAGAATGGACCAGTTGCTCCACGACTTTGACTGCTCCTCCACCGCCTCTATTTTCTCTACCAAGAACCAGCAACAGTTGACCGACAATTATTTCTACGAAAGTGTCGACAAGATTTCGTTTTTCTTCGAGGAGAAAGCTTTTGGGGATGATGGAAGCCTAAAACAACCAAAGGAACTTTCCATTAATAAAGTTGGACATGCATTACATGAGCTTGATCCGGTGTTTAGAAAGTTCTCCTATTCTGAGAAAGTCTCGAGTTTGTTCTCCTCATTGGGATACAAAAGGCCGATTCCCGTTCAGTCTATGTATATCTTTAAGCAACCGGGTATTGGAGGCGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGAACCACAGACTTGCACAGGGCTGTGGCTGGCCTTGGAAGATGCAACAGTAGTAAATGGCTGCCTATGGGCTATTCCTGGATCTCAAAAGAATGGCCTTGTTAGACGGTTTATTAGAGGTGAAGACGGTGTGACCTTTGATCGGCCTTCCCCTGCGTATTATTCAAAAGATTTTGTGCCTATTGAAGTCAAAGCTGGGTCTTTAATTGTTATTCATGGTGATCTTATTCATCAAAGTTTCGAGAACCAGTCTTCGAAGTCAAGGCATGCGTATAGCTTGCATGTGGTGGATACAGATGGCTGCAAATGGGCTCCAGATAATTGGATTCGGCGGAAGGTGGCACCAGAGCCCATCTATGTATCTTAA

Protein Analysis

284

Amino Acids

31.9

Weight (kDa)

5.49

Isoelectric Point (pI)

51.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 16 - 253 1.2e-54 Phytanoyl-CoA dioxygenase (PhyH)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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 1 cut(s) 219
AciI CCGC 3 cut(s) 15, 156, 820
AclWI GGATC 2 cut(s) 323, 577
AfiI CCNNNNNNNGG 2 cut(s) 443, 630
AgsI TTSAA 3 cut(s) 49, 654, 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
Alw26I GTCTC 1 cut(s) 370
AlwI GGATC 2 cut(s) 323, 577
Ama87I CYCGRG 2 cut(s) 89, 367
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 2 cut(s) 89, 367
AvaII GGWCC 1 cut(s) 121
BanI GGYRCC 1 cut(s) 829
BanII GRGCYC 3 cut(s) 89, 802, 840
BbsI GAAGAC 2 cut(s) 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
BcoDI GTCTC 1 cut(s) 370
BfuI GTATCC 2 cut(s) 383, 772
BisI GCNGC 3 cut(s) 16, 550, 790
BlsI GCNGC 3 cut(s) 17, 551, 791
Bme1390I CCNGG 2 cut(s) 438, 567
Bme18I GGWCC 1 cut(s) 121
BmeT110I CYCGRG 2 cut(s) 89, 367
BmgT120I GGNCC 1 cut(s) 121
BmiI GGNNCC 2 cut(s) 801, 831
BmrFI CCNGG 2 cut(s) 438, 567
BmsI GCATC 2 cut(s) 15, 520
BpiI GAAGAC 2 cut(s) 618, 732
BplI GAGNNNNNCTC 2 cut(s) 350, 382
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) 11
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 3 cut(s) 139, 257, 370
BseXI GCAGC 2 cut(s) 536, 776
BseYI CCCAGC 1 cut(s) 683
BshFI GGCC 4 cut(s) 400, 521, 585, 634
BshNI GGYRCC 1 cut(s) 829
BsiHKCI CYCGRG 2 cut(s) 89, 367
BsiSI CCGG 3 cut(s) 12, 332, 437
BslI CCNNNNNNNGG 2 cut(s) 443, 630
BsmAI GTCTC 1 cut(s) 370
BsnI GGCC 4 cut(s) 400, 521, 585, 634
BsoBI CYCGRG 2 cut(s) 89, 367
Bsp119I TTCGAA 1 cut(s) 743
Bsp1286I GDGCHC 3 cut(s) 89, 802, 840
Bsp143I GATC 4 cut(s) 328, 569, 628, 709
BspACI CCGC 3 cut(s) 15, 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 2 cut(s) 323, 577
BspT104I TTCGAA 1 cut(s) 743
BspT107I GGYRCC 1 cut(s) 829
BsrFI RCCGGY 1 cut(s) 11
BsrI ACTGG 3 cut(s) 40, 124, 736
BssAI RCCGGY 1 cut(s) 11
BssECI CCNNGG 3 cut(s) 55, 90, 522
BssMI GATC 4 cut(s) 328, 569, 628, 709
BssT1I CCWWGG 2 cut(s) 55, 522
Bst2UI CCWGG 1 cut(s) 567
Bst4CI ACNGT 4 cut(s) 189, 538, 597, 617
BstBI TTCGAA 1 cut(s) 743
BstC8I GCNNGC 5 cut(s) 13, 85, 519, 756, 767
BstDEI CTNAG 2 cut(s) 23, 357
BstF5I GGATG 1 cut(s) 265
BstKTI GATC 4 cut(s) 331, 572, 631, 712
BstMAI GTCTC 1 cut(s) 370
BstMBI GATC 4 cut(s) 328, 569, 628, 709
BstMWI GCNNNNNNNGC 1 cut(s) 12
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 2 cut(s) 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) 13, 85, 519, 756, 767
Cfr10I RCCGGY 1 cut(s) 11
Cfr13I GGNCC 1 cut(s) 121
CviAII CATG 6 cut(s) 106, 311, 320, 704, 755, 770
DdeI CTNAG 2 cut(s) 23, 357
DpnI GATC 4 cut(s) 330, 571, 630, 711
DpnII GATC 4 cut(s) 328, 569, 628, 709
EciI GGCGGA 1 cut(s) 835
Eco130I CCWWGG 2 cut(s) 55, 522
Eco24I GRGCYC 3 cut(s) 89, 802, 840
Eco47I GGWCC 1 cut(s) 121
Eco88I CYCGRG 2 cut(s) 89, 367
EcoRII CCWGG 1 cut(s) 565
EcoT14I CCWWGG 2 cut(s) 55, 522
EcoT22I ATGCAT 1 cut(s) 316
EcoT38I GRGCYC 3 cut(s) 89, 802, 840
ErhI CCWWGG 2 cut(s) 55, 522
FaeI CATG 6 cut(s) 109, 314, 323, 707, 758, 773
FalI AAGNNNNNCTT 2 cut(s) 48, 80
FatI CATG 6 cut(s) 105, 310, 319, 703, 754, 769
FblI GTMKAC 1 cut(s) 219
Fnu4HI GCNGC 3 cut(s) 16, 550, 790
FokI GGATG 1 cut(s) 272
FriOI GRGCYC 3 cut(s) 89, 802, 840
Fsp4HI GCNGC 3 cut(s) 16, 550, 790
GluI GCNGC 3 cut(s) 16, 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) 12, 332, 437
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) 12, 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 5 cut(s) 71, 367, 467, 730, 803
Hpy8I GTNNAC 2 cut(s) 192, 220
HpyAV CCTTC 3 cut(s) 55, 645, 817
HpyCH4III ACNGT 4 cut(s) 189, 538, 597, 617
HpyCH4V TGCA 5 cut(s) 314, 504, 533, 769, 792
HpyF10VI GCNNNNNNNGC 1 cut(s) 12
HpyF3I CTNAG 2 cut(s) 23, 357
Hsp92II CATG 6 cut(s) 109, 314, 323, 707, 758, 773
KroI GCCGGC 1 cut(s) 11
KroNI GCCGGC 1 cut(s) 13
Kzo9I GATC 4 cut(s) 328, 569, 628, 709
LmnI GCTCC 3 cut(s) 135, 152, 805
Lsp1109I GCAGC 2 cut(s) 536, 776
LweI GCATC 2 cut(s) 15, 520
MaeIII GTNAC 1 cut(s) 619
MalI GATC 4 cut(s) 330, 571, 630, 711
MboI GATC 4 cut(s) 328, 569, 628, 709
MboII GAAGA 4 cut(s) 229, 539, 623, 732
MflI RGATCY 1 cut(s) 569
MhlI GDGCHC 3 cut(s) 89, 802, 840
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
MreI CGCCGGCG 1 cut(s) 11
MroNI GCCGGC 1 cut(s) 11
MseI TTAA 4 cut(s) 297, 429, 692, 853
MspI CCGG 3 cut(s) 12, 332, 437
MspR9I CCNGG 2 cut(s) 438, 567
MvaI CCWGG 1 cut(s) 567
MwoI GCNNNNNNNGC 1 cut(s) 12
NaeI GCCGGC 1 cut(s) 13
NciI CCSGG 1 cut(s) 438
NdeII GATC 4 cut(s) 328, 569, 628, 709
NgoMIV GCCGGC 1 cut(s) 11
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
PaeR7I CTCGAG 1 cut(s) 367
PcsI WCGNNNNNNNCGW 1 cut(s) 216
PdiI GCCGGC 1 cut(s) 13
PfeI GAWTC 3 cut(s) 74, 403, 814
PfoI TCCNGGA 1 cut(s) 565
PkrI GCNGC 3 cut(s) 17, 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 1 cut(s) 218
SaqAI TTAA 4 cut(s) 297, 429, 692, 853
SatI GCNGC 3 cut(s) 16, 550, 790
Sau3AI GATC 4 cut(s) 328, 569, 628, 709
Sau96I GGNCC 1 cut(s) 121
ScrFI CCNGG 2 cut(s) 438, 567
SduI GDGCHC 3 cut(s) 89, 802, 840
SetI ASST 8 cut(s) 253, 327, 456, 610, 626, 685, 767, 828
SfaNI GCATC 2 cut(s) 15, 520
Sfr274I CTCGAG 1 cut(s) 367
SfuI TTCGAA 1 cut(s) 743
SgrAI CRCCGGYG 1 cut(s) 11
SinI GGWCC 1 cut(s) 121
SlaI CTCGAG 1 cut(s) 367
SmlI CTYRAG 1 cut(s) 367
SmoI CTYRAG 1 cut(s) 367
SphI GCATGC 1 cut(s) 758
Sse9I AATT 3 cut(s) 199, 693, 808
SsiI CCGC 3 cut(s) 15, 156, 820
StyD4I CCNGG 2 cut(s) 436, 565
StyI CCWWGG 2 cut(s) 55, 522
TaaI ACNGT 4 cut(s) 189, 538, 597, 617
TaqI TCGA 6 cut(s) 99, 219, 240, 368, 729, 743
TaqII GACCGA 1 cut(s) 209
TasI AATT 3 cut(s) 199, 693, 808
TauI GCSGC 1 cut(s) 18
TfiI GAWTC 3 cut(s) 74, 403, 814
Tru1I TTAA 4 cut(s) 297, 429, 692, 853
Tru9I TTAA 4 cut(s) 297, 429, 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
XhoI CTCGAG 1 cut(s) 367
XmiI GTMKAC 1 cut(s) 219
Zsp2I ATGCAT 1 cut(s) 316
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.