Rh4DG392600

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0024685
Physical Location & Seq
Forward (+)
60841374 .. 60845077
3704 bp
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UTR
Exon/CDS
Intron
Rh4DG392600.1

Sequence Viewer

Length: 627 bp
ATGGGCATCGCCGGCAATCTCAGTTCAGACCAAATCCAGTCCTTCAACTCCCAAGGTTATCTTGTTCTGGAATCGTTTGCGAGCCCCGAGGACATCGGAGCCATGAGGGCGAGAATGGACCAGTTGCTCCACGACTTTGACTGCTCCTCCACCGCCTCTATTTTCTCTACCAAGAACCAGCAACAGTCGACCGATAATTATTTCTACGAAAGTGTCGACAAGATTTCGTTTTTCTTCGAGGAGAAAGCTTTTGGGGATGATGGAAGCCTAAAACAACCAAAGGAACTTTCCATTAATAAAGTTGGACATGCATTACATGAGCTTGATCCGGTGTTTAGAAAGCTCTCCTATTCTGAGAAAGTTTCGAGTTTGTTATCCTCATTGGGATACAAAAGGCCGATTCCCATTCAGTCTATGTATATCTTTAAGCAACCGGGTATTGGAGGCGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGAACCACAGACTTGCACAGGGCTGTGGCTGGCCTTGGAAGACGCAACAGTAGTAAATGGCTGCCTATGGGTTATTCCTGGATCTCAAAAGAGTAGTGTTCTCCTTCCGCACCTCTTCTTCCTTCTGTATTTCCTTCCCTAA

Protein Analysis

208

Amino Acids

23.25

Weight (kDa)

5.02

Isoelectric Point (pI)

47.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 15 - 194 2e-37 Phytanoyl-CoA dioxygenase (PhyH)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0024685)

Species Orthologous Gene IDs
pyrus_communis pycom13g02230
rosa_rugosa Rorug04G0334500
rosa_samantha Rh4DG392600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 188, 216
AciI CCGC 2 cut(s) 153, 593
AclWI GGATC 2 cut(s) 320, 574
AfiI CCNNNNNNNGG 1 cut(s) 440
AgsI TTSAA 1 cut(s) 46
AjnI CCWGG 1 cut(s) 562
AjuI GAANNNNNNNTTGG 2 cut(s) 271, 303
AluBI AGCT 3 cut(s) 248, 322, 343
AluI AGCT 3 cut(s) 248, 322, 343
AlwI GGATC 2 cut(s) 320, 574
Ama87I CYCGRG 1 cut(s) 86
AoxI GGCC 2 cut(s) 395, 516
ApeKI GCWGC 1 cut(s) 546
AseI ATTAAT 1 cut(s) 294
AspS9I GGNCC 1 cut(s) 118
AsuC2I CCSGG 1 cut(s) 435
AvaI CYCGRG 1 cut(s) 86
AvaII GGWCC 1 cut(s) 118
BanII GRGCYC 1 cut(s) 86
BbsI GAAGAC 1 cut(s) 531
BbvI GCAGC 1 cut(s) 533
BccI CCATC 1 cut(s) 254
BciT130I CCWGG 1 cut(s) 564
BciVI GTATCC 1 cut(s) 380
BcnI CCSGG 1 cut(s) 435
BfuI GTATCC 1 cut(s) 380
BglI GCCNNNNNGGC 1 cut(s) 107
BisI GCNGC 1 cut(s) 547
BlsI GCNGC 1 cut(s) 548
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 1 cut(s) 100
BmrFI CCNGG 2 cut(s) 435, 564
BmsI GCATC 1 cut(s) 15
BpiI GAAGAC 1 cut(s) 531
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 1 cut(s) 440
Bse118I RCCGGY 1 cut(s) 11
Bse1I ACTGG 2 cut(s) 37, 121
BseBI CCWGG 1 cut(s) 564
BseDI CCNNGG 3 cut(s) 52, 87, 519
BseGI GGATG 1 cut(s) 262
BseLI CCNNNNNNNGG 1 cut(s) 440
BseMII CTCAG 2 cut(s) 34, 345
BseNI ACTGG 2 cut(s) 37, 121
BseRI GAGGAG 2 cut(s) 136, 254
BseXI GCAGC 1 cut(s) 533
Bsh1285I CGRYCG 1 cut(s) 192
BshFI GGCC 2 cut(s) 397, 518
BsiEI CGRYCG 1 cut(s) 192
BsiHKCI CYCGRG 1 cut(s) 86
BsiSI CCGG 3 cut(s) 12, 329, 434
BslI CCNNNNNNNGG 1 cut(s) 440
BsnI GGCC 2 cut(s) 397, 518
BsoBI CYCGRG 1 cut(s) 86
Bsp1286I GDGCHC 1 cut(s) 86
Bsp143I GATC 2 cut(s) 325, 566
BspACI CCGC 2 cut(s) 153, 593
BspANI GGCC 2 cut(s) 397, 518
BspCNI CTCAG 2 cut(s) 33, 346
BspLI GGNNCC 1 cut(s) 100
BspPI GGATC 2 cut(s) 320, 574
BsrFI RCCGGY 1 cut(s) 11
BsrI ACTGG 2 cut(s) 37, 121
BssAI RCCGGY 1 cut(s) 11
BssECI CCNNGG 3 cut(s) 52, 87, 519
BssMI GATC 2 cut(s) 325, 566
BssT1I CCWWGG 2 cut(s) 52, 519
Bst2UI CCWGG 1 cut(s) 564
Bst4CI ACNGT 2 cut(s) 186, 535
Bst6I CTCTTC 1 cut(s) 605
BstC8I GCNNGC 3 cut(s) 13, 82, 516
BstDEI CTNAG 2 cut(s) 20, 354
BstF5I GGATG 1 cut(s) 262
BstKTI GATC 2 cut(s) 328, 569
BstMBI GATC 2 cut(s) 325, 566
BstMCI CGRYCG 1 cut(s) 192
BstMWI GCNNNNNNNGC 2 cut(s) 12, 107
BstNI CCWGG 1 cut(s) 564
BstNSI RCATGY 1 cut(s) 311
BstSCI CCNGG 2 cut(s) 433, 562
BstV1I GCAGC 1 cut(s) 533
BstV2I GAAGAC 1 cut(s) 531
BstX2I RGATCY 1 cut(s) 566
BstYI RGATCY 1 cut(s) 566
BsuI GTATCC 1 cut(s) 380
BsuRI GGCC 2 cut(s) 397, 518
BtsCI GGATG 1 cut(s) 262
Cac8I GCNNGC 3 cut(s) 13, 82, 516
Cfr10I RCCGGY 1 cut(s) 11
Cfr13I GGNCC 1 cut(s) 118
CseI GACGC 1 cut(s) 536
CviAII CATG 3 cut(s) 103, 308, 317
DdeI CTNAG 2 cut(s) 20, 354
DpnI GATC 2 cut(s) 327, 568
DpnII GATC 2 cut(s) 325, 566
Eam1104I CTCTTC 1 cut(s) 605
EarI CTCTTC 1 cut(s) 605
Eco130I CCWWGG 2 cut(s) 52, 519
Eco24I GRGCYC 1 cut(s) 86
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 1 cut(s) 86
ErhI CCWWGG 2 cut(s) 52, 519
FaeI CATG 3 cut(s) 106, 311, 320
FaiI YATR 7 cut(s) 104, 309, 318, 416, 420, 483, 553
FalI AAGNNNNNCTT 2 cut(s) 45, 77
FatI CATG 3 cut(s) 102, 307, 316
FblI GTMKAC 2 cut(s) 188, 216
Fnu4HI GCNGC 1 cut(s) 547
FokI GGATG 1 cut(s) 269
FriOI GRGCYC 1 cut(s) 86
Fsp4HI GCNGC 1 cut(s) 547
GluI GCNGC 1 cut(s) 547
HaeIII GGCC 2 cut(s) 397, 518
HapII CCGG 3 cut(s) 12, 329, 434
HgaI GACGC 1 cut(s) 536
Hin1II CATG 3 cut(s) 106, 311, 320
HincII GTYRAC 2 cut(s) 189, 217
HindII GTYRAC 2 cut(s) 189, 217
HindIII AAGCTT 1 cut(s) 246
HinfI GANTC 2 cut(s) 71, 400
HpaII CCGG 3 cut(s) 12, 329, 434
Hpy166II GTNNAC 2 cut(s) 189, 217
Hpy188I TCNGA 3 cut(s) 28, 98, 355
Hpy188III TCNNGA 2 cut(s) 68, 464
Hpy8I GTNNAC 2 cut(s) 189, 217
HpyAV CCTTC 3 cut(s) 52, 599, 617
HpyCH4III ACNGT 2 cut(s) 186, 535
HpyCH4V TGCA 2 cut(s) 311, 501
HpyF10VI GCNNNNNNNGC 2 cut(s) 12, 107
HpyF3I CTNAG 2 cut(s) 20, 354
Hsp92II CATG 3 cut(s) 106, 311, 320
KroI GCCGGC 1 cut(s) 11
KroNI GCCGGC 1 cut(s) 13
Kzo9I GATC 2 cut(s) 325, 566
LmnI GCTCC 3 cut(s) 98, 132, 149
Lsp1109I GCAGC 1 cut(s) 533
LweI GCATC 1 cut(s) 15
MalI GATC 2 cut(s) 327, 568
MboI GATC 2 cut(s) 325, 566
MboII GAAGA 4 cut(s) 226, 536, 592, 595
MflI RGATCY 1 cut(s) 566
MhlI GDGCHC 1 cut(s) 86
MluCI AATT 1 cut(s) 196
MmeI TCCRAC 1 cut(s) 283
MnlI CCTC 9 cut(s) 82, 99, 157, 166, 232, 388, 437, 442, 608
Mph1103I ATGCAT 1 cut(s) 313
MroNI GCCGGC 1 cut(s) 11
MseI TTAA 2 cut(s) 294, 426
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 2 cut(s) 325, 566
NgoMIV GCCGGC 1 cut(s) 11
NlaIII CATG 3 cut(s) 106, 311, 320
NlaIV GGNNCC 1 cut(s) 100
NsiI ATGCAT 1 cut(s) 313
NspI RCATGY 1 cut(s) 311
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 1 cut(s) 548
PshBI ATTAAT 1 cut(s) 294
Psp6I CCWGG 1 cut(s) 562
PspGI CCWGG 1 cut(s) 562
PspN4I GGNNCC 1 cut(s) 100
PspPI GGNCC 1 cut(s) 118
PsuI RGATCY 1 cut(s) 566
SalI GTCGAC 2 cut(s) 187, 215
SaqAI TTAA 2 cut(s) 294, 426
SatI GCNGC 1 cut(s) 547
Sau3AI GATC 2 cut(s) 325, 566
Sau96I GGNCC 1 cut(s) 118
ScrFI CCNGG 2 cut(s) 435, 564
SduI GDGCHC 1 cut(s) 86
SetI ASST 6 cut(s) 58, 250, 324, 345, 453, 600
SfaNI GCATC 1 cut(s) 15
SinI GGWCC 1 cut(s) 118
Sse9I AATT 1 cut(s) 196
SsiI CCGC 2 cut(s) 153, 593
StyD4I CCNGG 2 cut(s) 433, 562
StyI CCWWGG 2 cut(s) 52, 519
TaaI ACNGT 2 cut(s) 186, 535
TaqI TCGA 4 cut(s) 188, 216, 237, 365
TaqII GACCGA 1 cut(s) 206
TasI AATT 1 cut(s) 196
TfiI GAWTC 2 cut(s) 71, 400
Tru1I TTAA 2 cut(s) 294, 426
Tru9I TTAA 2 cut(s) 294, 426
TseI GCWGC 1 cut(s) 546
VpaK11BI GGWCC 1 cut(s) 118
VspI ATTAAT 1 cut(s) 294
XceI RCATGY 1 cut(s) 311
XmiI GTMKAC 2 cut(s) 188, 216
Zsp2I ATGCAT 1 cut(s) 313
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.