MD13G1023900.v1.1

Phytanoyl-CoA dioxygenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0014313
Physical Location & Seq
Reverse (-)
1703574 .. 1706781
3208 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1023900.v1.1.491

Sequence Viewer

Length: 873 bp
ATGGGAATCGTCGGAAATCTCAGTCCTGACCAGCTCCGGACCTTCCACTCCCAAGGTTATCTTGTGATGGAATCGTTTGCGAGCGCGGAGGACATCGAGGCCATGAGGAACCGAATGGACCAATTGCTCCAGGACTTTGACTGCTCTTCCACCGCCTCTATTTTCTCCACCACCAACCAGCAGTCTACTGACAATTACTTCTATGATAGCGTTGACATAATTTCGTTTTTCTTCGAAGAGAAAGCTTTTGGGAGTGATGGAGAACTGCGACAGCCGAAGGAACTTTCGATTAACAAAGTTGGCCATGCATTACATGAGCTCGATCCAGTATTTAAAGGGTTCACCTTTTCCGAAAAAGTTTCAGGCTTGTTCATCTCCTTGGGTTACAAAAGGCCCATTGTCATTCAGTCTATGTACATTTTCAAGCAACCAGGAATCGGAGGTGAGGTAGTGCCACATCAGGATAACTCATTTCTTTATACCGATCCACCAACTTGCACAGGGCTGTGGCTGGCTTTAGAAGATGCAACAATAACGAATGGCTGCCTATGGGCTATTCCTGGATCTCAAAAGAATGGGCTTGTGAGACGGTTCATTAGAGGTGAAGACGGTGTGACCTTTGATCGGCCTTCCCCTGAGTATGATCAAAAGGATTTTGTTCCCATCGAAGTGAAAGCTGGGTCTTTAGTTGTTATTCACGGTGATCTTATTCATCAAAGTTTCGAGAACCAATCCTTAAAATCAAGGCACGCGTACAGCTTGCACGTGGTGGATACCGATGGCTGCAGATGGTCTCAAGATAACTGGATCAGGAGAAAAGTGGAGCCAGAGCCTCTGTACGTATCTTCTTCTGACCTGAAACTTGATCTCTAG

Protein Analysis

291

Amino Acids

32.72

Weight (kDa)

4.95

Isoelectric Point (pI)

52.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PhyH PF05721 15 - 251 1.5e-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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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)
AccI GTMKAC 1 cut(s) 185
AccII CGCG 2 cut(s) 86, 752
AccIII TCCGGA 1 cut(s) 36
AciI CCGC 2 cut(s) 86, 153
AclWI GGATC 4 cut(s) 317, 479, 571, 815
AcoI YGGCCR 1 cut(s) 301
AcvI CACGTG 1 cut(s) 766
AdeI CACNNNGTG 1 cut(s) 769
AfaI GTAC 3 cut(s) 416, 755, 839
AfiI CCNNNNNNNGG 2 cut(s) 437, 624
AflIII ACRYGT 1 cut(s) 750
AgsI TTSAA 1 cut(s) 424
AjnI CCWGG 3 cut(s) 129, 430, 559
AluBI AGCT 5 cut(s) 34, 245, 319, 677, 759
AluI AGCT 5 cut(s) 34, 245, 319, 677, 759
Alw21I GWGCWC 1 cut(s) 321
Alw26I GTCTC 2 cut(s) 580, 798
AlwI GGATC 4 cut(s) 317, 479, 571, 815
Aor13HI TCCGGA 1 cut(s) 36
AoxI GGCC 4 cut(s) 99, 301, 392, 626
ApeKI GCWGC 2 cut(s) 543, 783
AspLEI GCGC 1 cut(s) 86
AspS9I GGNCC 3 cut(s) 39, 118, 393
AsuHPI GGTGA 4 cut(s) 334, 455, 614, 713
AsuII TTCGAA 1 cut(s) 234
AvaII GGWCC 2 cut(s) 39, 118
BalI TGGCCA 1 cut(s) 303
BanII GRGCYC 1 cut(s) 321
BbrPI CACGTG 1 cut(s) 766
BbsI GAAGAC 1 cut(s) 612
Bbv12I GWGCWC 1 cut(s) 321
BbvI GCAGC 2 cut(s) 530, 770
BccI CCATC 5 cut(s) 61, 251, 671, 773, 783
BciT130I CCWGG 3 cut(s) 131, 432, 561
BciVI GTATCC 1 cut(s) 766
BclI TGATCA 1 cut(s) 643
BcoDI GTCTC 2 cut(s) 580, 798
BfaI CTAG 1 cut(s) 871
BfmI CTRYAG 1 cut(s) 784
BfuI GTATCC 1 cut(s) 766
BisI GCNGC 2 cut(s) 544, 784
BlsI GCNGC 2 cut(s) 545, 785
Bme1390I CCNGG 3 cut(s) 131, 432, 561
Bme18I GGWCC 2 cut(s) 39, 118
BmgT120I GGNCC 3 cut(s) 39, 118, 393
BmiI GGNNCC 2 cut(s) 110, 825
BmrFI CCNGG 3 cut(s) 131, 432, 561
BmsI GCATC 1 cut(s) 514
BpiI GAAGAC 1 cut(s) 612
BpmI CTGGAG 1 cut(s) 113
Bpu14I TTCGAA 1 cut(s) 234
BpuEI CTTGAG 1 cut(s) 780
BsaAI YACGTR 2 cut(s) 766, 841
BsaI GGTCTC 1 cut(s) 798
BsaJI CCNNGG 2 cut(s) 52, 378
BsaWI WCCGGW 1 cut(s) 36
BsaXI ACNNNNNCTCC 2 cut(s) 432, 462
Bsc4I CCNNNNNNNGG 2 cut(s) 437, 624
Bse1I ACTGG 2 cut(s) 326, 809
BseAI TCCGGA 1 cut(s) 36
BseBI CCWGG 3 cut(s) 131, 432, 561
BseDI CCNNGG 2 cut(s) 52, 378
BseLI CCNNNNNNNGG 2 cut(s) 437, 624
BseMII CTCAG 2 cut(s) 34, 627
BseNI ACTGG 2 cut(s) 326, 809
BseXI GCAGC 2 cut(s) 530, 770
BseYI CCCAGC 1 cut(s) 677
Bsh1236I CGCG 2 cut(s) 86, 752
BshFI GGCC 4 cut(s) 101, 303, 394, 628
BsiHKAI GWGCWC 1 cut(s) 321
BsiSI CCGG 1 cut(s) 37
BslI CCNNNNNNNGG 2 cut(s) 437, 624
BsmAI GTCTC 2 cut(s) 580, 798
BsmBI CGTCTC 1 cut(s) 580
BsnI GGCC 4 cut(s) 101, 303, 394, 628
Bso31I GGTCTC 1 cut(s) 798
Bsp119I TTCGAA 1 cut(s) 234
Bsp1286I GDGCHC 1 cut(s) 321
Bsp13I TCCGGA 1 cut(s) 36
Bsp1407I TGTACA 1 cut(s) 414
Bsp143I GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
BspACI CCGC 2 cut(s) 86, 153
BspANI GGCC 4 cut(s) 101, 303, 394, 628
BspCNI CTCAG 2 cut(s) 33, 628
BspEI TCCGGA 1 cut(s) 36
BspFNI CGCG 2 cut(s) 86, 752
BspLI GGNNCC 2 cut(s) 110, 825
BspMAI CTGCAG 1 cut(s) 788
BspPI GGATC 4 cut(s) 317, 479, 571, 815
BspQI GCTCTTC 1 cut(s) 151
BspT104I TTCGAA 1 cut(s) 234
BspTNI GGTCTC 1 cut(s) 798
BsrGI TGTACA 1 cut(s) 414
BsrI ACTGG 2 cut(s) 326, 809
BssECI CCNNGG 2 cut(s) 52, 378
BssMI GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
BssT1I CCWWGG 2 cut(s) 52, 378
Bst2UI CCWGG 3 cut(s) 131, 432, 561
Bst4CI ACNGT 3 cut(s) 591, 611, 701
Bst6I CTCTTC 2 cut(s) 151, 231
BstAUI TGTACA 1 cut(s) 414
BstBAI YACGTR 2 cut(s) 766, 841
BstBI TTCGAA 1 cut(s) 234
BstC8I GCNNGC 4 cut(s) 82, 513, 750, 761
BstDEI CTNAG 2 cut(s) 20, 636
BstFNI CGCG 2 cut(s) 86, 752
BstHHI GCGC 1 cut(s) 86
BstKTI GATC 8 cut(s) 325, 487, 566, 625, 646, 706, 810, 868
BstMAI GTCTC 2 cut(s) 580, 798
BstMBI GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
BstNI CCWGG 3 cut(s) 131, 432, 561
BstSCI CCNGG 3 cut(s) 129, 430, 559
BstSFI CTRYAG 1 cut(s) 784
BstSNI TACGTA 1 cut(s) 841
BstUI CGCG 2 cut(s) 86, 752
BstV1I GCAGC 2 cut(s) 530, 770
BstV2I GAAGAC 1 cut(s) 612
BstX2I RGATCY 1 cut(s) 563
BstYI RGATCY 1 cut(s) 563
BsuI GTATCC 1 cut(s) 766
BsuRI GGCC 4 cut(s) 101, 303, 394, 628
Cac8I GCNNGC 4 cut(s) 82, 513, 750, 761
CfoI GCGC 1 cut(s) 86
Cfr13I GGNCC 3 cut(s) 39, 118, 393
Csp6I GTAC 3 cut(s) 415, 754, 838
CviAII CATG 3 cut(s) 103, 305, 314
CviQI GTAC 3 cut(s) 415, 754, 838
DdeI CTNAG 2 cut(s) 20, 636
DpnI GATC 8 cut(s) 324, 486, 565, 624, 645, 705, 809, 867
DpnII GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
DraI TTTAAA 1 cut(s) 334
DraIII CACNNNGTG 1 cut(s) 769
EaeI YGGCCR 1 cut(s) 301
Eam1104I CTCTTC 2 cut(s) 151, 231
EarI CTCTTC 2 cut(s) 151, 231
Ecl136II GAGCTC 1 cut(s) 319
Eco105I TACGTA 1 cut(s) 841
Eco130I CCWWGG 2 cut(s) 52, 378
Eco24I GRGCYC 1 cut(s) 321
Eco31I GGTCTC 1 cut(s) 798
Eco47I GGWCC 2 cut(s) 39, 118
Eco53kI GAGCTC 1 cut(s) 319
Eco72I CACGTG 1 cut(s) 766
EcoICRI GAGCTC 1 cut(s) 319
EcoRII CCWGG 3 cut(s) 129, 430, 559
EcoT14I CCWWGG 2 cut(s) 52, 378
EcoT22I ATGCAT 1 cut(s) 310
EcoT38I GRGCYC 1 cut(s) 321
ErhI CCWWGG 2 cut(s) 52, 378
Esp3I CGTCTC 1 cut(s) 580
FaeI CATG 3 cut(s) 106, 308, 317
FaiI YATR 9 cut(s) 104, 204, 218, 306, 315, 413, 480, 550, 642
FalI AAGNNNNNCTT 2 cut(s) 45, 77
FatI CATG 3 cut(s) 102, 304, 313
FbaI TGATCA 1 cut(s) 643
FblI GTMKAC 1 cut(s) 185
Fnu4HI GCNGC 2 cut(s) 544, 784
FriOI GRGCYC 1 cut(s) 321
Fsp4HI GCNGC 2 cut(s) 544, 784
FspBI CTAG 1 cut(s) 871
GlaI GCGC 1 cut(s) 85
GluI GCNGC 2 cut(s) 544, 784
GsaI CCCAGC 1 cut(s) 681
GsuI CTGGAG 1 cut(s) 113
HaeIII GGCC 4 cut(s) 101, 303, 394, 628
HapII CCGG 1 cut(s) 37
HhaI GCGC 1 cut(s) 86
Hin1II CATG 3 cut(s) 106, 308, 317
Hin6I GCGC 1 cut(s) 84
HinP1I GCGC 1 cut(s) 84
HincII GTYRAC 1 cut(s) 214
HindII GTYRAC 1 cut(s) 214
HindIII AAGCTT 1 cut(s) 243
HinfI GANTC 3 cut(s) 6, 71, 435
HpaII CCGG 1 cut(s) 37
HphI GGTGA 4 cut(s) 334, 455, 614, 713
Hpy166II GTNNAC 3 cut(s) 186, 214, 342
Hpy188I TCNGA 4 cut(s) 14, 352, 440, 853
Hpy188III TCNNGA 6 cut(s) 26, 37, 461, 724, 797, 811
Hpy8I GTNNAC 3 cut(s) 186, 214, 342
Hpy99I CGWCG 1 cut(s) 14
HpyAV CCTTC 3 cut(s) 52, 271, 639
HpyCH4III ACNGT 3 cut(s) 591, 611, 701
HpyCH4IV ACGT 2 cut(s) 765, 840
HpyCH4V TGCA 5 cut(s) 308, 498, 527, 763, 786
HpyF3I CTNAG 2 cut(s) 20, 636
HpySE526I ACGT 2 cut(s) 765, 840
Hsp92II CATG 3 cut(s) 106, 308, 317
HspAI GCGC 1 cut(s) 84
Kpn2I TCCGGA 1 cut(s) 36
Ksp22I TGATCA 1 cut(s) 643
Kzo9I GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
LguI GCTCTTC 1 cut(s) 151
LmnI GCTCC 3 cut(s) 39, 132, 823
Lsp1109I GCAGC 2 cut(s) 530, 770
LweI GCATC 1 cut(s) 514
MaeI CTAG 1 cut(s) 871
MaeII ACGT 2 cut(s) 765, 840
MaeIII GTNAC 2 cut(s) 383, 613
MalI GATC 8 cut(s) 324, 486, 565, 624, 645, 705, 809, 867
MboI GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
MboII GAAGA 7 cut(s) 138, 223, 248, 533, 617, 837, 840
MfeI CAATTG 1 cut(s) 122
MflI RGATCY 1 cut(s) 563
MhlI GDGCHC 1 cut(s) 321
MlsI TGGCCA 1 cut(s) 303
MluCI AATT 3 cut(s) 122, 193, 219
MluI ACGCGT 1 cut(s) 750
MluNI TGGCCA 1 cut(s) 303
MnlI CCTC 8 cut(s) 82, 91, 99, 166, 434, 439, 593, 843
Mox20I TGGCCA 1 cut(s) 303
Mph1103I ATGCAT 1 cut(s) 310
MroI TCCGGA 1 cut(s) 36
MscI TGGCCA 1 cut(s) 303
MseI TTAA 3 cut(s) 291, 333, 737
MslI CAYNNNNRTG 1 cut(s) 668
Msp20I TGGCCA 1 cut(s) 303
MspI CCGG 1 cut(s) 37
MspR9I CCNGG 3 cut(s) 131, 432, 561
MunI CAATTG 1 cut(s) 122
MvaI CCWGG 3 cut(s) 131, 432, 561
MvnI CGCG 2 cut(s) 86, 752
NdeII GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
NlaIII CATG 3 cut(s) 106, 308, 317
NlaIV GGNNCC 2 cut(s) 110, 825
NmuCI GTSAC 1 cut(s) 613
NsiI ATGCAT 1 cut(s) 310
NspV TTCGAA 1 cut(s) 234
PciSI GCTCTTC 1 cut(s) 151
PfeI GAWTC 3 cut(s) 6, 71, 435
PfoI TCCNGGA 2 cut(s) 129, 559
PkrI GCNGC 2 cut(s) 545, 785
PmaCI CACGTG 1 cut(s) 766
PmlI CACGTG 1 cut(s) 766
Ppu21I YACGTR 2 cut(s) 766, 841
Psp124BI GAGCTC 1 cut(s) 321
Psp6I CCWGG 3 cut(s) 129, 430, 559
PspCI CACGTG 1 cut(s) 766
PspFI CCCAGC 1 cut(s) 677
PspGI CCWGG 3 cut(s) 129, 430, 559
PspN4I GGNNCC 2 cut(s) 110, 825
PspPI GGNCC 3 cut(s) 39, 118, 393
PstI CTGCAG 1 cut(s) 788
PsuI RGATCY 1 cut(s) 563
RsaI GTAC 3 cut(s) 416, 755, 839
RsaNI GTAC 3 cut(s) 415, 754, 838
RseI CAYNNNNRTG 1 cut(s) 668
SacI GAGCTC 1 cut(s) 321
SapI GCTCTTC 1 cut(s) 151
SaqAI TTAA 3 cut(s) 291, 333, 737
SatI GCNGC 2 cut(s) 544, 784
Sau3AI GATC 8 cut(s) 322, 484, 563, 622, 643, 703, 807, 865
Sau96I GGNCC 3 cut(s) 39, 118, 393
ScrFI CCNGG 3 cut(s) 131, 432, 561
SduI GDGCHC 1 cut(s) 321
SfaNI GCATC 1 cut(s) 514
SfcI CTRYAG 1 cut(s) 784
SfuI TTCGAA 1 cut(s) 234
SinI GGWCC 2 cut(s) 39, 118
SmiMI CAYNNNNRTG 1 cut(s) 668
SmlI CTYRAG 1 cut(s) 795
SmoI CTYRAG 1 cut(s) 795
SnaBI TACGTA 1 cut(s) 841
Sse9I AATT 3 cut(s) 122, 193, 219
SsiI CCGC 2 cut(s) 86, 153
SspMI CTAG 1 cut(s) 871
SstI GAGCTC 1 cut(s) 321
StyD4I CCNGG 3 cut(s) 129, 430, 559
StyI CCWWGG 2 cut(s) 52, 378
TaaI ACNGT 3 cut(s) 591, 611, 701
TaiI ACGT 2 cut(s) 768, 843
TaqI TCGA 6 cut(s) 96, 234, 287, 321, 666, 723
TasI AATT 3 cut(s) 122, 193, 219
TatI WGTACW 1 cut(s) 414
TfiI GAWTC 3 cut(s) 6, 71, 435
Tru1I TTAA 3 cut(s) 291, 333, 737
Tru9I TTAA 3 cut(s) 291, 333, 737
TseFI GTSAC 1 cut(s) 613
TseI GCWGC 2 cut(s) 543, 783
Tsp45I GTSAC 1 cut(s) 613
TspDTI ATGAA 3 cut(s) 361, 583, 701
VpaK11BI GGWCC 2 cut(s) 39, 118
XmiI GTMKAC 1 cut(s) 185
XspI CTAG 1 cut(s) 871
Zsp2I ATGCAT 1 cut(s) 310
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.