MD03G1007200.v1.1

Phytoene synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0016301
Physical Location & Seq
Forward (+)
577657 .. 580180
2524 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1007200.v1.1.491

Sequence Viewer

Length: 1149 bp
ATGTGTTCTACAATTTCCTTCGCAGGAAAGACTTACATCGGAGAGAGCAATGGAAGAATTCGGCGTCGAATATCTATGGTCACAGCAGCAAAAGCTCAAGTGATTACAGCTCCCAAGCAAAGAAGCAGGCCTGTTTTTCCTGAGCTTTCGATTCAAGGCTTTCCTCTTGCTGATTTACACGTGCAAGAAATCGTTCAAAGGCAGTCTCAGACTCGTAGTGTGGACGGGGAAGGCGGCCGGCGCAGGCCGCAGTTCAACCCTAGCTTTCTTGAAGAAGCATATGAGAGGTGCAAGAACCTTTGTGCAGAATATGCCAAGACATTCTATCTAGGCACTTTACTTATGACAGAAGAGCGTCAAAAGGCAATATGGGCAATCTATGTTTGGTGTAGGAGGACAGATGAACTGGTGGATGGCCCGAATTCCGATTACATGAGCTCGGAAGTTCTTGATAGATGGGAACAGAGACTGGAAGACATTTTCGAAGGACGGCCTTATGACATGCTTGATGCTGCGCTGACTCATACCGTTTTTAATTTTCCTTTAGACATCAAGCCTTTTCGGGACATGATTGAGGGTATGCGAATGGACACGCAAAAATGCCGATACCATAATTTTCAAGAGCTCTATCTTTACTGCTACTATGTGGCAGGGACGGTCGGCCTAATGAGTGTTCCTATAATGGGAATTGCACCAGATTCTCGAATTTCTACTCAAAGTACATATGATTCTGCATTATATTTGGGCATAGGAAACCAACTCACAAACATCCTTAGAGATGTTGGAGAGGATGCAATGAGAGGAAGAGTTTATCTTCCCCAAGATGAGCTTGCGCAGTTTGGGTTGTGCGATAACGATGTTTTTTCAAGAAAAGTGACTGATCAATGGAGAGCATTCATGAAAAAACAGATTAAAAGAGCAAGGTTTTATTTCAACGTAGCAGAAGAAGGAGCTTCTCAGCTTGATAAGGCTAGCCGTTGGCCGGTATGGTCATCGTTACTGATATATCGAAACATACTAGACGCGATCGAAGACAATGATTACGATAACTTGACAAAGAGAGCGTACGTAAAGAGAGCCAAGAAACTTCTCATGCTGCCTTTGGCATACACAAGATCTCTATCAACACATAATTTGATGTCCCAATAA

Protein Analysis

383

Amino Acids

44.26

Weight (kDa)

8.54

Isoelectric Point (pI)

60.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SQS_PSY PF00494 103 - 359 1.3e-70 Squalene/phytoene synthase
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: OG0016301)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g45220
malus_domestica MD03G1007200.v1.1 MD11G1010500.v1.1
prunus_persica Prupe.6G006800_v2.0.a1
pyrus_communis pycom03g00730
rosa_chinensis RchiOBHm_Chr5g0082831
rosa_laevigata RLG00000036993
rosa_multiflora Rmu_sc0001381.1_g000014
rosa_roxburghii Rroxscaffold_1G00001600
rosa_rugosa Rorug05G0480200
rosa_samantha Rh5AG530500 Rh5BG557400 Rh5CG580400 Rh5DG565800
rosa_wichuraiana Rw5G049810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 834
AccII CGCG 1 cut(s) 1025
AciI CCGC 2 cut(s) 234, 248
AcoI YGGCCR 2 cut(s) 235, 980
AcsI RAATTY 3 cut(s) 57, 421, 705
AcvI CACGTG 1 cut(s) 181
AcyI GRCGYC 1 cut(s) 64
AfaI GTAC 2 cut(s) 721, 1067
AfiI CCNNNNNNNGG 2 cut(s) 683, 982
AflIII ACRYGT 1 cut(s) 178
AgsI TTSAA 7 cut(s) 155, 197, 256, 272, 620, 867, 934
AluBI AGCT 9 cut(s) 95, 110, 145, 264, 438, 625, 829, 953, 961
AluI AGCT 9 cut(s) 95, 110, 145, 264, 438, 625, 829, 953, 961
Alw21I GWGCWC 2 cut(s) 440, 627
Alw26I GTCTC 2 cut(s) 210, 460
AlwNI CAGNNNCTG 1 cut(s) 469
AoxI GGCC 7 cut(s) 128, 235, 245, 415, 491, 661, 980
ApeKI GCWGC 3 cut(s) 86, 512, 1096
ApoI RAATTY 3 cut(s) 57, 421, 705
Asp700I GAANNNNTTC 1 cut(s) 192
AspLEI GCGC 3 cut(s) 243, 517, 835
AspS9I GGNCC 1 cut(s) 416
AsuII TTCGAA 1 cut(s) 483
AsuNHI GCTAGC 1 cut(s) 971
BanII GRGCYC 2 cut(s) 440, 627
BbrPI CACGTG 1 cut(s) 181
BbsI GAAGAC 2 cut(s) 480, 1038
Bbv12I GWGCWC 2 cut(s) 440, 627
BbvI GCAGC 3 cut(s) 98, 499, 1083
BccI CCATC 2 cut(s) 407, 450
BceAI ACGGC 2 cut(s) 506, 960
BclI TGATCA 1 cut(s) 880
BcoDI GTCTC 2 cut(s) 210, 460
BfaI CTAG 4 cut(s) 261, 329, 972, 1019
BglII AGATCT 1 cut(s) 1115
BisI GCNGC 5 cut(s) 87, 235, 248, 513, 1097
BlsI GCNGC 5 cut(s) 88, 236, 249, 514, 1098
BmgT120I GGNCC 1 cut(s) 416
BmsI GCATC 2 cut(s) 499, 781
BmtI GCTAGC 1 cut(s) 975
BpiI GAAGAC 2 cut(s) 480, 1038
Bpu10I CCTNAGC 1 cut(s) 141
Bpu14I TTCGAA 1 cut(s) 483
BpuEI CTTGAG 1 cut(s) 81
BsaAI YACGTR 2 cut(s) 181, 1069
BsaBI GATNNNNATC 1 cut(s) 1120
BsaHI GRCGYC 1 cut(s) 64
Bsc4I CCNNNNNNNGG 2 cut(s) 683, 982
Bse118I RCCGGY 2 cut(s) 237, 982
Bse1I ACTGG 2 cut(s) 411, 474
Bse3DI GCAATG 2 cut(s) 55, 801
Bse8I GATNNNNATC 1 cut(s) 1120
BseGI GGATG 3 cut(s) 418, 768, 796
BseJI GATNNNNATC 1 cut(s) 1120
BseLI CCNNNNNNNGG 2 cut(s) 683, 982
BseMI GCAATG 2 cut(s) 55, 801
BseMII CTCAG 3 cut(s) 132, 221, 971
BseNI ACTGG 2 cut(s) 411, 474
BseX3I CGGCCG 1 cut(s) 235
BseXI GCAGC 3 cut(s) 98, 499, 1083
BsgI GTGCAG 1 cut(s) 324
Bsh1236I CGCG 1 cut(s) 1025
Bsh1285I CGRYCG 3 cut(s) 238, 660, 1029
BshFI GGCC 7 cut(s) 130, 237, 247, 417, 493, 663, 982
BsiEI CGRYCG 3 cut(s) 238, 660, 1029
BsiHKAI GWGCWC 2 cut(s) 440, 627
BsiSI CCGG 2 cut(s) 238, 983
BsiWI CGTACG 1 cut(s) 1065
BslFI GGGAC 3 cut(s) 578, 667, 1126
BslI CCNNNNNNNGG 2 cut(s) 683, 982
BsmAI GTCTC 2 cut(s) 210, 460
BsmFI GGGAC 3 cut(s) 578, 667, 1126
BsmI GAATGC 1 cut(s) 893
BsnI GGCC 7 cut(s) 130, 237, 247, 417, 493, 663, 982
Bsp119I TTCGAA 1 cut(s) 483
Bsp1286I GDGCHC 2 cut(s) 440, 627
Bsp143I GATC 3 cut(s) 880, 1026, 1115
BspACI CCGC 2 cut(s) 234, 248
BspANI GGCC 7 cut(s) 130, 237, 247, 417, 493, 663, 982
BspCNI CTCAG 3 cut(s) 133, 220, 970
BspFNI CGCG 1 cut(s) 1025
BspHI TCATGA 1 cut(s) 897
BspOI GCTAGC 1 cut(s) 975
BspQI GCTCTTC 1 cut(s) 345
BspT104I TTCGAA 1 cut(s) 483
BsrDI GCAATG 2 cut(s) 55, 801
BsrFI RCCGGY 2 cut(s) 237, 982
BsrI ACTGG 2 cut(s) 411, 474
BssAI RCCGGY 2 cut(s) 237, 982
BssMI GATC 3 cut(s) 880, 1026, 1115
BssNI GRCGYC 1 cut(s) 64
Bst4CI ACNGT 2 cut(s) 529, 658
Bst6I CTCTTC 2 cut(s) 345, 799
BstACI GRCGYC 1 cut(s) 64
BstAPI GCANNNNNTGC 1 cut(s) 311
BstBAI YACGTR 2 cut(s) 181, 1069
BstBI TTCGAA 1 cut(s) 483
BstC8I GCNNGC 5 cut(s) 128, 239, 245, 831, 973
BstDEI CTNAG 4 cut(s) 141, 207, 773, 957
BstF5I GGATG 3 cut(s) 418, 768, 796
BstFNI CGCG 1 cut(s) 1025
BstHHI GCGC 3 cut(s) 243, 517, 835
BstKTI GATC 3 cut(s) 883, 1029, 1118
BstMAI GTCTC 2 cut(s) 210, 460
BstMBI GATC 3 cut(s) 880, 1026, 1115
BstMCI CGRYCG 3 cut(s) 238, 660, 1029
BstMWI GCNNNNNNNGC 5 cut(s) 92, 240, 247, 311, 371
BstNSI RCATGY 1 cut(s) 505
BstSNI TACGTA 1 cut(s) 1069
BstUI CGCG 1 cut(s) 1025
BstV1I GCAGC 3 cut(s) 98, 499, 1083
BstV2I GAAGAC 2 cut(s) 480, 1038
BstX2I RGATCY 1 cut(s) 1115
BstYI RGATCY 1 cut(s) 1115
BstZI CGGCCG 1 cut(s) 235
BsuRI GGCC 7 cut(s) 130, 237, 247, 417, 493, 663, 982
BtsCI GGATG 3 cut(s) 418, 768, 796
Cac8I GCNNGC 5 cut(s) 128, 239, 245, 831, 973
CaiI CAGNNNCTG 1 cut(s) 469
CciI TCATGA 1 cut(s) 897
CfoI GCGC 3 cut(s) 243, 517, 835
Cfr10I RCCGGY 2 cut(s) 237, 982
Cfr13I GGNCC 1 cut(s) 416
CseI GACGC 3 cut(s) 53, 344, 1031
Csp6I GTAC 2 cut(s) 720, 1066
CviAII CATG 5 cut(s) 433, 502, 568, 898, 1093
CviQI GTAC 2 cut(s) 720, 1066
DdeI CTNAG 4 cut(s) 141, 207, 773, 957
DpnI GATC 3 cut(s) 882, 1028, 1117
DpnII GATC 3 cut(s) 880, 1026, 1115
EaeI YGGCCR 2 cut(s) 235, 980
EagI CGGCCG 1 cut(s) 235
Eam1104I CTCTTC 2 cut(s) 345, 799
EarI CTCTTC 2 cut(s) 345, 799
Ecl136II GAGCTC 2 cut(s) 438, 625
EclXI CGGCCG 1 cut(s) 235
Eco105I TACGTA 1 cut(s) 1069
Eco147I AGGCCT 1 cut(s) 130
Eco24I GRGCYC 2 cut(s) 440, 627
Eco52I CGGCCG 1 cut(s) 235
Eco53kI GAGCTC 2 cut(s) 438, 625
Eco72I CACGTG 1 cut(s) 181
EcoICRI GAGCTC 2 cut(s) 438, 625
EcoRI GAATTC 2 cut(s) 57, 421
EcoT38I GRGCYC 2 cut(s) 440, 627
FaeI CATG 5 cut(s) 436, 505, 571, 901, 1096
FalI AAGNNNNNCTT 2 cut(s) 813, 845
FaqI GGGAC 3 cut(s) 578, 667, 1126
FatI CATG 5 cut(s) 432, 501, 567, 897, 1092
FauNDI CATATG 2 cut(s) 280, 724
FbaI TGATCA 1 cut(s) 880
Fnu4HI GCNGC 5 cut(s) 87, 235, 248, 513, 1097
FokI GGATG 3 cut(s) 425, 755, 803
FriOI GRGCYC 2 cut(s) 440, 627
Fsp4HI GCNGC 5 cut(s) 87, 235, 248, 513, 1097
FspBI CTAG 4 cut(s) 261, 329, 972, 1019
FspI TGCGCA 1 cut(s) 834
GlaI GCGC 3 cut(s) 242, 516, 834
GluI GCNGC 5 cut(s) 87, 235, 248, 513, 1097
HaeIII GGCC 7 cut(s) 130, 237, 247, 417, 493, 663, 982
HapII CCGG 2 cut(s) 238, 983
HgaI GACGC 3 cut(s) 53, 344, 1031
HhaI GCGC 3 cut(s) 243, 517, 835
Hin1I GRCGYC 1 cut(s) 64
Hin1II CATG 5 cut(s) 436, 505, 571, 901, 1096
Hin6I GCGC 3 cut(s) 241, 515, 833
HinP1I GCGC 3 cut(s) 241, 515, 833
HinfI GANTC 5 cut(s) 151, 211, 520, 698, 728
HpaII CCGG 2 cut(s) 238, 983
Hpy166II GTNNAC 1 cut(s) 223
Hpy188I TCNGA 4 cut(s) 41, 210, 427, 442
Hpy188III TCNNGA 8 cut(s) 140, 269, 449, 563, 620, 702, 867, 898
Hpy8I GTNNAC 1 cut(s) 223
Hpy99I CGWCG 1 cut(s) 69
HpyAV CCTTC 4 cut(s) 28, 224, 479, 941
HpyCH4III ACNGT 2 cut(s) 529, 658
HpyCH4IV ACGT 3 cut(s) 180, 936, 1068
HpyCH4V TGCA 6 cut(s) 184, 291, 305, 692, 734, 794
HpyF10VI GCNNNNNNNGC 5 cut(s) 92, 240, 247, 311, 371
HpyF3I CTNAG 4 cut(s) 141, 207, 773, 957
HpySE526I ACGT 3 cut(s) 180, 936, 1068
Hsp92I GRCGYC 1 cut(s) 64
Hsp92II CATG 5 cut(s) 436, 505, 571, 901, 1096
HspAI GCGC 3 cut(s) 241, 515, 833
KroI GCCGGC 1 cut(s) 237
KroNI GCCGGC 1 cut(s) 239
Ksp22I TGATCA 1 cut(s) 880
Kzo9I GATC 3 cut(s) 880, 1026, 1115
LguI GCTCTTC 1 cut(s) 345
LmnI GCTCC 2 cut(s) 115, 950
Lsp1109I GCAGC 3 cut(s) 98, 499, 1083
LweI GCATC 2 cut(s) 499, 781
MaeI CTAG 4 cut(s) 261, 329, 972, 1019
MaeII ACGT 3 cut(s) 180, 936, 1068
MaeIII GTNAC 3 cut(s) 79, 874, 996
MalI GATC 3 cut(s) 882, 1028, 1117
MboI GATC 3 cut(s) 880, 1026, 1115
MboII GAAGA 8 cut(s) 66, 284, 362, 485, 806, 816, 956, 1043
MflI RGATCY 1 cut(s) 1115
MhlI GDGCHC 2 cut(s) 440, 627
MluCI AATT 8 cut(s) 12, 57, 421, 535, 613, 687, 705, 1132
MlyI GAGTC 2 cut(s) 205, 514
MmeI TCCRAC 1 cut(s) 763
MnlI CCTC 6 cut(s) 174, 279, 387, 568, 781, 794
MroNI GCCGGC 1 cut(s) 237
MroXI GAANNNNTTC 1 cut(s) 192
MseI TTAA 2 cut(s) 534, 912
MspI CCGG 2 cut(s) 238, 983
Mva1269I GAATGC 1 cut(s) 893
MvnI CGCG 1 cut(s) 1025
MwoI GCNNNNNNNGC 5 cut(s) 92, 240, 247, 311, 371
NaeI GCCGGC 1 cut(s) 239
NdeI CATATG 2 cut(s) 280, 724
NdeII GATC 3 cut(s) 880, 1026, 1115
NgoMIV GCCGGC 1 cut(s) 237
NheI GCTAGC 1 cut(s) 971
NlaIII CATG 5 cut(s) 436, 505, 571, 901, 1096
NmuCI GTSAC 2 cut(s) 79, 874
NsbI TGCGCA 1 cut(s) 834
NspI RCATGY 1 cut(s) 505
NspV TTCGAA 1 cut(s) 483
PagI TCATGA 1 cut(s) 897
PceI AGGCCT 1 cut(s) 130
PciSI GCTCTTC 1 cut(s) 345
PctI GAATGC 1 cut(s) 893
PdiI GCCGGC 1 cut(s) 239
PdmI GAANNNNTTC 1 cut(s) 192
PfeI GAWTC 3 cut(s) 151, 698, 728
Pfl23II CGTACG 1 cut(s) 1065
PkrI GCNGC 5 cut(s) 88, 236, 249, 514, 1098
Ple19I CGATCG 1 cut(s) 1029
PleI GAGTC 2 cut(s) 205, 514
PmaCI CACGTG 1 cut(s) 181
PmlI CACGTG 1 cut(s) 181
PpsI GAGTC 2 cut(s) 205, 514
Ppu21I YACGTR 2 cut(s) 181, 1069
Psp124BI GAGCTC 2 cut(s) 440, 627
PspCI CACGTG 1 cut(s) 181
PspLI CGTACG 1 cut(s) 1065
PspPI GGNCC 1 cut(s) 416
PstNI CAGNNNCTG 1 cut(s) 469
PsuI RGATCY 1 cut(s) 1115
PvuI CGATCG 1 cut(s) 1029
RsaI GTAC 2 cut(s) 721, 1067
RsaNI GTAC 2 cut(s) 720, 1066
SacI GAGCTC 2 cut(s) 440, 627
SapI GCTCTTC 1 cut(s) 345
SaqAI TTAA 2 cut(s) 534, 912
SatI GCNGC 5 cut(s) 87, 235, 248, 513, 1097
Sau3AI GATC 3 cut(s) 880, 1026, 1115
Sau96I GGNCC 1 cut(s) 416
SchI GAGTC 2 cut(s) 205, 514
SduI GDGCHC 2 cut(s) 440, 627
SfaNI GCATC 2 cut(s) 499, 781
SfuI TTCGAA 1 cut(s) 483
SmlI CTYRAG 1 cut(s) 96
SmoI CTYRAG 1 cut(s) 96
SnaBI TACGTA 1 cut(s) 1069
Sse9I AATT 8 cut(s) 12, 57, 421, 535, 613, 687, 705, 1132
SseBI AGGCCT 1 cut(s) 130
SsiI CCGC 2 cut(s) 234, 248
SspMI CTAG 4 cut(s) 261, 329, 972, 1019
SstI GAGCTC 2 cut(s) 440, 627
StuI AGGCCT 1 cut(s) 130
TaaI ACNGT 2 cut(s) 529, 658
TaiI ACGT 3 cut(s) 183, 939, 1071
TaqI TCGA 6 cut(s) 67, 149, 483, 703, 1009, 1029
TasI AATT 8 cut(s) 12, 57, 421, 535, 613, 687, 705, 1132
TatI WGTACW 1 cut(s) 719
TauI GCSGC 2 cut(s) 237, 250
TfiI GAWTC 3 cut(s) 151, 698, 728
Tru1I TTAA 2 cut(s) 534, 912
Tru9I TTAA 2 cut(s) 534, 912
TseFI GTSAC 2 cut(s) 79, 874
TseI GCWGC 3 cut(s) 86, 512, 1096
Tsp45I GTSAC 2 cut(s) 79, 874
TspDTI ATGAA 3 cut(s) 417, 886, 914
XapI RAATTY 3 cut(s) 57, 421, 705
XceI RCATGY 1 cut(s) 505
XmnI GAANNNNTTC 1 cut(s) 192
XspI CTAG 4 cut(s) 261, 329, 972, 1019
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.