Rroxscaffold_1G00001600

Phytoene synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0016301
Physical Location & Seq
Forward (+)
1907949 .. 1910073
2125 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00001600.1

Sequence Viewer

Length: 1149 bp
ATGAGTTCTACATTTTCACTTGCACCAAAACCTTACATTAGAGAGAGCAATGGAAAACTCCTGCCCCCAAAATCTATGCTCACAACAATTAGAGCTGAAGTGATTACAGCTCCCAAGCAAAGAAACACGCGGATTTTTCCTGAACTATCAATACAAGGCATTCCTGTTGCTGATTTGCATGTACAAGAAATTGTTCAAAGGCAATCCAAGACTTACAACACAGCCAATGGAGGTACTAGCCGAAAGCCACAGTTCGATCCAAGCTTTATTGAAGAAGCGTATGAAAGGTGCAGGACCATCTGTGCAGAATATGCCAAGACATTCTATCTAGGCACTTTGCTAATGACAGAGGAGCGTCAAAAGGCAATATGGGCAATCTATGTTTGGTGCAGAAGAACAGATGAACTGGTTGATGGCCCCAATTCTGGGCACATGGACTCTGAAGTTCTTGATAGATGGGAAGAGAGACTAGAAGACATTTTTGAAGGACGACCTTATGACATGCTTGATGCTGCATTGACTCATACTGTTCTCAACTTTCCCTTAGACATTAAGCCGTTTAGGGACATGATCGAGGGTATGCGAATGGACACAAGAAAATGCCGATATCAGAATTTTCAAGAGCTCTACCTCTACTGCTACTATGTGGCTGGAACAGTTGGCCTAATGAGTGTTCCTGTAATGGGAATTGCACCAGATTCTCTGATTTCTGCTCAAAGTACATATGATGCTGCACTCTACTTGGGTATAGGGAATCAACTCACAAACATACTTAGAGATGTCGGGGAGGATACTGCGAGAGGTAGAGTTTATCTTCCCCAAGATGAGCTGGCACAGTTTGGGTTATCCGACGACGATGTTTTTTCAAGAAAGGTCACTGATCAATGGAGAGAGTTCATGAAAGAACAGATTACTAGAGCGAGATTCTATTTCAACCTGGCAGAGGAGGGTGCTTCTCAACTTGACAAGGATAGCCGTTGGCCGGTATGGTCATCGTTGCTGATATATCGAAACATCTTGGATGCAATTGAGGAAAATGATTACGATAACTTGACAAAGAGAGCATATGTGGGCAGAGCTAAGAAACTTCTCATGTTGCCTTTGGCTTACACAAAATCCCTTAATACACATAGTTTGATCTCTCAATAG

Protein Analysis

382

Amino Acids

44.03

Weight (kDa)

5.5

Isoelectric Point (pI)

46.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SQS_PSY PF00494 103 - 359 2e-73 Squalene/phytoene synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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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)
AccII CGCG 1 cut(s) 130
AciI CCGC 1 cut(s) 130
AclWI GGATC 1 cut(s) 251
AcoI YGGCCR 1 cut(s) 980
AcsI RAATTY 1 cut(s) 613
AcuI CTGAAG 2 cut(s) 117, 462
AfaI GTAC 3 cut(s) 183, 235, 721
AfiI CCNNNNNNNGG 5 cut(s) 425, 426, 683, 943, 982
AgsI TTSAA 6 cut(s) 197, 272, 485, 620, 867, 934
AjnI CCWGG 1 cut(s) 936
AluBI AGCT 6 cut(s) 95, 110, 264, 625, 829, 1079
AluI AGCT 6 cut(s) 95, 110, 264, 625, 829, 1079
Alw21I GWGCWC 1 cut(s) 627
Alw26I GTCTC 1 cut(s) 460
AlwI GGATC 1 cut(s) 251
AoxI GGCC 3 cut(s) 415, 661, 980
ApeKI GCWGC 2 cut(s) 512, 731
ApoI RAATTY 1 cut(s) 613
Asp700I GAANNNNTTC 1 cut(s) 192
AspS9I GGNCC 2 cut(s) 294, 416
AvaII GGWCC 1 cut(s) 294
BaeGI GKGCMC 1 cut(s) 432
BanII GRGCYC 1 cut(s) 627
BbsI GAAGAC 1 cut(s) 480
Bbv12I GWGCWC 1 cut(s) 627
BbvI GCAGC 2 cut(s) 499, 718
BccI CCATC 3 cut(s) 305, 407, 450
BceAI ACGGC 2 cut(s) 541, 960
BciT130I CCWGG 1 cut(s) 938
BciVI GTATCC 1 cut(s) 784
BclI TGATCA 1 cut(s) 880
BcoDI GTCTC 1 cut(s) 460
BfaI CTAG 4 cut(s) 237, 329, 470, 915
BfuI GTATCC 1 cut(s) 784
BisI GCNGC 2 cut(s) 513, 732
BlsI GCNGC 2 cut(s) 514, 733
Bme1390I CCNGG 1 cut(s) 938
Bme18I GGWCC 1 cut(s) 294
BmgT120I GGNCC 2 cut(s) 294, 416
BmiI GGNNCC 1 cut(s) 418
BmrFI CCNGG 1 cut(s) 938
BmsI GCATC 3 cut(s) 499, 718, 1012
BpiI GAAGAC 1 cut(s) 480
Bsc4I CCNNNNNNNGG 5 cut(s) 425, 426, 683, 943, 982
Bse118I RCCGGY 1 cut(s) 982
Bse1I ACTGG 1 cut(s) 411
Bse3DI GCAATG 1 cut(s) 55
BseBI CCWGG 1 cut(s) 938
BseGI GGATG 1 cut(s) 1027
BseLI CCNNNNNNNGG 5 cut(s) 425, 426, 683, 943, 982
BseMI GCAATG 1 cut(s) 55
BseNI ACTGG 1 cut(s) 411
BseRI GAGGAG 2 cut(s) 365, 959
BseSI GKGCMC 1 cut(s) 432
BseXI GCAGC 2 cut(s) 499, 718
BsgI GTGCAG 4 cut(s) 310, 324, 409, 717
Bsh1236I CGCG 1 cut(s) 130
BshFI GGCC 3 cut(s) 417, 663, 982
BsiHKAI GWGCWC 1 cut(s) 627
BsiSI CCGG 1 cut(s) 983
BslFI GGGAC 1 cut(s) 578
BslI CCNNNNNNNGG 5 cut(s) 425, 426, 683, 943, 982
BsmAI GTCTC 1 cut(s) 460
BsmFI GGGAC 1 cut(s) 578
BsmI GAATGC 1 cut(s) 159
BsnI GGCC 3 cut(s) 417, 663, 982
Bsp1286I GDGCHC 2 cut(s) 432, 627
Bsp1407I TGTACA 1 cut(s) 181
Bsp143I GATC 4 cut(s) 256, 570, 880, 1137
BspACI CCGC 1 cut(s) 130
BspANI GGCC 3 cut(s) 417, 663, 982
BspFNI CGCG 1 cut(s) 130
BspHI TCATGA 1 cut(s) 897
BspLI GGNNCC 1 cut(s) 418
BspPI GGATC 1 cut(s) 251
BsrDI GCAATG 1 cut(s) 55
BsrFI RCCGGY 1 cut(s) 982
BsrGI TGTACA 1 cut(s) 181
BsrI ACTGG 1 cut(s) 411
BssAI RCCGGY 1 cut(s) 982
BssMI GATC 4 cut(s) 256, 570, 880, 1137
Bst2UI CCWGG 1 cut(s) 938
Bst4CI ACNGT 4 cut(s) 252, 529, 658, 837
Bst6I CTCTTC 1 cut(s) 456
BstAPI GCANNNNNTGC 1 cut(s) 311
BstAUI TGTACA 1 cut(s) 181
BstC8I GCNNGC 1 cut(s) 831
BstDEI CTNAG 3 cut(s) 544, 773, 1080
BstENI CCTNNNNNAGG 1 cut(s) 941
BstF5I GGATG 1 cut(s) 1027
BstFNI CGCG 1 cut(s) 130
BstKTI GATC 4 cut(s) 259, 573, 883, 1140
BstMAI GTCTC 1 cut(s) 460
BstMBI GATC 4 cut(s) 256, 570, 880, 1137
BstMWI GCNNNNNNNGC 2 cut(s) 311, 371
BstNI CCWGG 1 cut(s) 938
BstNSI RCATGY 2 cut(s) 182, 505
BstSCI CCNGG 1 cut(s) 936
BstSLI GKGCMC 1 cut(s) 432
BstUI CGCG 1 cut(s) 130
BstV1I GCAGC 2 cut(s) 499, 718
BstV2I GAAGAC 1 cut(s) 480
BsuI GTATCC 1 cut(s) 784
BsuRI GGCC 3 cut(s) 417, 663, 982
BtsCI GGATG 1 cut(s) 1027
BtsIMutI CAGTG 1 cut(s) 876
Cac8I GCNNGC 1 cut(s) 831
CciI TCATGA 1 cut(s) 897
Cfr10I RCCGGY 1 cut(s) 982
Cfr13I GGNCC 2 cut(s) 294, 416
CseI GACGC 1 cut(s) 344
Csp6I GTAC 3 cut(s) 182, 234, 720
CviAII CATG 6 cut(s) 179, 433, 502, 568, 898, 1093
CviQI GTAC 3 cut(s) 182, 234, 720
DdeI CTNAG 3 cut(s) 544, 773, 1080
DpnI GATC 4 cut(s) 258, 572, 882, 1139
DpnII GATC 4 cut(s) 256, 570, 880, 1137
EaeI YGGCCR 1 cut(s) 980
Eam1104I CTCTTC 1 cut(s) 456
EarI CTCTTC 1 cut(s) 456
Ecl136II GAGCTC 1 cut(s) 625
Eco24I GRGCYC 1 cut(s) 627
Eco32I GATATC 1 cut(s) 608
Eco47I GGWCC 1 cut(s) 294
Eco53kI GAGCTC 1 cut(s) 625
Eco57I CTGAAG 2 cut(s) 117, 462
EcoICRI GAGCTC 1 cut(s) 625
EcoNI CCTNNNNNAGG 1 cut(s) 941
EcoRII CCWGG 1 cut(s) 936
EcoRV GATATC 1 cut(s) 608
EcoT38I GRGCYC 1 cut(s) 627
FaeI CATG 6 cut(s) 182, 436, 505, 571, 901, 1096
FaqI GGGAC 1 cut(s) 578
FatI CATG 6 cut(s) 178, 432, 501, 567, 897, 1092
FauNDI CATATG 2 cut(s) 724, 1066
FbaI TGATCA 1 cut(s) 880
Fnu4HI GCNGC 2 cut(s) 513, 732
FokI GGATG 1 cut(s) 1034
FriOI GRGCYC 1 cut(s) 627
Fsp4HI GCNGC 2 cut(s) 513, 732
FspBI CTAG 4 cut(s) 237, 329, 470, 915
GluI GCNGC 2 cut(s) 513, 732
HaeIII GGCC 3 cut(s) 417, 663, 982
HapII CCGG 1 cut(s) 983
HgaI GACGC 1 cut(s) 344
Hin1II CATG 6 cut(s) 182, 436, 505, 571, 901, 1096
HindIII AAGCTT 1 cut(s) 262
HinfI GANTC 5 cut(s) 437, 520, 698, 754, 924
HpaII CCGG 1 cut(s) 983
Hpy188I TCNGA 4 cut(s) 442, 612, 705, 850
Hpy188III TCNNGA 5 cut(s) 140, 449, 620, 867, 898
Hpy99I CGWCG 2 cut(s) 854, 857
HpyAV CCTTC 1 cut(s) 479
HpyCH4III ACNGT 4 cut(s) 252, 529, 658, 837
HpyCH4V TGCA 9 cut(s) 23, 178, 291, 305, 390, 515, 692, 734, 1025
HpyF10VI GCNNNNNNNGC 2 cut(s) 311, 371
HpyF3I CTNAG 3 cut(s) 544, 773, 1080
Hsp92II CATG 6 cut(s) 182, 436, 505, 571, 901, 1096
Ksp22I TGATCA 1 cut(s) 880
Kzo9I GATC 4 cut(s) 256, 570, 880, 1137
LmnI GCTCC 2 cut(s) 115, 352
Lsp1109I GCAGC 2 cut(s) 499, 718
LweI GCATC 3 cut(s) 499, 718, 1012
MaeI CTAG 4 cut(s) 237, 329, 470, 915
MaeIII GTNAC 1 cut(s) 874
MalI GATC 4 cut(s) 258, 572, 882, 1139
MboI GATC 4 cut(s) 256, 570, 880, 1137
MboII GAAGA 5 cut(s) 284, 405, 473, 485, 806
MfeI CAATTG 1 cut(s) 1026
MhlI GDGCHC 2 cut(s) 432, 627
MluCI AATT 6 cut(s) 87, 189, 421, 613, 687, 1026
MlyI GAGTC 2 cut(s) 431, 514
MmeI TCCRAC 1 cut(s) 873
MnlI CCTC 9 cut(s) 224, 343, 568, 641, 781, 794, 937, 940, 1024
MroXI GAANNNNTTC 1 cut(s) 192
MseI TTAA 2 cut(s) 552, 1122
MspI CCGG 1 cut(s) 983
MspR9I CCNGG 1 cut(s) 938
MunI CAATTG 1 cut(s) 1026
Mva1269I GAATGC 1 cut(s) 159
MvaI CCWGG 1 cut(s) 938
MvnI CGCG 1 cut(s) 130
MwoI GCNNNNNNNGC 2 cut(s) 311, 371
NdeI CATATG 2 cut(s) 724, 1066
NdeII GATC 4 cut(s) 256, 570, 880, 1137
NlaIII CATG 6 cut(s) 182, 436, 505, 571, 901, 1096
NlaIV GGNNCC 1 cut(s) 418
NmuCI GTSAC 1 cut(s) 874
NspI RCATGY 2 cut(s) 182, 505
PagI TCATGA 1 cut(s) 897
PctI GAATGC 1 cut(s) 159
PdmI GAANNNNTTC 1 cut(s) 192
PfeI GAWTC 3 cut(s) 698, 754, 924
PkrI GCNGC 2 cut(s) 514, 733
PleI GAGTC 2 cut(s) 431, 514
PpsI GAGTC 2 cut(s) 431, 514
Psp124BI GAGCTC 1 cut(s) 627
Psp6I CCWGG 1 cut(s) 936
PspGI CCWGG 1 cut(s) 936
PspN4I GGNNCC 1 cut(s) 418
PspPI GGNCC 2 cut(s) 294, 416
PsrI GAACNNNNNNTAC 2 cut(s) 135, 167
RsaI GTAC 3 cut(s) 183, 235, 721
RsaNI GTAC 3 cut(s) 182, 234, 720
SacI GAGCTC 1 cut(s) 627
SaqAI TTAA 2 cut(s) 552, 1122
SatI GCNGC 2 cut(s) 513, 732
Sau3AI GATC 4 cut(s) 256, 570, 880, 1137
Sau96I GGNCC 2 cut(s) 294, 416
SchI GAGTC 2 cut(s) 431, 514
ScrFI CCNGG 1 cut(s) 938
SduI GDGCHC 2 cut(s) 432, 627
SfaNI GCATC 3 cut(s) 499, 718, 1012
SinI GGWCC 1 cut(s) 294
Sse9I AATT 6 cut(s) 87, 189, 421, 613, 687, 1026
SsiI CCGC 1 cut(s) 130
SspMI CTAG 4 cut(s) 237, 329, 470, 915
SstI GAGCTC 1 cut(s) 627
StyD4I CCNGG 1 cut(s) 936
TaaI ACNGT 4 cut(s) 252, 529, 658, 837
TaqI TCGA 3 cut(s) 255, 573, 1009
TasI AATT 6 cut(s) 87, 189, 421, 613, 687, 1026
TatI WGTACW 2 cut(s) 181, 719
TfiI GAWTC 3 cut(s) 698, 754, 924
Tru1I TTAA 2 cut(s) 552, 1122
Tru9I TTAA 2 cut(s) 552, 1122
TscAI CASTG 1 cut(s) 883
TseFI GTSAC 1 cut(s) 874
TseI GCWGC 2 cut(s) 512, 731
Tsp45I GTSAC 1 cut(s) 874
TspDTI ATGAA 4 cut(s) 297, 417, 886, 914
TspRI CASTG 1 cut(s) 883
VpaK11BI GGWCC 1 cut(s) 294
XagI CCTNNNNNAGG 1 cut(s) 941
XapI RAATTY 1 cut(s) 613
XceI RCATGY 2 cut(s) 182, 505
XmnI GAANNNNTTC 1 cut(s) 192
XspI CTAG 4 cut(s) 237, 329, 470, 915
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.