Rroxscaffold_7G00200960

Squalene synthase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0012919
Physical Location & Seq
Reverse (-)
48439168 .. 48447707
8540 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00200960.1

Sequence Viewer

Length: 1242 bp
ATGGGTACTTTGGGGGCTATGCTGAAACACCCAGATGACATTTACCCTCTTTTGAAGCTCAAAATGGCGTCCAGGCACATCGAGAAGCAGATCCCTCCCGAGCCTCATTGGGCTTTCTGCTACACCATGCTTCACAAGGTCTCCAGGAGCTTTGCTCTCGTTATTCAGCAGCTCGGTACGGAGCTCCGTAATGCTGTTTGTATTTTTTATCTGGTTCTTCGAGCTCTAGACACTGTTGAGGATGATACAGCCATAGAGACAGACGTCAAACTTCCTATCCTGATAGATTTCCACCGTCTTATATATGATCCCAAGTGGCATTTTGCATGTGGTACAAAGGAGTACAAAGTTCTCATGGACGAGTTTCATCATGTTTCAACTGCTTTTCTGGAACTTGGGAAGGGTTATCAGGAGGCAATTGAGGATATTACAAAAAGAATGGGAGCAGGGATGGCAAAGTTTATCTGCAAGGAGGTAGAAACAGTTGATGACTATGATGAGTACTGCCACTATGTGGCAGGACTTGTTGGTTTAGGTTTGTCCAAGCTTTTCCATGCTGCTGAATTGGAAGATTTGGCTACGGATGAACTCTCAAATTCAATGGGCTTGTTTCTTCAGAAAACAAACATTATTCGAGATTATCTGGAGGATATTAATGAGATACCCAAGTCACGTATGTTTTGGCCCCGCCAGATCTGGAGTAAATATGTTAACAAACTTGAGGACTTGAAATATGAGGAAAACTCAGACAAGGCAGTGGAATGTCTGAATGACATGGTCACTAATGCTTTGATACATATGGAAGACTGCTTGAAGTACATGTCTGCTTTGAGAGATCCTGCTATATTTAAGTTTTGTGCTATCCCTCAGATCATGGCAATTGGCACACTAGCACTATGCTACAACAACATTGAGGTTTTCAGAGGTGTGGTGAAAATGAGGCGTGGTCTTACAGCAAAAGTCATTGACAGAACAAGAACAATGGCTGATGTCTATGTCGCTTTCTATGATTTTTCGTCCATTCTAAAGTCCAAGGTTGACAAGAAGGATCCTAATGCTACAAAAACATTGAGCAGACTGGAATCAGTGCAGAAAACATGCAGGGACTCTGGAGCCCTTACCAACAGCGGGAAATCATATATAGTCAAGAGTGAGCAAAGTTACAATTCAGCTCTGATTATGGTGATGTTTATCATATTGGCCATCATTTATGCTTATGTCTCTGCCAGCCCAAGATTCTAA

Protein Analysis

413

Amino Acids

47.25

Weight (kDa)

6.28

Isoelectric Point (pI)

43.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SQS_PSY PF00494 44 - 315 2.4e-53 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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Publication-ready
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Orthologous Genes (Group: OG0012919)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G34640 AT4G34640 AT4G34650
fragaria_vesca FvH4_2g10131
malus_domestica MD05G1056800.v1.1 MD10G1064900.v1.1
prunus_persica Prupe.8G087000_v2.0.a1 Prupe.8G087000_v2.0.a1
pyrus_communis pycom05g04830
rosa_chinensis RchiOBHm_Chr6g0267271
rosa_laevigata RLG00000014018
rosa_multiflora Rmu_ssc0000388.1_g000056
rosa_roxburghii Rroxscaffold_7G00200960
rosa_rugosa Rorug06G0030800 Rorug06G0030900 Rorug06G0031000
rosa_samantha Rh6BG152800
rosa_wichuraiana Rw6G013160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 267
AccB7I CCANNNNNTGG 1 cut(s) 514
AciI CCGC 2 cut(s) 688, 1128
AclWI GGATC 5 cut(s) 85, 302, 830, 1043, 1056
AcoI YGGCCR 1 cut(s) 1200
AcsI RAATTY 1 cut(s) 595
AcuI CTGAAG 1 cut(s) 599
AcyI GRCGYC 2 cut(s) 68, 264
AdeI CACNNNGTG 1 cut(s) 514
AfaI GTAC 6 cut(s) 7, 178, 334, 344, 503, 818
AfiI CCNNNNNNNGG 2 cut(s) 514, 1128
AflIII ACRYGT 1 cut(s) 819
AgsI TTSAA 5 cut(s) 55, 378, 600, 730, 814
AjnI CCWGG 2 cut(s) 71, 143
AluBI AGCT 7 cut(s) 58, 150, 172, 184, 224, 547, 1172
AluI AGCT 7 cut(s) 58, 150, 172, 184, 224, 547, 1172
Alw21I GWGCWC 2 cut(s) 186, 226
Alw26I GTCTC 3 cut(s) 145, 251, 1225
AlwI GGATC 5 cut(s) 85, 302, 830, 1043, 1056
Ama87I CYCGRG 1 cut(s) 98
AoxI GGCC 2 cut(s) 683, 1200
ApeKI GCWGC 2 cut(s) 169, 557
ApoI RAATTY 1 cut(s) 595
AseI ATTAAT 1 cut(s) 654
AspS9I GGNCC 1 cut(s) 684
AsuHPI GGTGA 2 cut(s) 943, 1195
AvaI CYCGRG 1 cut(s) 98
BaeI ACNNNNGTAYC 2 cut(s) 653, 686
BalI TGGCCA 1 cut(s) 1202
BamHI GGATCC 1 cut(s) 1048
BanII GRGCYC 3 cut(s) 186, 226, 1117
BbsI GAAGAC 1 cut(s) 810
Bbv12I GWGCWC 2 cut(s) 186, 226
BbvI GCAGC 2 cut(s) 181, 544
BccI CCATC 2 cut(s) 445, 1211
BciT130I CCWGG 2 cut(s) 73, 145
BcoDI GTCTC 3 cut(s) 145, 251, 1225
BfaI CTAG 2 cut(s) 227, 890
BglII AGATCT 1 cut(s) 693
BisI GCNGC 2 cut(s) 170, 558
BlsI GCNGC 2 cut(s) 171, 559
BmcAI AGTACT 1 cut(s) 503
Bme1390I CCNGG 2 cut(s) 73, 145
BmeT110I CYCGRG 1 cut(s) 98
BmgT120I GGNCC 1 cut(s) 684
BmiI GGNNCC 3 cut(s) 686, 1050, 1114
BmrFI CCNGG 2 cut(s) 73, 145
BoxI GACNNNNGTC 1 cut(s) 263
BpiI GAAGAC 1 cut(s) 810
BplI GAGNNNNNCTC 4 cut(s) 139, 171, 728, 760
BpmI CTGGAG 4 cut(s) 127, 665, 718, 1131
BpuEI CTTGAG 1 cut(s) 740
BsaAI YACGTR 1 cut(s) 674
BsaBI GATNNNNATC 1 cut(s) 1190
BsaHI GRCGYC 2 cut(s) 68, 264
BsaI GGTCTC 1 cut(s) 145
BsaJI CCNNGG 1 cut(s) 1032
BsaXI ACNNNNNCTCC 2 cut(s) 125, 155
Bsc4I CCNNNNNNNGG 2 cut(s) 514, 1128
Bse1I ACTGG 1 cut(s) 1083
Bse8I GATNNNNATC 1 cut(s) 1190
BseBI CCWGG 2 cut(s) 73, 145
BseDI CCNNGG 1 cut(s) 1032
BseGI GGATG 3 cut(s) 247, 456, 589
BseJI GATNNNNATC 1 cut(s) 1190
BseLI CCNNNNNNNGG 2 cut(s) 514, 1128
BseMII CTCAG 2 cut(s) 759, 881
BseNI ACTGG 1 cut(s) 1083
BseXI GCAGC 2 cut(s) 181, 544
BsgI GTGCAG 1 cut(s) 1109
BshFI GGCC 2 cut(s) 685, 1202
BsiHKAI GWGCWC 2 cut(s) 186, 226
BsiHKCI CYCGRG 1 cut(s) 98
BslFI GGGAC 1 cut(s) 1118
BslI CCNNNNNNNGG 2 cut(s) 514, 1128
BsmAI GTCTC 3 cut(s) 145, 251, 1225
BsmFI GGGAC 1 cut(s) 1118
BsnI GGCC 2 cut(s) 685, 1202
Bso31I GGTCTC 1 cut(s) 145
BsoBI CYCGRG 1 cut(s) 98
Bsp1286I GDGCHC 3 cut(s) 186, 226, 1117
Bsp143I GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
BspACI CCGC 2 cut(s) 688, 1128
BspANI GGCC 2 cut(s) 685, 1202
BspCNI CTCAG 2 cut(s) 758, 880
BspLI GGNNCC 3 cut(s) 686, 1050, 1114
BspPI GGATC 5 cut(s) 85, 302, 830, 1043, 1056
BspTNI GGTCTC 1 cut(s) 145
BsrI ACTGG 1 cut(s) 1083
BssECI CCNNGG 1 cut(s) 1032
BssMI GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
BssNI GRCGYC 2 cut(s) 68, 264
BssT1I CCWWGG 1 cut(s) 1032
Bst2UI CCWGG 2 cut(s) 73, 145
Bst4CI ACNGT 3 cut(s) 235, 296, 484
BstACI GRCGYC 2 cut(s) 68, 264
BstBAI YACGTR 1 cut(s) 674
BstC8I GCNNGC 1 cut(s) 1228
BstDEI CTNAG 2 cut(s) 745, 867
BstF5I GGATG 3 cut(s) 247, 456, 589
BstKTI GATC 6 cut(s) 93, 310, 696, 838, 873, 1051
BstMAI GTCTC 3 cut(s) 145, 251, 1225
BstMBI GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
BstMWI GCNNNNNNNGC 1 cut(s) 452
BstNI CCWGG 2 cut(s) 73, 145
BstNSI RCATGY 3 cut(s) 330, 823, 1101
BstPAI GACNNNNGTC 1 cut(s) 263
BstSCI CCNGG 2 cut(s) 71, 143
BstV1I GCAGC 2 cut(s) 181, 544
BstV2I GAAGAC 1 cut(s) 810
BstX2I RGATCY 4 cut(s) 90, 693, 835, 1048
BstYI RGATCY 4 cut(s) 90, 693, 835, 1048
BsuRI GGCC 2 cut(s) 685, 1202
BtsCI GGATG 3 cut(s) 247, 456, 589
BtsI GCAGTG 1 cut(s) 762
BtsIMutI CAGTG 3 cut(s) 231, 762, 1092
Cac8I GCNNGC 1 cut(s) 1228
Cfr13I GGNCC 1 cut(s) 684
CseI GACGC 1 cut(s) 57
Csp6I GTAC 6 cut(s) 6, 177, 333, 343, 502, 817
CviAII CATG 9 cut(s) 127, 327, 355, 371, 554, 775, 820, 874, 1098
CviQI GTAC 6 cut(s) 6, 177, 333, 343, 502, 817
DdeI CTNAG 2 cut(s) 745, 867
DpnI GATC 6 cut(s) 92, 309, 695, 837, 872, 1050
DpnII GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
DraIII CACNNNGTG 1 cut(s) 514
EaeI YGGCCR 1 cut(s) 1200
Ecl136II GAGCTC 2 cut(s) 184, 224
Eco130I CCWWGG 1 cut(s) 1032
Eco24I GRGCYC 3 cut(s) 186, 226, 1117
Eco31I GGTCTC 1 cut(s) 145
Eco53kI GAGCTC 2 cut(s) 184, 224
Eco57I CTGAAG 1 cut(s) 599
Eco88I CYCGRG 1 cut(s) 98
EcoICRI GAGCTC 2 cut(s) 184, 224
EcoRII CCWGG 2 cut(s) 71, 143
EcoT14I CCWWGG 1 cut(s) 1032
EcoT38I GRGCYC 3 cut(s) 186, 226, 1117
ErhI CCWWGG 1 cut(s) 1032
FaeI CATG 9 cut(s) 130, 330, 358, 374, 557, 778, 823, 877, 1101
FaqI GGGAC 1 cut(s) 1118
FatI CATG 9 cut(s) 126, 326, 354, 370, 553, 774, 819, 873, 1097
FauI CCCGC 2 cut(s) 695, 1121
FauNDI CATATG 1 cut(s) 798
Fnu4HI GCNGC 2 cut(s) 170, 558
FokI GGATG 3 cut(s) 254, 463, 596
FriOI GRGCYC 3 cut(s) 186, 226, 1117
Fsp4HI GCNGC 2 cut(s) 170, 558
FspBI CTAG 2 cut(s) 227, 890
GluI GCNGC 2 cut(s) 170, 558
GsuI CTGGAG 4 cut(s) 127, 665, 718, 1131
HaeIII GGCC 2 cut(s) 685, 1202
HgaI GACGC 1 cut(s) 57
Hin1I GRCGYC 2 cut(s) 68, 264
Hin1II CATG 9 cut(s) 130, 330, 358, 374, 557, 778, 823, 877, 1101
HincII GTYRAC 2 cut(s) 712, 1039
HindII GTYRAC 2 cut(s) 712, 1039
HindIII AAGCTT 1 cut(s) 545
HinfI GANTC 3 cut(s) 1082, 1106, 1236
HpaI GTTAAC 1 cut(s) 712
HphI GGTGA 2 cut(s) 943, 1195
Hpy166II GTNNAC 2 cut(s) 712, 1039
Hpy188I TCNGA 6 cut(s) 618, 748, 768, 870, 923, 1176
Hpy8I GTNNAC 2 cut(s) 712, 1039
HpyAV CCTTC 2 cut(s) 394, 1039
HpyCH4III ACNGT 3 cut(s) 235, 296, 484
HpyCH4IV ACGT 2 cut(s) 264, 673
HpyCH4V TGCA 4 cut(s) 326, 468, 1090, 1101
HpyF10VI GCNNNNNNNGC 1 cut(s) 452
HpyF3I CTNAG 2 cut(s) 745, 867
HpySE526I ACGT 2 cut(s) 264, 673
Hsp92I GRCGYC 2 cut(s) 68, 264
Hsp92II CATG 9 cut(s) 130, 330, 358, 374, 557, 778, 823, 877, 1101
KspAI GTTAAC 1 cut(s) 712
Kzo9I GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
LmnI GCTCC 5 cut(s) 147, 181, 189, 443, 1112
Lsp1109I GCAGC 2 cut(s) 181, 544
MaeI CTAG 2 cut(s) 227, 890
MaeII ACGT 2 cut(s) 264, 673
MaeIII GTNAC 3 cut(s) 669, 778, 1160
MalI GATC 6 cut(s) 92, 309, 695, 837, 872, 1050
MboI GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
MboII GAAGA 4 cut(s) 209, 581, 605, 815
MfeI CAATTG 2 cut(s) 417, 879
MflI RGATCY 4 cut(s) 90, 693, 835, 1048
MhlI GDGCHC 3 cut(s) 186, 226, 1117
MlsI TGGCCA 1 cut(s) 1202
MluCI AATT 5 cut(s) 417, 563, 595, 879, 1165
MluNI TGGCCA 1 cut(s) 1202
MlyI GAGTC 1 cut(s) 1100
Mox20I TGGCCA 1 cut(s) 1202
MscI TGGCCA 1 cut(s) 1202
MseI TTAA 3 cut(s) 654, 711, 849
MslI CAYNNNNRTG 1 cut(s) 33
Msp20I TGGCCA 1 cut(s) 1202
MspA1I CMGCKG 1 cut(s) 1128
MspR9I CCNGG 2 cut(s) 73, 145
MunI CAATTG 2 cut(s) 417, 879
MvaI CCWGG 2 cut(s) 73, 145
MwoI GCNNNNNNNGC 1 cut(s) 452
NdeI CATATG 1 cut(s) 798
NdeII GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
NlaIII CATG 9 cut(s) 130, 330, 358, 374, 557, 778, 823, 877, 1101
NlaIV GGNNCC 3 cut(s) 686, 1050, 1114
NmuCI GTSAC 2 cut(s) 669, 778
NspI RCATGY 3 cut(s) 330, 823, 1101
PciI ACATGT 1 cut(s) 819
PfeI GAWTC 2 cut(s) 1082, 1236
PflFI GACNNNGTC 1 cut(s) 776
PflMI CCANNNNNTGG 1 cut(s) 514
PfoI TCCNGGA 1 cut(s) 143
PkrI GCNGC 2 cut(s) 171, 559
PleI GAGTC 1 cut(s) 1100
PpsI GAGTC 1 cut(s) 1100
Ppu21I YACGTR 1 cut(s) 674
PscI ACATGT 1 cut(s) 819
PshAI GACNNNNGTC 1 cut(s) 263
PshBI ATTAAT 1 cut(s) 654
Psp124BI GAGCTC 2 cut(s) 186, 226
Psp6I CCWGG 2 cut(s) 71, 143
PspGI CCWGG 2 cut(s) 71, 143
PspN4I GGNNCC 3 cut(s) 686, 1050, 1114
PspPI GGNCC 1 cut(s) 684
PsuI RGATCY 4 cut(s) 90, 693, 835, 1048
PsyI GACNNNGTC 1 cut(s) 776
RsaI GTAC 6 cut(s) 7, 178, 334, 344, 503, 818
RsaNI GTAC 6 cut(s) 6, 177, 333, 343, 502, 817
RseI CAYNNNNRTG 1 cut(s) 33
SacI GAGCTC 2 cut(s) 186, 226
SaqAI TTAA 3 cut(s) 654, 711, 849
SatI GCNGC 2 cut(s) 170, 558
Sau3AI GATC 6 cut(s) 90, 307, 693, 835, 870, 1048
Sau96I GGNCC 1 cut(s) 684
ScaI AGTACT 1 cut(s) 503
SchI GAGTC 1 cut(s) 1100
ScrFI CCNGG 2 cut(s) 73, 145
SduI GDGCHC 3 cut(s) 186, 226, 1117
SmiMI CAYNNNNRTG 1 cut(s) 33
SmlI CTYRAG 1 cut(s) 719
SmoI CTYRAG 1 cut(s) 719
Sse9I AATT 5 cut(s) 417, 563, 595, 879, 1165
SsiI CCGC 2 cut(s) 688, 1128
SspMI CTAG 2 cut(s) 227, 890
SstI GAGCTC 2 cut(s) 186, 226
StyD4I CCNGG 2 cut(s) 71, 143
StyI CCWWGG 1 cut(s) 1032
TaaI ACNGT 3 cut(s) 235, 296, 484
TaiI ACGT 2 cut(s) 267, 676
TaqI TCGA 3 cut(s) 81, 220, 634
TasI AATT 5 cut(s) 417, 563, 595, 879, 1165
TatI WGTACW 3 cut(s) 342, 501, 816
TfiI GAWTC 2 cut(s) 1082, 1236
Tru1I TTAA 3 cut(s) 654, 711, 849
Tru9I TTAA 3 cut(s) 654, 711, 849
TscAI CASTG 3 cut(s) 238, 762, 1092
TseFI GTSAC 2 cut(s) 669, 778
TseI GCWGC 2 cut(s) 169, 557
Tsp45I GTSAC 2 cut(s) 669, 778
TspDTI ATGAA 2 cut(s) 356, 600
TspGWI ACGGA 3 cut(s) 176, 194, 596
TspRI CASTG 3 cut(s) 238, 762, 1092
Tth111I GACNNNGTC 1 cut(s) 776
Van91I CCANNNNNTGG 1 cut(s) 514
VspI ATTAAT 1 cut(s) 654
XapI RAATTY 1 cut(s) 595
XbaI TCTAGA 1 cut(s) 226
XceI RCATGY 3 cut(s) 330, 823, 1101
XspI CTAG 2 cut(s) 227, 890
ZraI GACGTC 1 cut(s) 265
ZrmI AGTACT 1 cut(s) 503
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.