Rroxscaffold_1G00070900

(E,E)-alpha-farnesene

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002039
Physical Location & Seq
Reverse (-)
91873689 .. 91876433
2745 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00070900.1

Sequence Viewer

Length: 1740 bp
ATGCACTCGCAAAACCCTCAAGCTGATGAGCAGCAAATACTGCAATGGCAGACGAAGTCCGAACCCTCTTACTCTGTACATGATCAAAGACGATCTGCCAATTACAAGCCGAATATTTGGAAGTATGACATCGTCGAATCCCTTAACAGCAAATTTGATGGAGAATGTTATCGAATTCAGATTCAGAAGCTAATAGAAGATGTTAAGGATTTGTTTGGTGAATGTAAGGAATCATGTTCACTGGATAAGTTGAAGTTGATTGACAGCATCCAAAAACTAGGCCTCAACAACCACTTTGAGAAGGAAATCAAGGAAGCCCTAGACACCATAGCATCTGTAGAACTCGAAAACAACAGCAATCCCTGCATTAGTTCTGAGGGTGATCTCTATGCTACTGCACTACTCTTTAAGATTCTTAGGCAGCATGGTTATAAAGTTTCACAAGATATATTTGGTAGTTTGAAGGATGAAATGGGTACATTAAAGAAGAACACATTTGGGGATGTGAAAGGAATGCTTGAAATGTTGGAGGCCTCAAACCTAGCTTTAGAAGGTGAAAATATCCTAGAGGAGACTAAAGCTTTCTTAATGGGCACTCTCAGAGATACCAATACTAGGTGTGATGATACAGACAATTGCATTTCCAAGCATGTGACTTATGCCCTGGAGCTTCCATCACAAAGGAGAGTGCAGTGGTTTAATGTGAAATGGCACATCAAATCCTACGAGAAAGACCATACTGATCAAGCCAACATGACCACTTTACTTGAGTTGGCTAAACTTAACTTCAACATGGTTCAAGCCACACTCCAAAAAGATCTAAGAGAAGTATCCATGTGGTGGAACAATCTGGGTCTCAATAAGAACTTGGACTTTGCAAGAGATAGACTGGTCGAATGTTTCATGTGTGCCGTGGGATTAGCTTTCGAGCCTGAGTACAAGTCCTTTAGAAAATGGATAACTAAAGTCATCAATTTGATTCTCATCATCGATGACGTTTATGATGTTTATGGCTCATTGGAAGAGCTAAAAAATTTCACCAATGCTGTTGAAAGGTGGGATGTTAGGGAAACCGAGCAGCTTCCGGAGTGTATGAAGATCTGTTTCCAAGTACTCTACAATACTACTTGTGAAATTGCTTATGAAATTGAGGAGGCGAATGGTTGGAACCAAGTATTACCTCATTTGCGGAAAGTGTGGGGAGATTTCTGTAAAGCATTATTGGTGGACGCAGAGTGGTACAATAAGGCCTACACACCGTCCTTTGAAGAGCAGCTTAGCAATGGTTGCATTTCATCATCTGCTTCACTGATTTTGACTCATGCCTTCTTCTCCACAACACATGATGAAGGGGTCAAAAACATTGCTCATTTTCTACACAAGAATGAAGATCTTGTGTACAATATCTCTTTGATACTTCGACTCTTAAACGATTTGGGAACTTCCGCGGCTGAGCAAGAGAGAGGTGATGCTGCTTCATCAATCCTATGTTACATGAAAGAAGCGAATGCTTTAGAAGAAATAGCTCGAAAGCACATCAAAGGCATGATAGACAATGCATGGAAGAAAATAAACGAAAAATGCTTCACTCAAATGCCCGAAATATCTTCATTCATCAACATTATGACAAATATAGCTCGGGTTGGGCATAGCCTTTATCAAGATGGAGATGGATTTGGTGATCAAGAGCACGGGACTCGGGGACAGATCCAATCTTTTCTAGTTGAACCTCTCTCTTAA

Protein Analysis

579

Amino Acids

66.57

Weight (kDa)

5.12

Isoelectric Point (pI)

42.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Terpene_synth PF01397 40 - 222 2.3e-42 Terpene synthase, N-terminal domain
Terpene_synth_C PF03936 283 - 523 1.9e-86 Terpene synthase family, metal binding domain
Terpene_syn_C_2 PF19086 322 - 523 1.7e-51 Terpene synthase family 2, C-terminal metal binding
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 432
AccB7I CCANNNNNTGG 1 cut(s) 840
AccII CGCG 1 cut(s) 1448
AccIII TCCGGA 1 cut(s) 1084
AciI CCGC 3 cut(s) 1189, 1446, 1448
AclWI GGATC 1 cut(s) 1702
AcsI RAATTY 3 cut(s) 152, 174, 1033
AfaI GTAC 6 cut(s) 78, 478, 938, 1113, 1241, 1400
AfiI CCNNNNNNNGG 2 cut(s) 615, 840
AgsI TTSAA 8 cut(s) 253, 463, 521, 790, 800, 1052, 1268, 1727
AjnI CCWGG 1 cut(s) 663
Alw21I GWGCWC 1 cut(s) 1692
Alw26I GTCTC 2 cut(s) 566, 860
AlwI GGATC 1 cut(s) 1702
Ama87I CYCGRG 2 cut(s) 1638, 1698
Aor13HI TCCGGA 1 cut(s) 1084
AoxI GGCC 3 cut(s) 280, 531, 1248
ApeKI GCWGC 5 cut(s) 31, 421, 1078, 1273, 1472
ApoI RAATTY 3 cut(s) 152, 174, 1033
AsuHPI GGTGA 6 cut(s) 230, 392, 566, 1030, 1478, 1691
AvaI CYCGRG 2 cut(s) 1638, 1698
BaeGI GKGCMC 1 cut(s) 596
Bbv12I GWGCWC 1 cut(s) 1692
BbvI GCAGC 5 cut(s) 43, 433, 1090, 1285, 1459
BccI CCATC 4 cut(s) 152, 682, 1658, 1664
BceAI ACGGC 1 cut(s) 896
BcgI CGANNNNNNTGC 2 cut(s) 1679, 1713
BciT130I CCWGG 1 cut(s) 665
BciVI GTATCC 1 cut(s) 841
BclI TGATCA 3 cut(s) 82, 742, 1681
BcoDI GTCTC 2 cut(s) 566, 860
BfaI CTAG 6 cut(s) 278, 320, 542, 566, 615, 1721
BfmI CTRYAG 1 cut(s) 336
BfuI GTATCC 1 cut(s) 841
BglII AGATCT 3 cut(s) 817, 1098, 1390
BisI GCNGC 6 cut(s) 32, 422, 1079, 1274, 1449, 1473
BlpI GCTNAGC 2 cut(s) 1277, 1452
BlsI GCNGC 6 cut(s) 33, 423, 1080, 1275, 1450, 1474
BmcAI AGTACT 1 cut(s) 1113
Bme1390I CCNGG 1 cut(s) 665
BmeT110I CYCGRG 2 cut(s) 1638, 1698
BmiI GGNNCC 1 cut(s) 1169
BmrFI CCNGG 1 cut(s) 665
BmsI GCATC 3 cut(s) 276, 341, 1459
BpmI CTGGAG 1 cut(s) 686
Bpu1102I GCTNAGC 2 cut(s) 1277, 1452
BpuEI CTTGAG 1 cut(s) 788
Bsa29I ATCGAT 1 cut(s) 990
BsaBI GATNNNNATC 1 cut(s) 983
BsaI GGTCTC 1 cut(s) 860
BsaJI CCNNGG 3 cut(s) 663, 912, 1446
BsaWI WCCGGW 1 cut(s) 1084
Bsc4I CCNNNNNNNGG 2 cut(s) 615, 840
Bse1I ACTGG 2 cut(s) 246, 894
Bse3DI GCAATG 3 cut(s) 50, 1288, 1362
Bse8I GATNNNNATC 1 cut(s) 983
BseAI TCCGGA 1 cut(s) 1084
BseBI CCWGG 1 cut(s) 665
BseCI ATCGAT 1 cut(s) 990
BseDI CCNNGG 3 cut(s) 663, 912, 1446
BseGI GGATG 4 cut(s) 267, 472, 508, 1066
BseJI GATNNNNATC 1 cut(s) 983
BseLI CCNNNNNNNGG 2 cut(s) 615, 840
BseMI GCAATG 3 cut(s) 50, 1288, 1362
BseMII CTCAG 4 cut(s) 366, 613, 924, 1443
BseNI ACTGG 2 cut(s) 246, 894
BseRI GAGGAG 2 cut(s) 584, 1166
BseSI GKGCMC 1 cut(s) 596
BseXI GCAGC 5 cut(s) 43, 433, 1090, 1285, 1459
BsgI GTGCAG 2 cut(s) 381, 710
Bsh1236I CGCG 1 cut(s) 1448
BshFI GGCC 3 cut(s) 282, 533, 1250
BshVI ATCGAT 1 cut(s) 990
BsiHKAI GWGCWC 1 cut(s) 1692
BsiHKCI CYCGRG 2 cut(s) 1638, 1698
BsiSI CCGG 1 cut(s) 1085
BslFI GGGAC 2 cut(s) 1708, 1716
BslI CCNNNNNNNGG 2 cut(s) 615, 840
BsmAI GTCTC 2 cut(s) 566, 860
BsmFI GGGAC 2 cut(s) 1708, 1716
BsmI GAATGC 2 cut(s) 519, 1513
BsnI GGCC 3 cut(s) 282, 533, 1250
Bso31I GGTCTC 1 cut(s) 860
BsoBI CYCGRG 2 cut(s) 1638, 1698
Bsp1286I GDGCHC 2 cut(s) 596, 1692
Bsp13I TCCGGA 1 cut(s) 1084
Bsp1407I TGTACA 2 cut(s) 76, 1398
Bsp143I GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
Bsp1720I GCTNAGC 2 cut(s) 1277, 1452
BspACI CCGC 3 cut(s) 1189, 1446, 1448
BspANI GGCC 3 cut(s) 282, 533, 1250
BspCNI CTCAG 4 cut(s) 367, 612, 925, 1444
BspDI ATCGAT 1 cut(s) 990
BspEI TCCGGA 1 cut(s) 1084
BspFNI CGCG 1 cut(s) 1448
BspLI GGNNCC 1 cut(s) 1169
BspPI GGATC 1 cut(s) 1702
BspQI GCTCTTC 2 cut(s) 1017, 1263
BspTNI GGTCTC 1 cut(s) 860
BsrDI GCAATG 3 cut(s) 50, 1288, 1362
BsrGI TGTACA 2 cut(s) 76, 1398
BsrI ACTGG 2 cut(s) 246, 894
BssECI CCNNGG 3 cut(s) 663, 912, 1446
BssMI GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
Bst2UI CCWGG 1 cut(s) 665
Bst4CI ACNGT 1 cut(s) 1260
Bst6I CTCTTC 2 cut(s) 1017, 1263
BstAPI GCANNNNNTGC 3 cut(s) 40, 363, 1287
BstAUI TGTACA 2 cut(s) 76, 1398
BstDEI CTNAG 7 cut(s) 375, 416, 599, 821, 933, 1277, 1452
BstDSI CCRYGG 2 cut(s) 912, 1446
BstF5I GGATG 4 cut(s) 267, 472, 508, 1066
BstFNI CGCG 1 cut(s) 1448
BstKTI GATC 9 cut(s) 85, 95, 385, 745, 820, 1101, 1393, 1684, 1710
BstMAI GTCTC 2 cut(s) 566, 860
BstMBI GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
BstMWI GCNNNNNNNGC 3 cut(s) 40, 363, 1287
BstNI CCWGG 1 cut(s) 665
BstNSI RCATGY 1 cut(s) 653
BstSCI CCNGG 1 cut(s) 663
BstSFI CTRYAG 1 cut(s) 336
BstSLI GKGCMC 1 cut(s) 596
BstUI CGCG 1 cut(s) 1448
BstV1I GCAGC 5 cut(s) 43, 433, 1090, 1285, 1459
BstX2I RGATCY 4 cut(s) 817, 1098, 1390, 1707
BstYI RGATCY 4 cut(s) 817, 1098, 1390, 1707
Bsu15I ATCGAT 1 cut(s) 990
BsuI GTATCC 1 cut(s) 841
BsuRI GGCC 3 cut(s) 282, 533, 1250
BsuTUI ATCGAT 1 cut(s) 990
BtgI CCRYGG 2 cut(s) 912, 1446
BtsCI GGATG 4 cut(s) 267, 472, 508, 1066
BtsI GCAGTG 1 cut(s) 698
BtsIMutI CAGTG 3 cut(s) 239, 698, 1307
Cfr42I CCGCGG 1 cut(s) 1449
ClaI ATCGAT 1 cut(s) 990
CseI GACGC 1 cut(s) 1238
Csp6I GTAC 6 cut(s) 77, 477, 937, 1112, 1240, 1399
CspCI CAANNNNNGTGG 2 cut(s) 748, 783
CviQI GTAC 6 cut(s) 77, 477, 937, 1112, 1240, 1399
DdeI CTNAG 7 cut(s) 375, 416, 599, 821, 933, 1277, 1452
DpnI GATC 9 cut(s) 84, 94, 384, 744, 819, 1100, 1392, 1683, 1709
DpnII GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
Eam1104I CTCTTC 2 cut(s) 1017, 1263
EarI CTCTTC 2 cut(s) 1017, 1263
Eco147I AGGCCT 3 cut(s) 282, 533, 1250
Eco31I GGTCTC 1 cut(s) 860
Eco88I CYCGRG 2 cut(s) 1638, 1698
EcoRI GAATTC 1 cut(s) 174
EcoRII CCWGG 1 cut(s) 663
EcoT22I ATGCAT 1 cut(s) 1561
FalI AAGNNNNNCTT 4 cut(s) 501, 533, 1260, 1292
FaqI GGGAC 2 cut(s) 1708, 1716
FbaI TGATCA 3 cut(s) 82, 742, 1681
Fnu4HI GCNGC 6 cut(s) 32, 422, 1079, 1274, 1449, 1473
FokI GGATG 4 cut(s) 254, 479, 515, 1073
Fsp4HI GCNGC 6 cut(s) 32, 422, 1079, 1274, 1449, 1473
FspBI CTAG 6 cut(s) 278, 320, 542, 566, 615, 1721
GluI GCNGC 6 cut(s) 32, 422, 1079, 1274, 1449, 1473
GsuI CTGGAG 1 cut(s) 686
HaeIII GGCC 3 cut(s) 282, 533, 1250
HapII CCGG 1 cut(s) 1085
HgaI GACGC 1 cut(s) 1238
HindIII AAGCTT 1 cut(s) 579
HinfI GANTC 8 cut(s) 137, 181, 230, 412, 979, 1318, 1422, 1696
HpaII CCGG 1 cut(s) 1085
HphI GGTGA 6 cut(s) 230, 392, 566, 1030, 1478, 1691
Hpy166II GTNNAC 3 cut(s) 239, 1228, 1399
Hpy188I TCNGA 5 cut(s) 61, 180, 186, 376, 602
Hpy188III TCNNGA 3 cut(s) 1085, 1661, 1685
Hpy8I GTNNAC 3 cut(s) 239, 1228, 1399
Hpy99I CGWCG 1 cut(s) 137
HpyAV CCTTC 5 cut(s) 295, 457, 545, 1336, 1343
HpyCH4III ACNGT 1 cut(s) 1260
HpyCH4IV ACGT 1 cut(s) 996
HpyCH4V TGCA 9 cut(s) 4, 43, 366, 398, 639, 691, 878, 1290, 1559
HpyF10VI GCNNNNNNNGC 3 cut(s) 40, 363, 1287
HpyF3I CTNAG 7 cut(s) 375, 416, 599, 821, 933, 1277, 1452
HpySE526I ACGT 1 cut(s) 996
Kpn2I TCCGGA 1 cut(s) 1084
Ksp22I TGATCA 3 cut(s) 82, 742, 1681
KspI CCGCGG 1 cut(s) 1449
Kzo9I GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
LguI GCTCTTC 2 cut(s) 1017, 1263
LmnI GCTCC 1 cut(s) 667
LpnPI CCDG 8 cut(s) 227, 376, 650, 677, 836, 875, 945, 1098
Lsp1109I GCAGC 5 cut(s) 43, 433, 1090, 1285, 1459
LweI GCATC 3 cut(s) 276, 341, 1459
MaeI CTAG 6 cut(s) 278, 320, 542, 566, 615, 1721
MaeII ACGT 1 cut(s) 996
MaeIII GTNAC 2 cut(s) 652, 1490
MalI GATC 9 cut(s) 84, 94, 384, 744, 819, 1100, 1392, 1683, 1709
MboI GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
MfeI CAATTG 1 cut(s) 634
MflI RGATCY 4 cut(s) 817, 1098, 1390, 1707
MhlI GDGCHC 2 cut(s) 596, 1692
MluCI AATT 8 cut(s) 100, 152, 174, 634, 973, 1033, 1134, 1146
MlyI GAGTC 3 cut(s) 1312, 1416, 1690
MmeI TCCRAC 2 cut(s) 507, 1145
Mph1103I ATGCAT 1 cut(s) 1561
MroI TCCGGA 1 cut(s) 1084
MseI TTAA 9 cut(s) 144, 204, 408, 482, 587, 699, 783, 1427, 1738
MslI CAYNNNNRTG 2 cut(s) 1383, 1592
MspA1I CMGCKG 1 cut(s) 1448
MspI CCGG 1 cut(s) 1085
MspR9I CCNGG 1 cut(s) 665
MunI CAATTG 1 cut(s) 634
Mva1269I GAATGC 2 cut(s) 519, 1513
MvaI CCWGG 1 cut(s) 665
MvnI CGCG 1 cut(s) 1448
MwoI GCNNNNNNNGC 3 cut(s) 40, 363, 1287
NdeII GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
NlaIV GGNNCC 1 cut(s) 1169
NmuCI GTSAC 1 cut(s) 652
NsiI ATGCAT 1 cut(s) 1561
NspI RCATGY 1 cut(s) 653
PceI AGGCCT 3 cut(s) 282, 533, 1250
PciSI GCTCTTC 2 cut(s) 1017, 1263
PctI GAATGC 2 cut(s) 519, 1513
PfeI GAWTC 5 cut(s) 137, 181, 230, 412, 979
PflFI GACNNNGTC 2 cut(s) 55, 131
PflMI CCANNNNNTGG 1 cut(s) 840
PkrI GCNGC 6 cut(s) 33, 423, 1080, 1275, 1450, 1474
PleI GAGTC 3 cut(s) 1312, 1416, 1690
PpsI GAGTC 3 cut(s) 1312, 1416, 1690
PsiI TTATAA 1 cut(s) 432
Psp6I CCWGG 1 cut(s) 663
PspGI CCWGG 1 cut(s) 663
PspN4I GGNNCC 1 cut(s) 1169
PsuI RGATCY 4 cut(s) 817, 1098, 1390, 1707
PsyI GACNNNGTC 2 cut(s) 55, 131
RsaI GTAC 6 cut(s) 78, 478, 938, 1113, 1241, 1400
RsaNI GTAC 6 cut(s) 77, 477, 937, 1112, 1240, 1399
RseI CAYNNNNRTG 2 cut(s) 1383, 1592
SacII CCGCGG 1 cut(s) 1449
SapI GCTCTTC 2 cut(s) 1017, 1263
SaqAI TTAA 9 cut(s) 144, 204, 408, 482, 587, 699, 783, 1427, 1738
SatI GCNGC 6 cut(s) 32, 422, 1079, 1274, 1449, 1473
Sau3AI GATC 9 cut(s) 82, 92, 382, 742, 817, 1098, 1390, 1681, 1707
ScaI AGTACT 1 cut(s) 1113
SchI GAGTC 3 cut(s) 1312, 1416, 1690
ScrFI CCNGG 1 cut(s) 665
SduI GDGCHC 2 cut(s) 596, 1692
SfaNI GCATC 3 cut(s) 276, 341, 1459
SfcI CTRYAG 1 cut(s) 336
Sfr303I CCGCGG 1 cut(s) 1449
SgrBI CCGCGG 1 cut(s) 1449
SmiMI CAYNNNNRTG 2 cut(s) 1383, 1592
SmlI CTYRAG 2 cut(s) 18, 767
SmoI CTYRAG 2 cut(s) 18, 767
Sse9I AATT 8 cut(s) 100, 152, 174, 634, 973, 1033, 1134, 1146
SseBI AGGCCT 3 cut(s) 282, 533, 1250
SsiI CCGC 3 cut(s) 1189, 1446, 1448
SspI AATATT 1 cut(s) 115
SspMI CTAG 6 cut(s) 278, 320, 542, 566, 615, 1721
StuI AGGCCT 3 cut(s) 282, 533, 1250
StyD4I CCNGG 1 cut(s) 663
TaaI ACNGT 1 cut(s) 1260
TaiI ACGT 1 cut(s) 999
TaqI TCGA 8 cut(s) 135, 172, 345, 894, 927, 990, 1420, 1528
TasI AATT 8 cut(s) 100, 152, 174, 634, 973, 1033, 1134, 1146
TatI WGTACW 4 cut(s) 76, 936, 1111, 1398
TauI GCSGC 1 cut(s) 1451
TfiI GAWTC 5 cut(s) 137, 181, 230, 412, 979
Tru1I TTAA 9 cut(s) 144, 204, 408, 482, 587, 699, 783, 1427, 1738
Tru9I TTAA 9 cut(s) 144, 204, 408, 482, 587, 699, 783, 1427, 1738
TscAI CASTG 3 cut(s) 246, 698, 1314
TseFI GTSAC 1 cut(s) 652
TseI GCWGC 5 cut(s) 31, 421, 1078, 1273, 1472
Tsp45I GTSAC 1 cut(s) 652
TspRI CASTG 3 cut(s) 246, 698, 1314
Tth111I GACNNNGTC 2 cut(s) 55, 131
Van91I CCANNNNNTGG 1 cut(s) 840
XapI RAATTY 3 cut(s) 152, 174, 1033
XceI RCATGY 1 cut(s) 653
XspI CTAG 6 cut(s) 278, 320, 542, 566, 615, 1721
ZrmI AGTACT 1 cut(s) 1113
Zsp2I ATGCAT 1 cut(s) 1561
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.