RchiOBHm_Chr5g0004591

(E,E)-alpha-farnesene

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0002039
Physical Location & Seq
Forward (+)
2991720 .. 2994393
2674 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ28582

Sequence Viewer

Length: 1743 bp
ATGGATTGTGGTATGCACTTGCATAACCATCAAGCTGATGAGCAACATATATTGCAATGGCAGACGAAATCCGAACCCCCTTCCTCAGTACATGATCAAAGACGATCTGCCAATTACAAGCCGAATATTTGGAAGTATGATTTCGTTGAATCACTTAACAGCAAATTTGATGGAGAATGTTACCGAATTCAGATTCAGAAGCTAATAGAAGATGTTAAGGATTTGTTTGGTGAATGTAAGGAATTGGGTTTACTAGATAAGTTGGAGCTGATTGACAGCATCCAAAAACTAGGCCTAAACAGCTACTTTGAGAAGGAAATCAAGGAAACCCTAGACACCATAGCATCTGTCGAACTGAAAAACAACAGCAATCCCTTCATTAGTTCAGAGGGTGATCTCTACGCTACGGCACTACTCTTTAAGATTCTGAGGCAGCATGATTATAAAGTTTCACAAGATGTATTTGGTGTTTTCATAGACGAAATTGGTACATTAAAGAAGAGCACATTTGGGGATGTGAAAGGAATGCTCGAACTTTTGGAGGCCTCAAACTTAGCTTTAGAAGGTGAAAACATCCTAGATGAGGCTAAAGCTTTCTTAATGGTCTCTCTCAGAGATACCAATACCATGTGTGATGATATAAACCGTTGCATTTCCAAGCATGTGGCCTATGCCTTGAAGCTTTCATCACAAAGGAGAGTCCAGTGGTTTAATGTGAAATGGCACATCAAAGCCTACGGGGAAGACAATACGAAGCAAGCCAACATGACCACTTTACTTGAACTGGCTAAACTTAACTTCAACATGGTTCAAGCCACACTCCAAAAAGAGCTAAGGGAAGCATCCAAGTGGTGGAACAATCTGGGTCTCACAAAGAACTTGGACTTTGCAAGAGATAGAATGGTCGAATGTTTCATGTGTGCTGTGGGATTAGCTTTCGAGCCTCAGTACAAGTCTTTTAGAAAATCGCTGACTAAAGTTATCAATTTGATACTTATCATAGATGACGTTTATGATGTTTATGGCTCGTTGGAAGAGCTAAATCACTTCACCAAAGCTATTGAAAGGTGGGATGTTAGGGAAACTGAGCAGCTTCCGGAGTGTATGAAGATCTGTTTCCAAGTACTTTACAACATGACTTGTGAAATTGCTTACGAAATCGAGGAGGAGAAGGGTCGGAACCAAGTATTACCTCATCTGCGCAAAGTGTGGACAGATTTTTGTAAAGCATTATTGGTGGAGGCAGAGTGGTACAATAAGGCCGACACACCGTCCTTTGAAGAGTACCTTAGCAATGGTTGGATTTCATCATCTGCTTCGCTGATTTTCACTCATGCATTCTTCTCCACAGCACATGGGGAGAGAATGGATGAATTTCTGCACAAGAATGAAGATCTCGTGTGCAATATCTCTCTGATACTTCGACTCTTAAATGATCTGGGAACTTCTGCGGCTGAGCAAGAGAGAGGCGATGCTGCTTCATCAATCCTATGCTACATGAGAGAAGTGAATGCTTCAGAAGAAATAGCTCGAAAGCACATCAAAGGCATGATAGACAATGCATGGATGAAAATAAATGAAAAATGCTTCACTCAAGTTCCAGAAATTTCTTCATTCATCAACATTACCACAAATATAGCTCGAGTTGGTCACAGCCTTTATCAAGATGGAGATGGATTTGGTGATCAAGAGCAAGGGACTCGGGGACAGATCCAATCTTTACTAGTTGAACCGCTTTCTTAA

Protein Analysis

580

Amino Acids

66.74

Weight (kDa)

5.16

Isoelectric Point (pI)

45.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Terpene_synth PF01397 43 - 226 1.1e-41 Terpene synthase, N-terminal domain
Terpene_synth_C PF03936 287 - 523 7.6e-87 Terpene synthase family, metal binding domain
Terpene_syn_C_2 PF19086 326 - 523 6.9e-54 Terpene synthase family 2, C-terminal metal binding
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 444
Acc16I TGCGCA 1 cut(s) 1202
AccB7I CCANNNNNTGG 1 cut(s) 852
AccIII TCCGGA 1 cut(s) 1096
AciI CCGC 2 cut(s) 1451, 1733
AclWI GGATC 1 cut(s) 1705
AcsI RAATTY 4 cut(s) 164, 186, 1373, 1605
AcuI CTGAAG 1 cut(s) 1500
AfaI GTAC 6 cut(s) 90, 490, 950, 1125, 1253, 1286
AfiI CCNNNNNNNGG 2 cut(s) 583, 852
AgsI TTSAA 8 cut(s) 149, 679, 782, 802, 812, 1064, 1280, 1730
AhdI GACNNNNNGTC 1 cut(s) 1270
AhlI ACTAGT 1 cut(s) 1723
Alw21I GWGCWC 1 cut(s) 506
Alw26I GTCTC 2 cut(s) 610, 872
AlwI GGATC 1 cut(s) 1705
Ama87I CYCGRG 2 cut(s) 1641, 1701
Aor13HI TCCGGA 1 cut(s) 1096
AoxI GGCC 4 cut(s) 292, 543, 666, 1260
ApeKI GCWGC 3 cut(s) 433, 1090, 1475
ApoI RAATTY 4 cut(s) 164, 186, 1373, 1605
AspLEI GCGC 1 cut(s) 1203
AsuHPI GGTGA 5 cut(s) 242, 404, 578, 1042, 1694
AvaI CYCGRG 2 cut(s) 1641, 1701
BauI CACGAG 1 cut(s) 1397
BbsI GAAGAC 1 cut(s) 750
Bbv12I GWGCWC 1 cut(s) 506
BbvI GCAGC 3 cut(s) 445, 1102, 1462
BccI CCATC 4 cut(s) 36, 164, 1661, 1667
BceAI ACGGC 1 cut(s) 423
BcgI CGANNNNNNTGC 2 cut(s) 1682, 1716
BclI TGATCA 2 cut(s) 94, 1684
BcoDI GTCTC 2 cut(s) 610, 872
BcuI ACTAGT 1 cut(s) 1723
BfaI CTAG 5 cut(s) 254, 290, 332, 578, 1724
BglII AGATCT 2 cut(s) 1110, 1393
BisI GCNGC 4 cut(s) 434, 1091, 1452, 1476
BlpI GCTNAGC 1 cut(s) 1455
BlsI GCNGC 4 cut(s) 435, 1092, 1453, 1477
BmcAI AGTACT 1 cut(s) 1125
BmeRI GACNNNNNGTC 1 cut(s) 1270
BmeT110I CYCGRG 2 cut(s) 1641, 1701
BmiI GGNNCC 1 cut(s) 1181
BmsI GCATC 4 cut(s) 288, 353, 851, 1462
BpiI GAAGAC 1 cut(s) 750
Bpu10I CCTNAGC 2 cut(s) 833, 1289
Bpu1102I GCTNAGC 1 cut(s) 1455
BpuEI CTTGAG 1 cut(s) 1578
BsaBI GATNNNNATC 1 cut(s) 995
BsaI GGTCTC 2 cut(s) 610, 872
BsaWI WCCGGW 1 cut(s) 1096
BsaXI ACNNNNNCTCC 2 cut(s) 1232, 1262
Bsc4I CCNNNNNNNGG 2 cut(s) 583, 852
Bse1I ACTGG 2 cut(s) 703, 789
Bse3DI GCAATG 2 cut(s) 62, 1300
Bse8I GATNNNNATC 1 cut(s) 995
BseAI TCCGGA 1 cut(s) 1096
BseGI GGATG 7 cut(s) 279, 520, 573, 842, 1078, 1375, 1572
BseJI GATNNNNATC 1 cut(s) 995
BseLI CCNNNNNNNGG 2 cut(s) 583, 852
BseMI GCAATG 2 cut(s) 62, 1300
BseMII CTCAG 6 cut(s) 99, 419, 625, 959, 1077, 1446
BseNI ACTGG 2 cut(s) 703, 789
BseRI GAGGAG 2 cut(s) 1178, 1181
BseXI GCAGC 3 cut(s) 445, 1102, 1462
BsgI GTGCAG 1 cut(s) 1364
BshFI GGCC 4 cut(s) 294, 545, 668, 1262
BsiHKAI GWGCWC 1 cut(s) 506
BsiHKCI CYCGRG 2 cut(s) 1641, 1701
BsiSI CCGG 1 cut(s) 1097
BslFI GGGAC 2 cut(s) 1711, 1719
BslI CCNNNNNNNGG 2 cut(s) 583, 852
BsmAI GTCTC 2 cut(s) 610, 872
BsmFI GGGAC 2 cut(s) 1711, 1719
BsmI GAATGC 3 cut(s) 531, 1337, 1516
BsnI GGCC 4 cut(s) 294, 545, 668, 1262
Bso31I GGTCTC 2 cut(s) 610, 872
BsoBI CYCGRG 2 cut(s) 1641, 1701
Bsp1286I GDGCHC 1 cut(s) 506
Bsp13I TCCGGA 1 cut(s) 1096
Bsp143I GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
Bsp1720I GCTNAGC 1 cut(s) 1455
BspACI CCGC 2 cut(s) 1451, 1733
BspANI GGCC 4 cut(s) 294, 545, 668, 1262
BspCNI CTCAG 6 cut(s) 98, 420, 624, 958, 1078, 1447
BspEI TCCGGA 1 cut(s) 1096
BspLI GGNNCC 1 cut(s) 1181
BspPI GGATC 1 cut(s) 1705
BspQI GCTCTTC 2 cut(s) 494, 1029
BspTNI GGTCTC 2 cut(s) 610, 872
BsrDI GCAATG 2 cut(s) 62, 1300
BsrI ACTGG 2 cut(s) 703, 789
BssMI GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
BssSI CACGAG 1 cut(s) 1397
Bst2BI CACGAG 1 cut(s) 1397
Bst4CI ACNGT 2 cut(s) 647, 1272
Bst6I CTCTTC 3 cut(s) 494, 1029, 1275
BstC8I GCNNGC 1 cut(s) 759
BstDEI CTNAG 9 cut(s) 85, 428, 553, 611, 833, 945, 1086, 1289, 1455
BstENI CCTNNNNNAGG 1 cut(s) 581
BstF5I GGATG 7 cut(s) 279, 520, 573, 842, 1078, 1375, 1572
BstHHI GCGC 1 cut(s) 1203
BstKTI GATC 8 cut(s) 97, 107, 397, 1113, 1396, 1438, 1687, 1713
BstMAI GTCTC 2 cut(s) 610, 872
BstMBI GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
BstMWI GCNNNNNNNGC 1 cut(s) 300
BstNSI RCATGY 1 cut(s) 665
BstV1I GCAGC 3 cut(s) 445, 1102, 1462
BstV2I GAAGAC 1 cut(s) 750
BstX2I RGATCY 3 cut(s) 1110, 1393, 1710
BstXI CCANNNNNNTGG 1 cut(s) 664
BstYI RGATCY 3 cut(s) 1110, 1393, 1710
BsuRI GGCC 4 cut(s) 294, 545, 668, 1262
BtgZI GCGATG 1 cut(s) 1485
BtsCI GGATG 7 cut(s) 279, 520, 573, 842, 1078, 1375, 1572
BtsIMutI CAGTG 1 cut(s) 710
Cac8I GCNNGC 1 cut(s) 759
CfoI GCGC 1 cut(s) 1203
Csp6I GTAC 6 cut(s) 89, 489, 949, 1124, 1252, 1285
CspCI CAANNNNNGTGG 2 cut(s) 760, 795
CviQI GTAC 6 cut(s) 89, 489, 949, 1124, 1252, 1285
DdeI CTNAG 9 cut(s) 85, 428, 553, 611, 833, 945, 1086, 1289, 1455
DpnI GATC 8 cut(s) 96, 106, 396, 1112, 1395, 1437, 1686, 1712
DpnII GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
DriI GACNNNNNGTC 1 cut(s) 1270
Eam1104I CTCTTC 3 cut(s) 494, 1029, 1275
Eam1105I GACNNNNNGTC 1 cut(s) 1270
EarI CTCTTC 3 cut(s) 494, 1029, 1275
Eco147I AGGCCT 2 cut(s) 294, 545
Eco31I GGTCTC 2 cut(s) 610, 872
Eco57I CTGAAG 1 cut(s) 1500
Eco88I CYCGRG 2 cut(s) 1641, 1701
EcoNI CCTNNNNNAGG 1 cut(s) 581
EcoRI GAATTC 1 cut(s) 186
EcoT22I ATGCAT 2 cut(s) 1339, 1564
FalI AAGNNNNNCTT 2 cut(s) 1272, 1304
FaqI GGGAC 2 cut(s) 1711, 1719
FbaI TGATCA 2 cut(s) 94, 1684
Fnu4HI GCNGC 4 cut(s) 434, 1091, 1452, 1476
FokI GGATG 7 cut(s) 266, 527, 560, 829, 1085, 1382, 1579
Fsp4HI GCNGC 4 cut(s) 434, 1091, 1452, 1476
FspBI CTAG 5 cut(s) 254, 290, 332, 578, 1724
FspI TGCGCA 1 cut(s) 1202
GlaI GCGC 1 cut(s) 1202
GluI GCNGC 4 cut(s) 434, 1091, 1452, 1476
HaeIII GGCC 4 cut(s) 294, 545, 668, 1262
HapII CCGG 1 cut(s) 1097
HhaI GCGC 1 cut(s) 1203
Hin6I GCGC 1 cut(s) 1201
HinP1I GCGC 1 cut(s) 1201
HindIII AAGCTT 2 cut(s) 591, 680
HinfI GANTC 6 cut(s) 149, 193, 424, 699, 1425, 1699
HpaII CCGG 1 cut(s) 1097
HphI GGTGA 5 cut(s) 242, 404, 578, 1042, 1694
Hpy166II GTNNAC 2 cut(s) 251, 1212
Hpy188I TCNGA 9 cut(s) 73, 192, 198, 388, 429, 614, 1179, 1416, 1519
Hpy188III TCNNGA 4 cut(s) 1097, 1601, 1664, 1688
Hpy8I GTNNAC 2 cut(s) 251, 1212
HpyAV CCTTC 5 cut(s) 90, 307, 385, 557, 1165
HpyCH4III ACNGT 2 cut(s) 647, 1272
HpyCH4IV ACGT 1 cut(s) 1008
HpyCH4V TGCA 9 cut(s) 16, 22, 55, 651, 890, 1337, 1381, 1404, 1562
HpyF10VI GCNNNNNNNGC 1 cut(s) 300
HpyF3I CTNAG 9 cut(s) 85, 428, 553, 611, 833, 945, 1086, 1289, 1455
HpySE526I ACGT 1 cut(s) 1008
HspAI GCGC 1 cut(s) 1201
Kpn2I TCCGGA 1 cut(s) 1096
Ksp22I TGATCA 2 cut(s) 94, 1684
Kzo9I GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
LguI GCTCTTC 2 cut(s) 494, 1029
LmnI GCTCC 1 cut(s) 265
LpnPI CCDG 6 cut(s) 716, 770, 848, 1110, 1424, 1614
Lsp1109I GCAGC 3 cut(s) 445, 1102, 1462
LweI GCATC 4 cut(s) 288, 353, 851, 1462
MaeI CTAG 5 cut(s) 254, 290, 332, 578, 1724
MaeII ACGT 1 cut(s) 1008
MaeIII GTNAC 2 cut(s) 179, 1649
MalI GATC 8 cut(s) 96, 106, 396, 1112, 1395, 1437, 1686, 1712
MboI GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
MflI RGATCY 3 cut(s) 1110, 1393, 1710
MhlI GDGCHC 1 cut(s) 506
MluCI AATT 9 cut(s) 112, 164, 186, 242, 483, 985, 1146, 1373, 1605
MlyI GAGTC 3 cut(s) 708, 1419, 1693
MmeI TCCRAC 4 cut(s) 243, 1011, 1157, 1280
Mph1103I ATGCAT 2 cut(s) 1339, 1564
MroI TCCGGA 1 cut(s) 1096
MseI TTAA 9 cut(s) 156, 216, 420, 494, 599, 711, 795, 1430, 1741
MslI CAYNNNNRTG 2 cut(s) 847, 1386
MspI CCGG 1 cut(s) 1097
Mva1269I GAATGC 3 cut(s) 531, 1337, 1516
MwoI GCNNNNNNNGC 1 cut(s) 300
NdeII GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
NlaIV GGNNCC 1 cut(s) 1181
NmuCI GTSAC 1 cut(s) 1649
NsbI TGCGCA 1 cut(s) 1202
NsiI ATGCAT 2 cut(s) 1339, 1564
NspI RCATGY 1 cut(s) 665
PaeR7I CTCGAG 1 cut(s) 1641
PceI AGGCCT 2 cut(s) 294, 545
PciSI GCTCTTC 2 cut(s) 494, 1029
PctI GAATGC 3 cut(s) 531, 1337, 1516
PfeI GAWTC 3 cut(s) 149, 193, 424
PflMI CCANNNNNTGG 1 cut(s) 852
PkrI GCNGC 4 cut(s) 435, 1092, 1453, 1477
PleI GAGTC 3 cut(s) 707, 1419, 1693
PpsI GAGTC 3 cut(s) 707, 1419, 1693
PsiI TTATAA 1 cut(s) 444
PspN4I GGNNCC 1 cut(s) 1181
PspXI VCTCGAGB 1 cut(s) 1641
PsuI RGATCY 3 cut(s) 1110, 1393, 1710
RsaI GTAC 6 cut(s) 90, 490, 950, 1125, 1253, 1286
RsaNI GTAC 6 cut(s) 89, 489, 949, 1124, 1252, 1285
RseI CAYNNNNRTG 2 cut(s) 847, 1386
SapI GCTCTTC 2 cut(s) 494, 1029
SaqAI TTAA 9 cut(s) 156, 216, 420, 494, 599, 711, 795, 1430, 1741
SatI GCNGC 4 cut(s) 434, 1091, 1452, 1476
Sau3AI GATC 8 cut(s) 94, 104, 394, 1110, 1393, 1435, 1684, 1710
ScaI AGTACT 1 cut(s) 1125
SchI GAGTC 3 cut(s) 708, 1419, 1693
SduI GDGCHC 1 cut(s) 506
SfaNI GCATC 4 cut(s) 288, 353, 851, 1462
Sfr274I CTCGAG 1 cut(s) 1641
SlaI CTCGAG 1 cut(s) 1641
SmiMI CAYNNNNRTG 2 cut(s) 847, 1386
SmlI CTYRAG 2 cut(s) 1593, 1641
SmoI CTYRAG 2 cut(s) 1593, 1641
SpeI ACTAGT 1 cut(s) 1723
Sse9I AATT 9 cut(s) 112, 164, 186, 242, 483, 985, 1146, 1373, 1605
SseBI AGGCCT 2 cut(s) 294, 545
SsiI CCGC 2 cut(s) 1451, 1733
SspI AATATT 1 cut(s) 127
SspMI CTAG 5 cut(s) 254, 290, 332, 578, 1724
StuI AGGCCT 2 cut(s) 294, 545
TaaI ACNGT 2 cut(s) 647, 1272
TaiI ACGT 1 cut(s) 1011
TaqI TCGA 8 cut(s) 351, 531, 906, 939, 1161, 1423, 1531, 1642
TasI AATT 9 cut(s) 112, 164, 186, 242, 483, 985, 1146, 1373, 1605
TatI WGTACW 3 cut(s) 88, 948, 1123
TauI GCSGC 1 cut(s) 1454
TfiI GAWTC 3 cut(s) 149, 193, 424
Tru1I TTAA 9 cut(s) 156, 216, 420, 494, 599, 711, 795, 1430, 1741
Tru9I TTAA 9 cut(s) 156, 216, 420, 494, 599, 711, 795, 1430, 1741
TscAI CASTG 1 cut(s) 710
TseFI GTSAC 1 cut(s) 1649
TseI GCWGC 3 cut(s) 433, 1090, 1475
Tsp45I GTSAC 1 cut(s) 1649
TspRI CASTG 1 cut(s) 710
Van91I CCANNNNNTGG 1 cut(s) 852
XagI CCTNNNNNAGG 1 cut(s) 581
XapI RAATTY 4 cut(s) 164, 186, 1373, 1605
XceI RCATGY 1 cut(s) 665
XhoI CTCGAG 1 cut(s) 1641
XspI CTAG 5 cut(s) 254, 290, 332, 578, 1724
ZrmI AGTACT 1 cut(s) 1125
Zsp2I ATGCAT 2 cut(s) 1339, 1564
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.