Rroxscaffold_2G00147770

Lycopene epsilon cyclase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0012912
Physical Location & Seq
Reverse (-)
85466300 .. 85469707
3408 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00147770.1

Sequence Viewer

Length: 1635 bp
ATGGACTGCGTTGGAATCGGAGCTCGGAACTTTACGGCAATGACGGTGTCGTTTTGCCCCACTGGGAGAAGAGGGTTTATCCCAAGTACTAGAAAGGAAGCTTCTTTCTTTCGCTACGGTGCTTTGTGTAACAAGCATTCTCTGCTCCAAGTGAGAGCCACTGCCGAAAGTGTGGCTGTCAAGGAAGGCTTTGCGGATGAAGAAGATTATGTGAAGGGCGGTGGGTCGGAGCTTCTTTTCGTCCAAATGCAGCAGAACAAGGCCATGGAGAAACAGTCTAAACTCGTCGATAAGCTGCCGCCAATAAGGGATGATGTACTGGATTTAGTGGTGATTGGTTGTGGTCCGGCGGGTCTTGCTCTGGCTGCCGAGTCGGCTAAGTTGGGATTGAAAGTTGGGCTCATTGGCCCTGACCTGCCTTTCACAAACAACTATGGTGTTTGGGAAGATGAATTCAAAGACCTTGGACTAGAAGGGTGTATTGAGCATGTTTGGCAGGACACCATTGTGTATCTTGATGACGAAAGCGACCCCATTTTGTTCGGTCGTGCTTACGGTCGTGTGTGTCGAAATTTGCTCCATGAGGAGCTTTTGAGAAGGTGTGTAGAGTCAGGTGTTTCATACCTTAGTTCAAGGGTGGAGAGTATTGTTGAAGGTAGCAATGGCCATAGCCTTATAGCATGTGAGCATGGTATCCATGTCTCCTCTAGGCTTGCTACTGTTGCATCAGGAGCTGCTTCAGGGAAGCTTTTGCAATATGAGGTGGGTGGTCCAAAGGTCTCTGTCCAAACAGCTTATGGAGTGGAGGTTGAGGTGGAAAGTTATCCATATGATCCCAACCTGATGATTTTCATGGATTATAGAGACTACACAAAAAAAAAAGTTTCATGTTTGGAAGCAGAATATCCCACATTTCTTTATGCCATGGCCATGTCCCCAACAAGAATATTCTTTGAGGAAACTTGCTTGGCTTCGAAAGATGCCATGCCTTTTGATTTATTGAAGAAAAAGCTCTTGTCAAGGTTAAAGACATTGGGAATCCGTATTGTAAAAACTTATGAAGAGGGGTATAACTTTGCAATAATCAATGTAGGAATGGTCTTGGATTCCAGTTGGGGGTCATTACCGAATACAGAGCAAAAGAATTTGGCATTTGGTGCTGCTGCTAGCATGGTACATCCAGCCACAGGGTACTCAGTTGTGAGATCTTTGTCGGAGGCCCCAAAATATGCTTCTGTGATTGCAAAGATTTTGAAGCAGGATCATCCTAAGGCCAGTCTTAGCCGTCAAATAAATAATCAGAATATCTCAATGCAAGCCTGGAATACCCTCTGGCCACCGGAAAGGAAACGCCAAAGATCATTCTTCCTGTTTGGACTAGCGCTCATTCTGCAACTGGACATTGAGGGCATTAGGACATTCTTCGATACCTTCTTCCGCTTACCTACTTGGATGTGGCAGGGTTTTCTCGGGTCTTCTCTGTCCTCGGCTGATCTCATGCTCTTTGCCTTGTATATGTTTGTTATAGCACCAAATAGTTTGAGAAGTCGTCTTGTCAAACATCTATTATCAGATCCTACTGGAGCCACTATGATAAAAACCTATCTCACGGCAAACTTGAATTCCTTCCCTTAG

Protein Analysis

544

Amino Acids

60.42

Weight (kDa)

6.77

Isoelectric Point (pI)

39.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Lycopene_cycl PF05834 108 - 515 9.4e-141 Lycopene cyclase protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 423
AciI CCGC 5 cut(s) 194, 219, 299, 350, 1438
AclWI GGATC 3 cut(s) 827, 1269, 1568
AcoI YGGCCR 3 cut(s) 664, 927, 1334
AcsI RAATTY 4 cut(s) 452, 571, 1144, 1621
AcuI CTGAAG 1 cut(s) 723
AfaI GTAC 4 cut(s) 88, 318, 1176, 1193
AfeI AGCGCT 1 cut(s) 1383
AfiI CCNNNNNNNGG 2 cut(s) 1116, 1187
AgsI TTSAA 7 cut(s) 391, 457, 633, 653, 1003, 1255, 1621
AjnI CCWGG 1 cut(s) 1319
AjuI GAANNNNNNNTTGG 2 cut(s) 1216, 1248
AleI CACNNNNGTG 1 cut(s) 506
AluBI AGCT 9 cut(s) 23, 101, 232, 295, 589, 734, 748, 794, 1012
AluI AGCT 9 cut(s) 23, 101, 232, 295, 589, 734, 748, 794, 1012
Alw21I GWGCWC 1 cut(s) 25
Alw26I GTCTC 3 cut(s) 706, 784, 858
AlwI GGATC 3 cut(s) 827, 1269, 1568
AlwNI CAGNNNCTG 1 cut(s) 734
Ama87I CYCGRG 1 cut(s) 1469
Aor51HI AGCGCT 1 cut(s) 1383
AoxI GGCC 7 cut(s) 261, 406, 664, 927, 1218, 1272, 1334
ApeKI GCWGC 6 cut(s) 250, 295, 365, 734, 1160, 1163
ApoI RAATTY 4 cut(s) 452, 571, 1144, 1621
Asp700I GAANNNNTTC 1 cut(s) 1625
AspLEI GCGC 1 cut(s) 1384
AspS9I GGNCC 4 cut(s) 344, 407, 770, 1219
AsuHPI GGTGA 1 cut(s) 343
AsuII TTCGAA 1 cut(s) 974
AsuNHI GCTAGC 1 cut(s) 1166
AvaI CYCGRG 1 cut(s) 1469
AvaII GGWCC 2 cut(s) 344, 770
AxyI CCTNAGG 1 cut(s) 1269
BalI TGGCCA 3 cut(s) 666, 929, 1336
BanII GRGCYC 2 cut(s) 25, 402
BbsI GAAGAC 1 cut(s) 1467
Bbv12I GWGCWC 1 cut(s) 25
BbvI GCAGC 6 cut(s) 262, 282, 352, 721, 1147, 1150
BceAI ACGGC 3 cut(s) 51, 1269, 1626
BciT130I CCWGG 1 cut(s) 1321
BciVI GTATCC 1 cut(s) 704
BcoDI GTCTC 3 cut(s) 706, 784, 858
BfaI CTAG 5 cut(s) 90, 470, 708, 1167, 1379
BfoI RGCGCY 1 cut(s) 1385
BfuAI ACCTGC 1 cut(s) 423
BfuI GTATCC 1 cut(s) 704
BglI GCCNNNNNGGC 1 cut(s) 374
BglII AGATCT 1 cut(s) 1205
BisI GCNGC 7 cut(s) 251, 296, 299, 366, 735, 1161, 1164
BlsI GCNGC 7 cut(s) 252, 297, 300, 367, 736, 1162, 1165
BmcAI AGTACT 1 cut(s) 88
Bme1390I CCNGG 1 cut(s) 1321
Bme18I GGWCC 2 cut(s) 344, 770
BmeT110I CYCGRG 1 cut(s) 1469
BmgT120I GGNCC 4 cut(s) 344, 407, 770, 1219
BmiI GGNNCC 2 cut(s) 1221, 1585
BmrFI CCNGG 1 cut(s) 1321
BmrI ACTGGG 1 cut(s) 72
BmsI GCATC 2 cut(s) 734, 970
BmtI GCTAGC 1 cut(s) 1170
BmuI ACTGGG 1 cut(s) 72
BpiI GAAGAC 1 cut(s) 1467
BpmI CTGGAG 1 cut(s) 1602
Bpu14I TTCGAA 1 cut(s) 974
BsaI GGTCTC 1 cut(s) 784
BsaJI CCNNGG 4 cut(s) 264, 463, 924, 1485
BsaWI WCCGGW 1 cut(s) 1339
BsaXI ACNNNNNCTCC 4 cut(s) 260, 290, 792, 822
Bsc4I CCNNNNNNNGG 2 cut(s) 1116, 1187
Bse1I ACTGG 6 cut(s) 67, 324, 1110, 1275, 1401, 1585
Bse21I CCTNAGG 1 cut(s) 1269
Bse3DI GCAATG 2 cut(s) 45, 667
BseBI CCWGG 1 cut(s) 1321
BseDI CCNNGG 4 cut(s) 264, 463, 924, 1485
BseGI GGATG 5 cut(s) 202, 316, 1177, 1264, 1458
BseLI CCNNNNNNNGG 2 cut(s) 1116, 1187
BseMI GCAATG 2 cut(s) 45, 667
BseMII CTCAG 1 cut(s) 1209
BseNI ACTGG 6 cut(s) 67, 324, 1110, 1275, 1401, 1585
BseRI GAGGAG 2 cut(s) 599, 694
BseXI GCAGC 6 cut(s) 262, 282, 352, 721, 1147, 1150
Bsh1285I CGRYCG 2 cut(s) 547, 559
BshFI GGCC 7 cut(s) 263, 408, 666, 929, 1220, 1274, 1336
BsiEI CGRYCG 2 cut(s) 547, 559
BsiHKAI GWGCWC 1 cut(s) 25
BsiHKCI CYCGRG 1 cut(s) 1469
BsiSI CCGG 2 cut(s) 347, 1340
BslFI GGGAC 1 cut(s) 919
BslI CCNNNNNNNGG 2 cut(s) 1116, 1187
BsmAI GTCTC 3 cut(s) 706, 784, 858
BsmFI GGGAC 1 cut(s) 919
BsmI GAATGC 1 cut(s) 136
BsnI GGCC 7 cut(s) 263, 408, 666, 929, 1220, 1274, 1336
Bso31I GGTCTC 1 cut(s) 784
BsoBI CYCGRG 1 cut(s) 1469
Bsp119I TTCGAA 1 cut(s) 974
Bsp1286I GDGCHC 2 cut(s) 25, 402
Bsp143I GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
Bsp19I CCATGG 2 cut(s) 264, 924
BspACI CCGC 5 cut(s) 194, 219, 299, 350, 1438
BspANI GGCC 7 cut(s) 263, 408, 666, 929, 1220, 1274, 1336
BspCNI CTCAG 1 cut(s) 1208
BspLI GGNNCC 2 cut(s) 1221, 1585
BspMI ACCTGC 1 cut(s) 423
BspOI GCTAGC 1 cut(s) 1170
BspPI GGATC 3 cut(s) 827, 1269, 1568
BspT104I TTCGAA 1 cut(s) 974
BspTNI GGTCTC 1 cut(s) 784
BsrDI GCAATG 2 cut(s) 45, 667
BsrI ACTGG 6 cut(s) 67, 324, 1110, 1275, 1401, 1585
BssECI CCNNGG 4 cut(s) 264, 463, 924, 1485
BssMI GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
BssT1I CCWWGG 3 cut(s) 264, 463, 924
Bst2UI CCWGG 1 cut(s) 1321
Bst4CI ACNGT 5 cut(s) 46, 119, 276, 557, 721
Bst6I CTCTTC 2 cut(s) 64, 1056
BstAPI GCANNNNNTGC 2 cut(s) 142, 1157
BstBI TTCGAA 1 cut(s) 974
BstC8I GCNNGC 3 cut(s) 714, 1168, 1317
BstDEI CTNAG 6 cut(s) 378, 626, 1195, 1269, 1280, 1632
BstDSI CCRYGG 2 cut(s) 264, 924
BstF5I GGATG 5 cut(s) 202, 316, 1177, 1264, 1458
BstH2I RGCGCY 1 cut(s) 1385
BstHHI GCGC 1 cut(s) 1384
BstKTI GATC 6 cut(s) 835, 1208, 1264, 1361, 1495, 1576
BstMAI GTCTC 3 cut(s) 706, 784, 858
BstMBI GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
BstMCI CGRYCG 2 cut(s) 547, 559
BstMWI GCNNNNNNNGC 9 cut(s) 142, 356, 365, 374, 493, 722, 731, 1157, 1390
BstNI CCWGG 1 cut(s) 1321
BstNSI RCATGY 2 cut(s) 491, 684
BstSCI CCNGG 1 cut(s) 1319
BstV1I GCAGC 6 cut(s) 262, 282, 352, 721, 1147, 1150
BstV2I GAAGAC 1 cut(s) 1467
BstX2I RGATCY 2 cut(s) 1205, 1573
BstYI RGATCY 2 cut(s) 1205, 1573
Bsu36I CCTNAGG 1 cut(s) 1269
BsuI GTATCC 1 cut(s) 704
BsuRI GGCC 7 cut(s) 263, 408, 666, 929, 1220, 1274, 1336
BtgI CCRYGG 2 cut(s) 264, 924
BtsCI GGATG 5 cut(s) 202, 316, 1177, 1264, 1458
BtsI GCAGTG 1 cut(s) 159
BtsIMutI CAGTG 2 cut(s) 60, 159
BveI ACCTGC 1 cut(s) 423
Cac8I GCNNGC 3 cut(s) 714, 1168, 1317
CaiI CAGNNNCTG 1 cut(s) 734
CfoI GCGC 1 cut(s) 1384
Cfr13I GGNCC 4 cut(s) 344, 407, 770, 1219
Csp6I GTAC 4 cut(s) 87, 317, 1175, 1192
CviQI GTAC 4 cut(s) 87, 317, 1175, 1192
DdeI CTNAG 6 cut(s) 378, 626, 1195, 1269, 1280, 1632
DpnI GATC 6 cut(s) 834, 1207, 1263, 1360, 1494, 1575
DpnII GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
EaeI YGGCCR 3 cut(s) 664, 927, 1334
Eam1104I CTCTTC 2 cut(s) 64, 1056
EarI CTCTTC 2 cut(s) 64, 1056
Ecl136II GAGCTC 1 cut(s) 23
Eco130I CCWWGG 3 cut(s) 264, 463, 924
Eco24I GRGCYC 2 cut(s) 25, 402
Eco31I GGTCTC 1 cut(s) 784
Eco47I GGWCC 2 cut(s) 344, 770
Eco47III AGCGCT 1 cut(s) 1383
Eco53kI GAGCTC 1 cut(s) 23
Eco57I CTGAAG 1 cut(s) 723
Eco81I CCTNAGG 1 cut(s) 1269
Eco88I CYCGRG 1 cut(s) 1469
EcoICRI GAGCTC 1 cut(s) 23
EcoO109I RGGNCCY 1 cut(s) 1219
EcoRI GAATTC 2 cut(s) 452, 1621
EcoRII CCWGG 1 cut(s) 1319
EcoT14I CCWWGG 3 cut(s) 264, 463, 924
EcoT38I GRGCYC 2 cut(s) 25, 402
ErhI CCWWGG 3 cut(s) 264, 463, 924
FalI AAGNNNNNCTT 2 cut(s) 173, 205
FaqI GGGAC 1 cut(s) 919
FauI CCCGC 1 cut(s) 343
FauNDI CATATG 1 cut(s) 829
Fnu4HI GCNGC 7 cut(s) 251, 296, 299, 366, 735, 1161, 1164
FokI GGATG 5 cut(s) 209, 323, 1164, 1251, 1465
FriOI GRGCYC 2 cut(s) 25, 402
Fsp4HI GCNGC 7 cut(s) 251, 296, 299, 366, 735, 1161, 1164
FspBI CTAG 5 cut(s) 90, 470, 708, 1167, 1379
GlaI GCGC 1 cut(s) 1383
GluI GCNGC 7 cut(s) 251, 296, 299, 366, 735, 1161, 1164
GsuI CTGGAG 1 cut(s) 1602
HaeII RGCGCY 1 cut(s) 1385
HaeIII GGCC 7 cut(s) 263, 408, 666, 929, 1220, 1274, 1336
HapII CCGG 2 cut(s) 347, 1340
HhaI GCGC 1 cut(s) 1384
Hin6I GCGC 1 cut(s) 1382
HinP1I GCGC 1 cut(s) 1382
HindIII AAGCTT 2 cut(s) 99, 746
HinfI GANTC 5 cut(s) 15, 371, 608, 1038, 1106
HpaII CCGG 2 cut(s) 347, 1340
HphI GGTGA 1 cut(s) 343
Hpy188I TCNGA 6 cut(s) 20, 27, 229, 1216, 1302, 1573
Hpy188III TCNNGA 2 cut(s) 515, 729
Hpy99I CGWCG 1 cut(s) 290
HpyAV CCTTC 6 cut(s) 179, 208, 467, 591, 647, 1441
HpyCH4III ACNGT 5 cut(s) 46, 119, 276, 557, 721
HpyCH4V TGCA 7 cut(s) 250, 725, 754, 1079, 1244, 1315, 1393
HpyF10VI GCNNNNNNNGC 9 cut(s) 142, 356, 365, 374, 493, 722, 731, 1157, 1390
HpyF3I CTNAG 6 cut(s) 378, 626, 1195, 1269, 1280, 1632
HspAI GCGC 1 cut(s) 1382
Kzo9I GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
LmnI GCTCC 7 cut(s) 20, 150, 229, 582, 586, 731, 1583
Lsp1109I GCAGC 6 cut(s) 262, 282, 352, 721, 1147, 1150
LweI GCATC 2 cut(s) 734, 970
MaeI CTAG 5 cut(s) 90, 470, 708, 1167, 1379
MaeIII GTNAC 1 cut(s) 128
MalI GATC 6 cut(s) 834, 1207, 1263, 1360, 1494, 1575
MboI GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
MflI RGATCY 2 cut(s) 1205, 1573
MhlI GDGCHC 2 cut(s) 25, 402
MlsI TGGCCA 3 cut(s) 666, 929, 1336
MluCI AATT 4 cut(s) 452, 571, 1144, 1621
MluNI TGGCCA 3 cut(s) 666, 929, 1336
MlyI GAGTC 2 cut(s) 380, 617
MmeI TCCRAC 2 cut(s) 207, 1194
Mox20I TGGCCA 3 cut(s) 666, 929, 1336
MroXI GAANNNNTTC 1 cut(s) 1625
MscI TGGCCA 3 cut(s) 666, 929, 1336
MseI TTAA 1 cut(s) 1025
MslI CAYNNNNRTG 2 cut(s) 506, 929
Msp20I TGGCCA 3 cut(s) 666, 929, 1336
MspI CCGG 2 cut(s) 347, 1340
MspR9I CCNGG 1 cut(s) 1321
Mva1269I GAATGC 1 cut(s) 136
MvaI CCWGG 1 cut(s) 1321
MwoI GCNNNNNNNGC 9 cut(s) 142, 356, 365, 374, 493, 722, 731, 1157, 1390
NcoI CCATGG 2 cut(s) 264, 924
NdeI CATATG 1 cut(s) 829
NdeII GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
NheI GCTAGC 1 cut(s) 1166
NlaIV GGNNCC 2 cut(s) 1221, 1585
NmeAIII GCCGAG 2 cut(s) 394, 1466
NspI RCATGY 2 cut(s) 491, 684
NspV TTCGAA 1 cut(s) 974
OliI CACNNNNGTG 1 cut(s) 506
PcsI WCGNNNNNNNCGW 1 cut(s) 565
PctI GAATGC 1 cut(s) 136
PdmI GAANNNNTTC 1 cut(s) 1625
PfeI GAWTC 3 cut(s) 15, 1038, 1106
PflFI GACNNNGTC 1 cut(s) 46
PkrI GCNGC 7 cut(s) 252, 297, 300, 367, 736, 1162, 1165
PleI GAGTC 2 cut(s) 379, 616
PpsI GAGTC 2 cut(s) 379, 616
Psp124BI GAGCTC 1 cut(s) 25
Psp6I CCWGG 1 cut(s) 1319
PspGI CCWGG 1 cut(s) 1319
PspN4I GGNNCC 2 cut(s) 1221, 1585
PspPI GGNCC 4 cut(s) 344, 407, 770, 1219
PstNI CAGNNNCTG 1 cut(s) 734
PsuI RGATCY 2 cut(s) 1205, 1573
PsyI GACNNNGTC 1 cut(s) 46
RsaI GTAC 4 cut(s) 88, 318, 1176, 1193
RsaNI GTAC 4 cut(s) 87, 317, 1175, 1192
RseI CAYNNNNRTG 2 cut(s) 506, 929
SacI GAGCTC 1 cut(s) 25
SaqAI TTAA 1 cut(s) 1025
SatI GCNGC 7 cut(s) 251, 296, 299, 366, 735, 1161, 1164
Sau3AI GATC 6 cut(s) 832, 1205, 1261, 1358, 1492, 1573
Sau96I GGNCC 4 cut(s) 344, 407, 770, 1219
ScaI AGTACT 1 cut(s) 88
SchI GAGTC 2 cut(s) 380, 617
ScrFI CCNGG 1 cut(s) 1321
SduI GDGCHC 2 cut(s) 25, 402
SfaNI GCATC 2 cut(s) 734, 970
SfuI TTCGAA 1 cut(s) 974
SinI GGWCC 2 cut(s) 344, 770
SmiMI CAYNNNNRTG 2 cut(s) 506, 929
Sse9I AATT 4 cut(s) 452, 571, 1144, 1621
SsiI CCGC 5 cut(s) 194, 219, 299, 350, 1438
SspI AATATT 1 cut(s) 948
SspMI CTAG 5 cut(s) 90, 470, 708, 1167, 1379
SstI GAGCTC 1 cut(s) 25
StyD4I CCNGG 1 cut(s) 1319
StyI CCWWGG 3 cut(s) 264, 463, 924
TaaI ACNGT 5 cut(s) 46, 119, 276, 557, 721
TaqI TCGA 4 cut(s) 288, 568, 974, 1425
TaqII GACCGA 1 cut(s) 533
TasI AATT 4 cut(s) 452, 571, 1144, 1621
TatI WGTACW 2 cut(s) 86, 316
TauI GCSGC 1 cut(s) 301
TfiI GAWTC 3 cut(s) 15, 1038, 1106
Tru1I TTAA 1 cut(s) 1025
Tru9I TTAA 1 cut(s) 1025
TscAI CASTG 2 cut(s) 67, 166
TseI GCWGC 6 cut(s) 250, 295, 365, 734, 1160, 1163
TspDTI ATGAA 6 cut(s) 213, 465, 609, 841, 876, 1074
TspGWI ACGGA 1 cut(s) 1031
TspRI CASTG 2 cut(s) 67, 166
Tth111I GACNNNGTC 1 cut(s) 46
VpaK11BI GGWCC 2 cut(s) 344, 770
XapI RAATTY 4 cut(s) 452, 571, 1144, 1621
XceI RCATGY 2 cut(s) 491, 684
XcmI CCANNNNNNNNNTGG 1 cut(s) 794
XmnI GAANNNNTTC 1 cut(s) 1625
XspI CTAG 5 cut(s) 90, 470, 708, 1167, 1379
ZrmI AGTACT 1 cut(s) 88
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.