Rw2G021200

Violaxanthin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0005484
Physical Location & Seq
Forward (+)
29238262 .. 29240248
1987 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G021200.1

Sequence Viewer

Length: 1623 bp
ATGGCTCTGGAAGCTCCCCTTCTTCACAAACCCACAACCCGATTTTCATTCAACCACAGCCGTGTCGCCGCCTCTGCCGCCGCTTTTCTTCGACTTCACAGAGGAGGACCTCATTCCCCATTCTCCGTCGGGAAAACCAATCGTCGTGTCCCAACTACCATATTGGCGGCTAAGGCGGGTGCTGTGACGGAGCCGGTGACGCAATTGGAGTCAAAGCCGGTGAGAATAGTAGCCCTCGTCGGCAAAGGTAGCGTCAGCCCTCTCAAGGCTACACCTTGGGAAGACGTCATGCTCCACACCGTGAAACGACTGAAATGGGTAGATGAAGGGTTTGAGATGGTTGTATTTACGGATGATATCTTCCAATCTAATGATCAAAATGTGGTGAGTTTCCGGGTGGAATTACAACGTGCTGATATTTTGGTAATCGTTGCTGTTACGAATCAAGAATCCGTCAAGTGGATTCAAGCTAATAGTGGGAATATTCAAAACATAATCTGTTTTGACTCATCTCCCAATTTGCAAAACAAGTTAGGAGGATCTTATATTCACGGTGCAGGCAAAGGAGATATCTTTGGCAAAATGTTTGACACTGCCGAATCAAAGAAAAGCAGTGAATCAATGGAAGTGGTACAGACTGTGTCACAGGCGTGGGAGCGGCATAACTCTGATGATATAAGGTTTTGTTTGTTGGTTATAATCAATGGGTATATAAGACCGGTGCCAATCCTGCAGAATCTGAGATCGAAAGGTCTTTCTACTCTGAGCTGCGTGGTGAAGAACTGTGGACCTCAGATACTGAACTGCCTCCTGGATCCCAATTGTAGGAAAGCTCTTCAATGCTTGAATGAGTGCAGTCCGGTGGATCAAGTGTGTAACTATCAGTGCATTGCTTCGTATGAGAGTCCAGTTCTAGAAGCTTTTTCTCTGTGTGCGTTGCAGAAGCACAATTGTCTTGGGTTGGATGCAAAGATCCCTGACAAACCATATGTGCCACCCATGGTTAAATTTCGAGGAAAGGACTTGTGCCACGAAACTGCTGAAGATCTTTTTGTTGGTTGGTTGGGAAGTTTGGATTGGAGTTGGCGTGTCGTGGCAGGACAGAACCCAGCATTTGATCAATTCCCTTGCCCGCACCAACTATTTTACAGGGGCAAGGCAAAAGGTTCATTTTGGTATGAGCCGGTTTTTCAGGTGAAAACGCTGGAGGGGAAGATGGTTTGGAGGAGGCGGAAGTATCGTGTCAAGAGAAACAAAGTCCCAGGGACATTCCAATTCAGTGTCTTAGACAATGGGGTTGTTTCAAGTGAGTCTTGGACAATCGTGGATGTAGCTGATGATCTTAGTTGGGGTTTGTTTTACTACTCCGGCGCTGCAAGAGTTGCTGGACAATCCTATACTGGCGCTGTGCTTGTCAGTCCAGATGGGGCATACCCAAATGATGTGCATAGGAGCAGATTAGTTTCCGCTTTGGAGAACTGTGGAATTAAAGAGTGGGAGCTGTTTACAGTTAACAATTCTTCGTGTGCTAATCCTCCATTGGGGATTCCTGAGGGTTCACGTTTGCATTCTGTGATAGAAGTTAAAGATCAGAAATCTTTGTCGGATTTGGCAGAGGTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF3479

Protein Analysis

540

Amino Acids

59.91

Weight (kDa)

8.49

Isoelectric Point (pI)

42.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VDE PF07137 256 - 506 1.2e-26 VDE lipocalin domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 698
AatII GACGTC 1 cut(s) 288
AccB1I GGYRCC 1 cut(s) 721
AccBSI CCGCTC 1 cut(s) 658
AciI CCGC 9 cut(s) 69, 78, 81, 167, 176, 658, 1133, 1231, 1467
AclWI GGATC 5 cut(s) 547, 809, 822, 873, 967
AcsI RAATTY 1 cut(s) 1007
AcuI CTGAAG 1 cut(s) 1062
AcyI GRCGYC 1 cut(s) 285
AdeI CACNNNGTG 1 cut(s) 301
AfaI GTAC 1 cut(s) 633
AfiI CCNNNNNNNGG 4 cut(s) 265, 459, 825, 1541
AgeI ACCGGT 1 cut(s) 718
AgsI TTSAA 6 cut(s) 52, 467, 488, 839, 847, 1305
AjnI CCWGG 2 cut(s) 810, 1261
AjuI GAANNNNNNNTTGG 2 cut(s) 1060, 1092
AleI CACNNNNGTG 2 cut(s) 60, 649
AluBI AGCT 7 cut(s) 14, 470, 768, 833, 920, 1334, 1501
AluI AGCT 7 cut(s) 14, 470, 768, 833, 920, 1334, 1501
AlwI GGATC 5 cut(s) 547, 809, 822, 873, 967
AlwNI CAGNNNCTG 2 cut(s) 739, 799
ApeKI GCWGC 2 cut(s) 768, 1373
ApoI RAATTY 1 cut(s) 1007
ArsI GACNNNNNNTTYG 2 cut(s) 237, 269
AsiGI ACCGGT 1 cut(s) 718
AspLEI GCGC 2 cut(s) 1373, 1406
AspS9I GGNCC 2 cut(s) 107, 788
AsuC2I CCSGG 1 cut(s) 395
AsuHPI GGTGA 5 cut(s) 208, 232, 397, 787, 1207
AvaII GGWCC 2 cut(s) 107, 788
AxyI CCTNAGG 1 cut(s) 1551
BamHI GGATCC 1 cut(s) 814
BanI GGYRCC 1 cut(s) 721
BbsI GAAGAC 1 cut(s) 288
BbvI GCAGC 2 cut(s) 755, 1360
BccI CCATC 3 cut(s) 331, 1210, 1418
BceAI ACGGC 1 cut(s) 45
BciT130I CCWGG 2 cut(s) 812, 1263
BclI TGATCA 2 cut(s) 373, 1117
BcnI CCSGG 1 cut(s) 395
BfaI CTAG 1 cut(s) 914
BfmI CTRYAG 1 cut(s) 731
BfoI RGCGCY 2 cut(s) 1374, 1407
BglII AGATCT 1 cut(s) 1045
BisI GCNGC 7 cut(s) 69, 78, 81, 168, 659, 769, 1374
BlsI GCNGC 7 cut(s) 70, 79, 82, 169, 660, 770, 1375
Bme1390I CCNGG 3 cut(s) 395, 812, 1263
Bme18I GGWCC 2 cut(s) 107, 788
BmgT120I GGNCC 2 cut(s) 107, 788
BmiI GGNNCC 3 cut(s) 192, 723, 816
BmrFI CCNGG 3 cut(s) 395, 812, 1263
BmsI GCATC 1 cut(s) 955
BpiI GAAGAC 1 cut(s) 288
BpmI CTGGAG 1 cut(s) 1226
Bpu10I CCTNAGC 1 cut(s) 171
BpuEI CTTGAG 1 cut(s) 248
BpuMI CCSGG 1 cut(s) 395
BsaHI GRCGYC 1 cut(s) 285
BsaJI CCNNGG 4 cut(s) 275, 999, 1261, 1262
BsaWI WCCGGW 2 cut(s) 718, 859
BsaXI ACNNNNNCTCC 2 cut(s) 1072, 1102
Bsc4I CCNNNNNNNGG 4 cut(s) 265, 459, 825, 1541
Bse118I RCCGGY 4 cut(s) 193, 217, 718, 1183
Bse1I ACTGG 2 cut(s) 908, 1405
Bse21I CCTNAGG 1 cut(s) 1551
Bse3DI GCAATG 1 cut(s) 888
BseBI CCWGG 2 cut(s) 812, 1263
BseDI CCNNGG 4 cut(s) 275, 999, 1261, 1262
BseGI GGATG 3 cut(s) 358, 970, 1333
BseLI CCNNNNNNNGG 4 cut(s) 265, 459, 825, 1541
BseMI GCAATG 1 cut(s) 888
BseMII CTCAG 4 cut(s) 731, 755, 806, 1542
BseNI ACTGG 2 cut(s) 908, 1405
BseRI GAGGAG 2 cut(s) 117, 1240
BseXI GCAGC 2 cut(s) 755, 1360
BseYI CCCAGC 1 cut(s) 1108
BsgI GTGCAG 2 cut(s) 576, 874
BshNI GGYRCC 1 cut(s) 721
BshTI ACCGGT 1 cut(s) 718
BsiSI CCGG 7 cut(s) 194, 218, 394, 719, 860, 1184, 1368
BslFI GGGAC 3 cut(s) 134, 1244, 1279
BslI CCNNNNNNNGG 4 cut(s) 265, 459, 825, 1541
BsmFI GGGAC 3 cut(s) 134, 1244, 1279
BsmI GAATGC 1 cut(s) 1567
Bsp19I CCATGG 1 cut(s) 999
BspACI CCGC 9 cut(s) 69, 78, 81, 167, 176, 658, 1133, 1231, 1467
BspCNI CTCAG 4 cut(s) 732, 756, 805, 1543
BspLI GGNNCC 3 cut(s) 192, 723, 816
BspMAI CTGCAG 1 cut(s) 735
BspPI GGATC 5 cut(s) 547, 809, 822, 873, 967
BspQI GCTCTTC 1 cut(s) 840
BspT107I GGYRCC 1 cut(s) 721
BsrBI CCGCTC 1 cut(s) 658
BsrDI GCAATG 1 cut(s) 888
BsrFI RCCGGY 4 cut(s) 193, 217, 718, 1183
BsrI ACTGG 2 cut(s) 908, 1405
BssAI RCCGGY 4 cut(s) 193, 217, 718, 1183
BssECI CCNNGG 4 cut(s) 275, 999, 1261, 1262
BssNI GRCGYC 1 cut(s) 285
BssT1I CCWWGG 2 cut(s) 275, 999
Bst2UI CCWGG 2 cut(s) 812, 1263
Bst4CI ACNGT 6 cut(s) 301, 554, 640, 785, 1481, 1510
Bst6I CTCTTC 1 cut(s) 840
BstACI GRCGYC 1 cut(s) 285
BstAPI GCANNNNNTGC 1 cut(s) 1382
BstC8I GCNNGC 2 cut(s) 559, 1133
BstDEI CTNAG 7 cut(s) 171, 740, 764, 792, 1285, 1343, 1551
BstDSI CCRYGG 1 cut(s) 999
BstF5I GGATG 3 cut(s) 358, 970, 1333
BstH2I RGCGCY 2 cut(s) 1374, 1407
BstHHI GCGC 2 cut(s) 1373, 1406
BstMWI GCNNNNNNNGC 8 cut(s) 11, 74, 77, 173, 199, 249, 730, 1382
BstNI CCWGG 2 cut(s) 812, 1263
BstSCI CCNGG 3 cut(s) 393, 810, 1261
BstSFI CTRYAG 1 cut(s) 731
BstV1I GCAGC 2 cut(s) 755, 1360
BstV2I GAAGAC 1 cut(s) 288
BstX2I RGATCY 4 cut(s) 539, 814, 972, 1045
BstYI RGATCY 4 cut(s) 539, 814, 972, 1045
Bsu36I CCTNAGG 1 cut(s) 1551
BtgI CCRYGG 1 cut(s) 999
BtsCI GGATG 3 cut(s) 358, 970, 1333
BtsI GCAGTG 2 cut(s) 591, 619
BtsIMutI CAGTG 4 cut(s) 591, 619, 890, 1285
Cac8I GCNNGC 2 cut(s) 559, 1133
CaiI CAGNNNCTG 2 cut(s) 739, 799
CfoI GCGC 2 cut(s) 1373, 1406
Cfr10I RCCGGY 4 cut(s) 193, 217, 718, 1183
Cfr13I GGNCC 2 cut(s) 107, 788
CseI GACGC 2 cut(s) 208, 241
Csp6I GTAC 1 cut(s) 632
CspAI ACCGGT 1 cut(s) 718
CspCI CAANNNNNGTGG 2 cut(s) 609, 644
CviAII CATG 2 cut(s) 289, 1000
CviQI GTAC 1 cut(s) 632
DdeI CTNAG 7 cut(s) 171, 740, 764, 792, 1285, 1343, 1551
DraIII CACNNNGTG 1 cut(s) 301
Eam1104I CTCTTC 1 cut(s) 840
EarI CTCTTC 1 cut(s) 840
EciI GGCGGA 1 cut(s) 1246
Eco130I CCWWGG 2 cut(s) 275, 999
Eco32I GATATC 2 cut(s) 358, 571
Eco47I GGWCC 2 cut(s) 107, 788
Eco57I CTGAAG 1 cut(s) 1062
Eco81I CCTNAGG 1 cut(s) 1551
EcoO109I RGGNCCY 1 cut(s) 107
EcoRII CCWGG 2 cut(s) 810, 1261
EcoRV GATATC 2 cut(s) 358, 571
EcoT14I CCWWGG 2 cut(s) 275, 999
ErhI CCWWGG 2 cut(s) 275, 999
FaeI CATG 2 cut(s) 292, 1003
FalI AAGNNNNNCTT 3 cut(s) 35, 1297, 1329
FaqI GGGAC 3 cut(s) 134, 1244, 1279
FatI CATG 2 cut(s) 288, 999
FauI CCCGC 2 cut(s) 169, 1140
FauNDI CATATG 1 cut(s) 988
FbaI TGATCA 2 cut(s) 373, 1117
Fnu4HI GCNGC 7 cut(s) 69, 78, 81, 168, 659, 769, 1374
FokI GGATG 3 cut(s) 365, 977, 1340
Fsp4HI GCNGC 7 cut(s) 69, 78, 81, 168, 659, 769, 1374
FspBI CTAG 1 cut(s) 914
GlaI GCGC 2 cut(s) 1372, 1405
GluI GCNGC 7 cut(s) 69, 78, 81, 168, 659, 769, 1374
GsaI CCCAGC 1 cut(s) 1112
GsuI CTGGAG 1 cut(s) 1226
HaeII RGCGCY 2 cut(s) 1374, 1407
HapII CCGG 7 cut(s) 194, 218, 394, 719, 860, 1184, 1368
HgaI GACGC 2 cut(s) 208, 241
HhaI GCGC 2 cut(s) 1373, 1406
Hin1I GRCGYC 1 cut(s) 285
Hin1II CATG 2 cut(s) 292, 1003
Hin6I GCGC 2 cut(s) 1371, 1404
HinP1I GCGC 2 cut(s) 1371, 1404
HincII GTYRAC 1 cut(s) 1513
HindII GTYRAC 1 cut(s) 1513
HindIII AAGCTT 1 cut(s) 918
HpaI GTTAAC 1 cut(s) 1513
HpaII CCGG 7 cut(s) 194, 218, 394, 719, 860, 1184, 1368
HphI GGTGA 5 cut(s) 208, 232, 397, 787, 1207
Hpy166II GTNNAC 4 cut(s) 788, 1506, 1513, 1559
Hpy188I TCNGA 6 cut(s) 670, 741, 765, 795, 1593, 1606
Hpy188III TCNNGA 7 cut(s) 8, 130, 446, 914, 1246, 1421, 1550
Hpy8I GTNNAC 4 cut(s) 788, 1506, 1513, 1559
Hpy99I CGWCG 3 cut(s) 131, 147, 242
HpyAV CCTTC 2 cut(s) 29, 320
HpyCH4III ACNGT 6 cut(s) 301, 554, 640, 785, 1481, 1510
HpyCH4IV ACGT 3 cut(s) 285, 409, 1561
HpyF10VI GCNNNNNNNGC 8 cut(s) 11, 74, 77, 173, 199, 249, 730, 1382
HpyF3I CTNAG 7 cut(s) 171, 740, 764, 792, 1285, 1343, 1551
HpySE526I ACGT 3 cut(s) 285, 409, 1561
Hsp92I GRCGYC 1 cut(s) 285
Hsp92II CATG 2 cut(s) 292, 1003
HspAI GCGC 2 cut(s) 1371, 1404
Ksp22I TGATCA 2 cut(s) 373, 1117
KspAI GTTAAC 1 cut(s) 1513
LguI GCTCTTC 1 cut(s) 840
LmnI GCTCC 6 cut(s) 19, 190, 297, 655, 1452, 1498
Lsp1109I GCAGC 2 cut(s) 755, 1360
LweI GCATC 1 cut(s) 955
MaeI CTAG 1 cut(s) 914
MaeII ACGT 3 cut(s) 285, 409, 1561
MaeIII GTNAC 5 cut(s) 184, 196, 436, 642, 875
MbiI CCGCTC 1 cut(s) 658
MboII GAAGA 9 cut(s) 14, 80, 293, 352, 790, 827, 1055, 1225, 1512
MfeI CAATTG 3 cut(s) 203, 820, 949
MflI RGATCY 4 cut(s) 539, 814, 972, 1045
MlyI GAGTC 4 cut(s) 218, 500, 913, 1319
MmeI TCCRAC 2 cut(s) 942, 1584
MseI TTAA 4 cut(s) 1005, 1488, 1512, 1584
MslI CAYNNNNRTG 2 cut(s) 60, 649
MspI CCGG 7 cut(s) 194, 218, 394, 719, 860, 1184, 1368
MspR9I CCNGG 3 cut(s) 395, 812, 1263
MunI CAATTG 3 cut(s) 203, 820, 949
Mva1269I GAATGC 1 cut(s) 1567
MvaI CCWGG 2 cut(s) 812, 1263
MwoI GCNNNNNNNGC 8 cut(s) 11, 74, 77, 173, 199, 249, 730, 1382
NciI CCSGG 1 cut(s) 395
NcoI CCATGG 1 cut(s) 999
NdeI CATATG 1 cut(s) 988
NlaIII CATG 2 cut(s) 292, 1003
NlaIV GGNNCC 3 cut(s) 192, 723, 816
NmuCI GTSAC 3 cut(s) 184, 196, 642
OliI CACNNNNGTG 2 cut(s) 60, 649
PasI CCCWGGG 1 cut(s) 1262
PciSI GCTCTTC 1 cut(s) 840
PctI GAATGC 1 cut(s) 1567
PfeI GAWTC 7 cut(s) 442, 449, 463, 599, 617, 736, 1546
PflFI GACNNNGTC 1 cut(s) 640
PfoI TCCNGGA 1 cut(s) 810
PinAI ACCGGT 1 cut(s) 718
PkrI GCNGC 7 cut(s) 70, 79, 82, 169, 660, 770, 1375
PleI GAGTC 4 cut(s) 217, 500, 912, 1318
PpsI GAGTC 4 cut(s) 217, 500, 912, 1318
PpuMI RGGWCCY 1 cut(s) 107
PsiI TTATAA 1 cut(s) 698
Psp5II RGGWCCY 1 cut(s) 107
Psp6I CCWGG 2 cut(s) 810, 1261
PspFI CCCAGC 1 cut(s) 1108
PspGI CCWGG 2 cut(s) 810, 1261
PspN4I GGNNCC 3 cut(s) 192, 723, 816
PspPI GGNCC 2 cut(s) 107, 788
PspPPI RGGWCCY 1 cut(s) 107
PstI CTGCAG 1 cut(s) 735
PstNI CAGNNNCTG 2 cut(s) 739, 799
PsuI RGATCY 4 cut(s) 539, 814, 972, 1045
PsyI GACNNNGTC 1 cut(s) 640
RsaI GTAC 1 cut(s) 633
RsaNI GTAC 1 cut(s) 632
RseI CAYNNNNRTG 2 cut(s) 60, 649
SapI GCTCTTC 1 cut(s) 840
SaqAI TTAA 4 cut(s) 1005, 1488, 1512, 1584
SatI GCNGC 7 cut(s) 69, 78, 81, 168, 659, 769, 1374
Sau96I GGNCC 2 cut(s) 107, 788
SchI GAGTC 4 cut(s) 218, 500, 913, 1319
ScrFI CCNGG 3 cut(s) 395, 812, 1263
SfaNI GCATC 1 cut(s) 955
SfcI CTRYAG 1 cut(s) 731
SinI GGWCC 2 cut(s) 107, 788
SmiMI CAYNNNNRTG 2 cut(s) 60, 649
SmlI CTYRAG 1 cut(s) 263
SmoI CTYRAG 1 cut(s) 263
SsiI CCGC 9 cut(s) 69, 78, 81, 167, 176, 658, 1133, 1231, 1467
SspI AATATT 1 cut(s) 484
SspMI CTAG 1 cut(s) 914
StyD4I CCNGG 3 cut(s) 393, 810, 1261
StyI CCWWGG 2 cut(s) 275, 999
TaaI ACNGT 6 cut(s) 301, 554, 640, 785, 1481, 1510
TaiI ACGT 3 cut(s) 288, 412, 1564
TaqI TCGA 3 cut(s) 91, 746, 1012
TauI GCSGC 5 cut(s) 71, 80, 83, 170, 661
TfiI GAWTC 7 cut(s) 442, 449, 463, 599, 617, 736, 1546
Tru1I TTAA 4 cut(s) 1005, 1488, 1512, 1584
Tru9I TTAA 4 cut(s) 1005, 1488, 1512, 1584
TscAI CASTG 4 cut(s) 598, 619, 890, 1285
TseFI GTSAC 3 cut(s) 184, 196, 642
TseI GCWGC 2 cut(s) 768, 1373
Tsp45I GTSAC 3 cut(s) 184, 196, 642
TspDTI ATGAA 3 cut(s) 36, 339, 1158
TspGWI ACGGA 4 cut(s) 115, 203, 365, 442
TspRI CASTG 4 cut(s) 598, 619, 890, 1285
Tth111I GACNNNGTC 1 cut(s) 640
VpaK11BI GGWCC 2 cut(s) 107, 788
XapI RAATTY 1 cut(s) 1007
XbaI TCTAGA 1 cut(s) 913
XspI CTAG 1 cut(s) 914
ZraI GACGTC 1 cut(s) 286
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.