Rw2G021190

Violaxanthin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0005484
Physical Location & Seq
Forward (+)
29231424 .. 29233530
2107 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G021190.1

Sequence Viewer

Length: 1584 bp
ATGGCTCTGGAAGCTCCCCTTCTTCACAAACCCACAACCCGATTTTCATTCAACCACCGCCGTGTCGCCGCCTCTGCCGCCGCTTTTCTTCGACTTCACAGAGGACCTCATTCCCCATTCTCCGTCGGGAAAACCACTCGTCGTATCCCAACTACCATATTGGCGGCTAAGGGGGGTGCTGTGACGGAGCCGGTGACGCAATTGGAGTCAAAGCCGGTGAGAATAGTAGCCCTCGTCGGCAAAGGTAGCGTCAGCCCTCTCAAGGCTACACCTTGGGAAGACGTCATGCTCCACACCGTGAAACGACTGAAATGGGTAGAAGAAGGGTATCAGATGGGTGTATTTACGGATGATATCTGCCAATCTAATTATCAAAATGTGGTGAGTTTCCGGATGGAATTACAACGTGCAGATATTTTGGTAATTGTTGCTGTTACAAAGCAAGAATCCGTCGAGTGGATTCAAGCTAATAGTGGGAATATTCAAAACATAATCTATTTTGACTCATCTCCCAATTTGCAAAACAAGTTAGGAGGATCTTATATTCACGGTGCAGGCAAAGGAGATATCTTTGGCAAAATGTTTGACACTGCCGAATCAAAGAAAAGCAGTGAATCAATGGAAGTGGTACAGACTGTGTCACAGGCATGGGAGCGGCATAATTCTGATGATATAAGGTTTTGTTTGTTGGTTATAATCAATGGGTCTATAAGGCCGGTGCCAATCCTGCAGAATCTAAGATCAAAAGGTATTTCTACTCTGAGCTGCATGGTGAAGAACTGTGGACCTCAGATACTGAACTGCCTCATGGATCCCAATTGTAGGAAAGCGCTTCAATGCTTGAATGAGTGCAGTCCGGTGGATCAAGTGTGTAACTATCGGTGCATTGCTTCGTATGAGAGTCCAGTTCTAAAAGCGTTTTCTCTCTGTGTGTTGCAGAAGCACAATTGTCTTGGGTTGGATGCAAAGATCCCTGACAAACCATATGTGCCACCCATGGTTAAATTTCGAGGAAAGGACTTGTGCCACGAAACTGCTGAAGATCTTTTTGTTGGTTGGTTGGGAAGTTTGGATTGGAGTTGGCGTGTCGTGGCAGGGCAGAACCCAGCATATGATCAATTCCCTTGCCAGTACCAACTATTTTACAGGGGCAAGGCAAAAGGTTCATTTTGGTATGAGCCAGTTTTTCAGGTGAAAATGCTGGAGGGGAAGATGGTTTGGAGGAGGCGGAAGTATCGTGTCAAGAGAAACAAAGTCCCAGGGACATTCCAATTCAGTGTCTTGGACAATGGGGTTGTTTCAAATGAGTCTTGGACAATCGTGGATGTAGCTGATGATCTTAGTTGGGGTTTGTTTTACTACTCCGGCGCTGCAAGAGTTGCTGGACAATCCTATACTGGCGCTGTGCTTGTCAGTCCAGATGGGGCATACCCAAATGATGTGCATAGGAGCAGATTAGTTTCCGCTTTGGAGAACTGTGGAATTAAAGAGTGGGAGCTGTTTACAGTTAACAATTCTTCGTGTGCTAATCCTCCATTGGGGATTCCTGAGGGTTCACGTTTGCATTCCTGTGATAGAAGTTAA
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

527

Amino Acids

58.87

Weight (kDa)

8.96

Isoelectric Point (pI)

46.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VDE PF07137 255 - 505 8.6e-27 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) 695
AatII GACGTC 1 cut(s) 285
AccB1I GGYRCC 1 cut(s) 718
AccBSI CCGCTC 1 cut(s) 655
AccIII TCCGGA 1 cut(s) 390
AciI CCGC 8 cut(s) 58, 69, 78, 81, 164, 655, 1228, 1464
AclWI GGATC 5 cut(s) 544, 806, 819, 870, 964
AcsI RAATTY 1 cut(s) 1004
AcuI CTGAAG 1 cut(s) 1059
AcyI GRCGYC 1 cut(s) 282
AdeI CACNNNGTG 1 cut(s) 298
AfaI GTAC 2 cut(s) 630, 1133
AfeI AGCGCT 1 cut(s) 831
AfiI CCNNNNNNNGG 4 cut(s) 262, 456, 822, 1538
AgsI TTSAA 6 cut(s) 52, 464, 485, 836, 844, 1302
AjnI CCWGG 1 cut(s) 1258
AjuI GAANNNNNNNTTGG 2 cut(s) 1057, 1089
AleI CACNNNNGTG 1 cut(s) 60
AluBI AGCT 5 cut(s) 14, 467, 765, 1331, 1498
AluI AGCT 5 cut(s) 14, 467, 765, 1331, 1498
AlwI GGATC 5 cut(s) 544, 806, 819, 870, 964
AlwNI CAGNNNCTG 1 cut(s) 796
Aor13HI TCCGGA 1 cut(s) 390
Aor51HI AGCGCT 1 cut(s) 831
AoxI GGCC 1 cut(s) 713
ApeKI GCWGC 2 cut(s) 765, 1370
ApoI RAATTY 1 cut(s) 1004
ArsI GACNNNNNNTTYG 2 cut(s) 234, 266
AspLEI GCGC 3 cut(s) 832, 1370, 1403
AspS9I GGNCC 2 cut(s) 104, 785
AsuHPI GGTGA 5 cut(s) 205, 229, 394, 784, 1204
AvaII GGWCC 2 cut(s) 104, 785
AxyI CCTNAGG 1 cut(s) 1548
BamHI GGATCC 1 cut(s) 811
BanI GGYRCC 1 cut(s) 718
BbsI GAAGAC 1 cut(s) 285
BbvI GCAGC 2 cut(s) 752, 1357
BccI CCATC 4 cut(s) 328, 388, 1207, 1415
BceAI ACGGC 1 cut(s) 45
BciT130I CCWGG 1 cut(s) 1260
BciVI GTATCC 1 cut(s) 155
BclI TGATCA 1 cut(s) 1114
BfmI CTRYAG 1 cut(s) 728
BfoI RGCGCY 3 cut(s) 833, 1371, 1404
BfuI GTATCC 1 cut(s) 155
BglII AGATCT 1 cut(s) 1042
BisI GCNGC 7 cut(s) 69, 78, 81, 165, 656, 766, 1371
BlsI GCNGC 7 cut(s) 70, 79, 82, 166, 657, 767, 1372
Bme1390I CCNGG 1 cut(s) 1260
Bme18I GGWCC 2 cut(s) 104, 785
BmgT120I GGNCC 2 cut(s) 104, 785
BmiI GGNNCC 3 cut(s) 189, 720, 813
BmrFI CCNGG 1 cut(s) 1260
BmsI GCATC 1 cut(s) 952
BpiI GAAGAC 1 cut(s) 285
BpmI CTGGAG 1 cut(s) 1223
Bpu10I CCTNAGC 1 cut(s) 168
BpuEI CTTGAG 1 cut(s) 245
BsaHI GRCGYC 1 cut(s) 282
BsaJI CCNNGG 4 cut(s) 272, 996, 1258, 1259
BsaWI WCCGGW 2 cut(s) 390, 856
BsaXI ACNNNNNCTCC 2 cut(s) 1069, 1099
Bsc4I CCNNNNNNNGG 4 cut(s) 262, 456, 822, 1538
Bse118I RCCGGY 3 cut(s) 190, 214, 715
Bse1I ACTGG 4 cut(s) 905, 1129, 1181, 1402
Bse21I CCTNAGG 1 cut(s) 1548
Bse3DI GCAATG 1 cut(s) 885
BseAI TCCGGA 1 cut(s) 390
BseBI CCWGG 1 cut(s) 1260
BseDI CCNNGG 4 cut(s) 272, 996, 1258, 1259
BseGI GGATG 4 cut(s) 355, 399, 967, 1330
BseLI CCNNNNNNNGG 4 cut(s) 262, 456, 822, 1538
BseMI GCAATG 1 cut(s) 885
BseMII CTCAG 3 cut(s) 752, 803, 1539
BseNI ACTGG 4 cut(s) 905, 1129, 1181, 1402
BseRI GAGGAG 1 cut(s) 1237
BseXI GCAGC 2 cut(s) 752, 1357
BseYI CCCAGC 1 cut(s) 1105
BsgI GTGCAG 3 cut(s) 429, 573, 871
BshFI GGCC 1 cut(s) 715
BshNI GGYRCC 1 cut(s) 718
BsiSI CCGG 6 cut(s) 191, 215, 391, 716, 857, 1365
BslFI GGGAC 2 cut(s) 1241, 1276
BslI CCNNNNNNNGG 4 cut(s) 262, 456, 822, 1538
BsmFI GGGAC 2 cut(s) 1241, 1276
BsmI GAATGC 1 cut(s) 1564
BsnI GGCC 1 cut(s) 715
Bsp13I TCCGGA 1 cut(s) 390
Bsp143I GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
Bsp19I CCATGG 1 cut(s) 996
BspACI CCGC 8 cut(s) 58, 69, 78, 81, 164, 655, 1228, 1464
BspANI GGCC 1 cut(s) 715
BspCNI CTCAG 3 cut(s) 753, 802, 1540
BspEI TCCGGA 1 cut(s) 390
BspLI GGNNCC 3 cut(s) 189, 720, 813
BspMAI CTGCAG 1 cut(s) 732
BspPI GGATC 5 cut(s) 544, 806, 819, 870, 964
BspT107I GGYRCC 1 cut(s) 718
BsrBI CCGCTC 1 cut(s) 655
BsrDI GCAATG 1 cut(s) 885
BsrFI RCCGGY 3 cut(s) 190, 214, 715
BsrI ACTGG 4 cut(s) 905, 1129, 1181, 1402
BssAI RCCGGY 3 cut(s) 190, 214, 715
BssECI CCNNGG 4 cut(s) 272, 996, 1258, 1259
BssMI GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
BssNI GRCGYC 1 cut(s) 282
BssT1I CCWWGG 2 cut(s) 272, 996
Bst2UI CCWGG 1 cut(s) 1260
Bst4CI ACNGT 6 cut(s) 298, 551, 637, 782, 1478, 1507
BstACI GRCGYC 1 cut(s) 282
BstAPI GCANNNNNTGC 1 cut(s) 1379
BstC8I GCNNGC 1 cut(s) 556
BstDEI CTNAG 6 cut(s) 168, 737, 761, 789, 1340, 1548
BstDSI CCRYGG 1 cut(s) 996
BstF5I GGATG 4 cut(s) 355, 399, 967, 1330
BstH2I RGCGCY 3 cut(s) 833, 1371, 1404
BstHHI GCGC 3 cut(s) 832, 1370, 1403
BstKTI GATC 8 cut(s) 539, 743, 814, 865, 972, 1045, 1117, 1339
BstMBI GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
BstMWI GCNNNNNNNGC 7 cut(s) 11, 74, 77, 196, 246, 727, 1379
BstNI CCWGG 1 cut(s) 1260
BstSCI CCNGG 1 cut(s) 1258
BstSFI CTRYAG 1 cut(s) 728
BstV1I GCAGC 2 cut(s) 752, 1357
BstV2I GAAGAC 1 cut(s) 285
BstX2I RGATCY 4 cut(s) 536, 811, 969, 1042
BstYI RGATCY 4 cut(s) 536, 811, 969, 1042
Bsu36I CCTNAGG 1 cut(s) 1548
BsuI GTATCC 1 cut(s) 155
BsuRI GGCC 1 cut(s) 715
BtgI CCRYGG 1 cut(s) 996
BtsCI GGATG 4 cut(s) 355, 399, 967, 1330
BtsI GCAGTG 2 cut(s) 588, 616
BtsIMutI CAGTG 3 cut(s) 588, 616, 1282
Cac8I GCNNGC 1 cut(s) 556
CaiI CAGNNNCTG 1 cut(s) 796
CfoI GCGC 3 cut(s) 832, 1370, 1403
Cfr10I RCCGGY 3 cut(s) 190, 214, 715
Cfr13I GGNCC 2 cut(s) 104, 785
CseI GACGC 2 cut(s) 205, 238
Csp6I GTAC 2 cut(s) 629, 1132
CspCI CAANNNNNGTGG 2 cut(s) 606, 641
CviAII CATG 5 cut(s) 286, 648, 769, 808, 997
CviQI GTAC 2 cut(s) 629, 1132
DdeI CTNAG 6 cut(s) 168, 737, 761, 789, 1340, 1548
DpnI GATC 8 cut(s) 538, 742, 813, 864, 971, 1044, 1116, 1338
DpnII GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
DraIII CACNNNGTG 1 cut(s) 298
EciI GGCGGA 1 cut(s) 1243
Eco130I CCWWGG 2 cut(s) 272, 996
Eco32I GATATC 2 cut(s) 355, 568
Eco47I GGWCC 2 cut(s) 104, 785
Eco47III AGCGCT 1 cut(s) 831
Eco57I CTGAAG 1 cut(s) 1059
Eco81I CCTNAGG 1 cut(s) 1548
EcoO109I RGGNCCY 1 cut(s) 104
EcoRII CCWGG 1 cut(s) 1258
EcoRV GATATC 2 cut(s) 355, 568
EcoT14I CCWWGG 2 cut(s) 272, 996
ErhI CCWWGG 2 cut(s) 272, 996
FaeI CATG 5 cut(s) 289, 651, 772, 811, 1000
FalI AAGNNNNNCTT 1 cut(s) 35
FaqI GGGAC 2 cut(s) 1241, 1276
FatI CATG 5 cut(s) 285, 647, 768, 807, 996
FauNDI CATATG 2 cut(s) 985, 1111
FbaI TGATCA 1 cut(s) 1114
Fnu4HI GCNGC 7 cut(s) 69, 78, 81, 165, 656, 766, 1371
FokI GGATG 4 cut(s) 362, 406, 974, 1337
Fsp4HI GCNGC 7 cut(s) 69, 78, 81, 165, 656, 766, 1371
GlaI GCGC 3 cut(s) 831, 1369, 1402
GluI GCNGC 7 cut(s) 69, 78, 81, 165, 656, 766, 1371
GsaI CCCAGC 1 cut(s) 1109
GsuI CTGGAG 1 cut(s) 1223
HaeII RGCGCY 3 cut(s) 833, 1371, 1404
HaeIII GGCC 1 cut(s) 715
HapII CCGG 6 cut(s) 191, 215, 391, 716, 857, 1365
HgaI GACGC 2 cut(s) 205, 238
HhaI GCGC 3 cut(s) 832, 1370, 1403
Hin1I GRCGYC 1 cut(s) 282
Hin1II CATG 5 cut(s) 289, 651, 772, 811, 1000
Hin6I GCGC 3 cut(s) 830, 1368, 1401
HinP1I GCGC 3 cut(s) 830, 1368, 1401
HincII GTYRAC 1 cut(s) 1510
HindII GTYRAC 1 cut(s) 1510
HpaI GTTAAC 1 cut(s) 1510
HpaII CCGG 6 cut(s) 191, 215, 391, 716, 857, 1365
HphI GGTGA 5 cut(s) 205, 229, 394, 784, 1204
Hpy166II GTNNAC 4 cut(s) 785, 1503, 1510, 1556
Hpy188I TCNGA 4 cut(s) 333, 667, 762, 792
Hpy188III TCNNGA 6 cut(s) 8, 127, 391, 1243, 1418, 1547
Hpy8I GTNNAC 4 cut(s) 785, 1503, 1510, 1556
Hpy99I CGWCG 4 cut(s) 128, 144, 239, 455
HpyAV CCTTC 2 cut(s) 29, 317
HpyCH4III ACNGT 6 cut(s) 298, 551, 637, 782, 1478, 1507
HpyCH4IV ACGT 3 cut(s) 282, 406, 1558
HpyF10VI GCNNNNNNNGC 7 cut(s) 11, 74, 77, 196, 246, 727, 1379
HpyF3I CTNAG 6 cut(s) 168, 737, 761, 789, 1340, 1548
HpySE526I ACGT 3 cut(s) 282, 406, 1558
Hsp92I GRCGYC 1 cut(s) 282
Hsp92II CATG 5 cut(s) 289, 651, 772, 811, 1000
HspAI GCGC 3 cut(s) 830, 1368, 1401
Kpn2I TCCGGA 1 cut(s) 390
Ksp22I TGATCA 1 cut(s) 1114
KspAI GTTAAC 1 cut(s) 1510
Kzo9I GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
LmnI GCTCC 6 cut(s) 19, 187, 294, 652, 1449, 1495
Lsp1109I GCAGC 2 cut(s) 752, 1357
LweI GCATC 1 cut(s) 952
MaeII ACGT 3 cut(s) 282, 406, 1558
MaeIII GTNAC 5 cut(s) 181, 193, 433, 639, 872
MalI GATC 8 cut(s) 538, 742, 813, 864, 971, 1044, 1116, 1338
MbiI CCGCTC 1 cut(s) 655
MboI GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
MboII GAAGA 8 cut(s) 14, 80, 290, 332, 787, 1052, 1222, 1509
MfeI CAATTG 3 cut(s) 200, 817, 946
MflI RGATCY 4 cut(s) 536, 811, 969, 1042
MlyI GAGTC 4 cut(s) 215, 497, 910, 1316
MmeI TCCRAC 1 cut(s) 939
MroI TCCGGA 1 cut(s) 390
MseI TTAA 4 cut(s) 1002, 1485, 1509, 1582
MslI CAYNNNNRTG 3 cut(s) 60, 646, 1569
MspI CCGG 6 cut(s) 191, 215, 391, 716, 857, 1365
MspR9I CCNGG 1 cut(s) 1260
MunI CAATTG 3 cut(s) 200, 817, 946
Mva1269I GAATGC 1 cut(s) 1564
MvaI CCWGG 1 cut(s) 1260
MwoI GCNNNNNNNGC 7 cut(s) 11, 74, 77, 196, 246, 727, 1379
NcoI CCATGG 1 cut(s) 996
NdeI CATATG 2 cut(s) 985, 1111
NdeII GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
NlaIII CATG 5 cut(s) 289, 651, 772, 811, 1000
NlaIV GGNNCC 3 cut(s) 189, 720, 813
NmuCI GTSAC 3 cut(s) 181, 193, 639
OliI CACNNNNGTG 1 cut(s) 60
PasI CCCWGGG 1 cut(s) 1259
PctI GAATGC 1 cut(s) 1564
PfeI GAWTC 6 cut(s) 446, 460, 596, 614, 733, 1543
PflFI GACNNNGTC 1 cut(s) 637
PkrI GCNGC 7 cut(s) 70, 79, 82, 166, 657, 767, 1372
PleI GAGTC 4 cut(s) 214, 497, 909, 1315
PpsI GAGTC 4 cut(s) 214, 497, 909, 1315
PpuMI RGGWCCY 1 cut(s) 104
PsiI TTATAA 1 cut(s) 695
Psp5II RGGWCCY 1 cut(s) 104
Psp6I CCWGG 1 cut(s) 1258
PspFI CCCAGC 1 cut(s) 1105
PspGI CCWGG 1 cut(s) 1258
PspN4I GGNNCC 3 cut(s) 189, 720, 813
PspPI GGNCC 2 cut(s) 104, 785
PspPPI RGGWCCY 1 cut(s) 104
PstI CTGCAG 1 cut(s) 732
PstNI CAGNNNCTG 1 cut(s) 796
PsuI RGATCY 4 cut(s) 536, 811, 969, 1042
PsyI GACNNNGTC 1 cut(s) 637
RsaI GTAC 2 cut(s) 630, 1133
RsaNI GTAC 2 cut(s) 629, 1132
RseI CAYNNNNRTG 3 cut(s) 60, 646, 1569
SaqAI TTAA 4 cut(s) 1002, 1485, 1509, 1582
SatI GCNGC 7 cut(s) 69, 78, 81, 165, 656, 766, 1371
Sau3AI GATC 8 cut(s) 536, 740, 811, 862, 969, 1042, 1114, 1336
Sau96I GGNCC 2 cut(s) 104, 785
SchI GAGTC 4 cut(s) 215, 497, 910, 1316
ScrFI CCNGG 1 cut(s) 1260
SfaNI GCATC 1 cut(s) 952
SfcI CTRYAG 1 cut(s) 728
SinI GGWCC 2 cut(s) 104, 785
SmiMI CAYNNNNRTG 3 cut(s) 60, 646, 1569
SmlI CTYRAG 1 cut(s) 260
SmoI CTYRAG 1 cut(s) 260
SsiI CCGC 8 cut(s) 58, 69, 78, 81, 164, 655, 1228, 1464
SspI AATATT 1 cut(s) 481
StyD4I CCNGG 1 cut(s) 1258
StyI CCWWGG 2 cut(s) 272, 996
TaaI ACNGT 6 cut(s) 298, 551, 637, 782, 1478, 1507
TaiI ACGT 3 cut(s) 285, 409, 1561
TaqI TCGA 3 cut(s) 91, 453, 1009
TauI GCSGC 5 cut(s) 71, 80, 83, 167, 658
TfiI GAWTC 6 cut(s) 446, 460, 596, 614, 733, 1543
Tru1I TTAA 4 cut(s) 1002, 1485, 1509, 1582
Tru9I TTAA 4 cut(s) 1002, 1485, 1509, 1582
TscAI CASTG 3 cut(s) 595, 616, 1282
TseFI GTSAC 3 cut(s) 181, 193, 639
TseI GCWGC 2 cut(s) 765, 1370
Tsp45I GTSAC 3 cut(s) 181, 193, 639
TspDTI ATGAA 2 cut(s) 36, 1155
TspGWI ACGGA 4 cut(s) 112, 200, 362, 439
TspRI CASTG 3 cut(s) 595, 616, 1282
Tth111I GACNNNGTC 1 cut(s) 637
VpaK11BI GGWCC 2 cut(s) 104, 785
XapI RAATTY 1 cut(s) 1004
ZraI GACGTC 1 cut(s) 283
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.