Rh5AG100300

Violaxanthin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0005484
Physical Location & Seq
Forward (+)
9253157 .. 9254136
980 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG100300.1

Sequence Viewer

Length: 843 bp
ATGTTTGATTCACTGCATAATTCTGATGATATAAGGTTCTGTTTGTTGGTTATAATCAATGCGTATATAAGGCCGGTGCCAATCCTGCAGAATCTGAGATCAAAAGGTCTTCCTACTCTGAGCTGCATGGTGAAGAACTGTGGACCTCAGATACTGAACTACCTCCTGGATCCCAATTGTAGGAAAGCTCTTCAATGCTTGAATGAGTGCAGTCCCGTGGATCAAGTGTGTCACTATCGGTGCATTGCTTTGTATGAGAGTCCAGTTCTAGAAGCGTTTTCTCTCTGTGTGTTGCAGAAGCACAATTGTCTTGGGTTGGATGCAAAGATCCCTGACAAACCATATGTGCCACCCATGGTTAAATTTCGAGGAAAGGACTTGTGCCACGAAACTGCTGAAGATCTTTTTGTGGGTGAAAACGCTGGCGGGGAAGATGGTTTGGAGGAGGCGGAAGTATCGTGTCAAGAGAAAAAAAAAGTCCCAGGGACATTCCAATTCAGTGTCTTGGACAATGGGGTTGTTTCAAATGAGTCTTGGACAATCGTGGATGTAGCTGATGATCTTAGTTGGGGTTTGTTTTACTACTCTGGCGCTGCAAGAGTTGCTGGACAATCTTATACTGGCGCTGTGCTTGTCAGTCCAGATGCGGCACACCCAAATGACGTGCATAGGAGCAGATTAGTTTCCGCATTGGAGAACTGTGGAATTAAAGAGTGGGAGCTGTTTACAGTTAACAATTCTTCATGTGCTAATCCTCCATTGGGGATTCCTGAGGGTTCAAGTTTGCATTCCGTGATAGAAGTTAAAGATCAGAAATCTTTGTCGGATTTGGCAGAGGTGTAA
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

280

Amino Acids

30.73

Weight (kDa)

4.93

Isoelectric Point (pI)

45.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VDE PF07137 41 - 106 1.7e-13 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) 53
AccB1I GGYRCC 1 cut(s) 76
AciI CCGC 4 cut(s) 426, 449, 647, 687
AclWI GGATC 4 cut(s) 164, 177, 228, 322
AcsI RAATTY 1 cut(s) 362
AcuI CTGAAG 1 cut(s) 417
AfiI CCNNNNNNNGG 2 cut(s) 180, 761
AgsI TTSAA 4 cut(s) 194, 202, 525, 780
AjiI CACGTC 1 cut(s) 664
AjnI CCWGG 2 cut(s) 165, 481
AluBI AGCT 4 cut(s) 123, 188, 554, 721
AluI AGCT 4 cut(s) 123, 188, 554, 721
AlwI GGATC 4 cut(s) 164, 177, 228, 322
AlwNI CAGNNNCTG 2 cut(s) 94, 154
AoxI GGCC 1 cut(s) 71
ApeKI GCWGC 2 cut(s) 123, 593
ApoI RAATTY 1 cut(s) 362
AspLEI GCGC 2 cut(s) 593, 626
AspS9I GGNCC 1 cut(s) 143
AsuHPI GGTGA 2 cut(s) 142, 425
AvaII GGWCC 1 cut(s) 143
AxyI CCTNAGG 1 cut(s) 771
BamHI GGATCC 1 cut(s) 169
BanI GGYRCC 1 cut(s) 76
BbsI GAAGAC 1 cut(s) 101
BbvI GCAGC 2 cut(s) 110, 580
BccI CCATC 1 cut(s) 428
BciT130I CCWGG 2 cut(s) 167, 483
BfaI CTAG 1 cut(s) 269
BfmI CTRYAG 1 cut(s) 86
BfoI RGCGCY 2 cut(s) 594, 627
BglII AGATCT 1 cut(s) 400
BisI GCNGC 3 cut(s) 124, 594, 648
BlsI GCNGC 3 cut(s) 125, 595, 649
Bme1390I CCNGG 2 cut(s) 167, 483
Bme18I GGWCC 1 cut(s) 143
BmgBI CACGTC 1 cut(s) 664
BmgT120I GGNCC 1 cut(s) 143
BmiI GGNNCC 2 cut(s) 78, 171
BmrFI CCNGG 2 cut(s) 167, 483
BmsI GCATC 2 cut(s) 310, 634
BpiI GAAGAC 1 cut(s) 101
BsaJI CCNNGG 4 cut(s) 216, 354, 481, 482
Bsc4I CCNNNNNNNGG 2 cut(s) 180, 761
Bse118I RCCGGY 1 cut(s) 73
Bse1I ACTGG 2 cut(s) 263, 625
Bse21I CCTNAGG 1 cut(s) 771
Bse3DI GCAATG 1 cut(s) 243
BseBI CCWGG 2 cut(s) 167, 483
BseDI CCNNGG 4 cut(s) 216, 354, 481, 482
BseGI GGATG 2 cut(s) 325, 553
BseLI CCNNNNNNNGG 2 cut(s) 180, 761
BseMI GCAATG 1 cut(s) 243
BseMII CTCAG 4 cut(s) 86, 110, 161, 762
BseNI ACTGG 2 cut(s) 263, 625
BseRI GAGGAG 1 cut(s) 458
BseXI GCAGC 2 cut(s) 110, 580
BsgI GTGCAG 1 cut(s) 229
BshFI GGCC 1 cut(s) 73
BshNI GGYRCC 1 cut(s) 76
BsiSI CCGG 1 cut(s) 74
BslFI GGGAC 3 cut(s) 198, 464, 499
BslI CCNNNNNNNGG 2 cut(s) 180, 761
BsmFI GGGAC 3 cut(s) 198, 464, 499
BsmI GAATGC 1 cut(s) 787
BsnI GGCC 1 cut(s) 73
Bsp143I GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
Bsp19I CCATGG 1 cut(s) 354
BspACI CCGC 4 cut(s) 426, 449, 647, 687
BspANI GGCC 1 cut(s) 73
BspCNI CTCAG 4 cut(s) 87, 111, 160, 763
BspLI GGNNCC 2 cut(s) 78, 171
BspMAI CTGCAG 1 cut(s) 90
BspPI GGATC 4 cut(s) 164, 177, 228, 322
BspQI GCTCTTC 1 cut(s) 195
BspT107I GGYRCC 1 cut(s) 76
BsrDI GCAATG 1 cut(s) 243
BsrFI RCCGGY 1 cut(s) 73
BsrI ACTGG 2 cut(s) 263, 625
BssAI RCCGGY 1 cut(s) 73
BssECI CCNNGG 4 cut(s) 216, 354, 481, 482
BssMI GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
BssT1I CCWWGG 1 cut(s) 354
Bst2UI CCWGG 2 cut(s) 167, 483
Bst4CI ACNGT 3 cut(s) 140, 701, 730
Bst6I CTCTTC 1 cut(s) 195
BstAPI GCANNNNNTGC 1 cut(s) 602
BstC8I GCNNGC 1 cut(s) 424
BstDEI CTNAG 5 cut(s) 95, 119, 147, 563, 771
BstDSI CCRYGG 2 cut(s) 216, 354
BstF5I GGATG 2 cut(s) 325, 553
BstH2I RGCGCY 2 cut(s) 594, 627
BstHHI GCGC 2 cut(s) 593, 626
BstKTI GATC 7 cut(s) 101, 172, 223, 330, 403, 562, 811
BstMBI GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
BstMWI GCNNNNNNNGC 2 cut(s) 85, 602
BstNI CCWGG 2 cut(s) 167, 483
BstSCI CCNGG 2 cut(s) 165, 481
BstSFI CTRYAG 1 cut(s) 86
BstV1I GCAGC 2 cut(s) 110, 580
BstV2I GAAGAC 1 cut(s) 101
BstX2I RGATCY 3 cut(s) 169, 327, 400
BstYI RGATCY 3 cut(s) 169, 327, 400
Bsu36I CCTNAGG 1 cut(s) 771
BsuRI GGCC 1 cut(s) 73
BtgI CCRYGG 2 cut(s) 216, 354
BtrI CACGTC 1 cut(s) 664
BtsCI GGATG 2 cut(s) 325, 553
BtsI GCAGTG 1 cut(s) 11
BtsIMutI CAGTG 2 cut(s) 11, 505
Cac8I GCNNGC 1 cut(s) 424
CaiI CAGNNNCTG 2 cut(s) 94, 154
CfoI GCGC 2 cut(s) 593, 626
Cfr10I RCCGGY 1 cut(s) 73
Cfr13I GGNCC 1 cut(s) 143
CviAII CATG 3 cut(s) 127, 355, 744
CviJI RGCY 5 cut(s) 73, 123, 188, 554, 721
CviKI_1 RGCY 5 cut(s) 73, 123, 188, 554, 721
DdeI CTNAG 5 cut(s) 95, 119, 147, 563, 771
DpnI GATC 7 cut(s) 100, 171, 222, 329, 402, 561, 810
DpnII GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
Eam1104I CTCTTC 1 cut(s) 195
EarI CTCTTC 1 cut(s) 195
EciI GGCGGA 1 cut(s) 464
Eco130I CCWWGG 1 cut(s) 354
Eco47I GGWCC 1 cut(s) 143
Eco57I CTGAAG 1 cut(s) 417
Eco81I CCTNAGG 1 cut(s) 771
EcoRII CCWGG 2 cut(s) 165, 481
EcoT14I CCWWGG 1 cut(s) 354
ErhI CCWWGG 1 cut(s) 354
FaeI CATG 3 cut(s) 130, 358, 747
FaqI GGGAC 3 cut(s) 198, 464, 499
FatI CATG 3 cut(s) 126, 354, 743
FauI CCCGC 1 cut(s) 419
FauNDI CATATG 1 cut(s) 343
Fnu4HI GCNGC 3 cut(s) 124, 594, 648
FokI GGATG 2 cut(s) 332, 560
Fsp4HI GCNGC 3 cut(s) 124, 594, 648
FspBI CTAG 1 cut(s) 269
GlaI GCGC 2 cut(s) 592, 625
GluI GCNGC 3 cut(s) 124, 594, 648
HaeII RGCGCY 2 cut(s) 594, 627
HaeIII GGCC 1 cut(s) 73
HapII CCGG 1 cut(s) 74
HhaI GCGC 2 cut(s) 593, 626
Hin1II CATG 3 cut(s) 130, 358, 747
Hin6I GCGC 2 cut(s) 591, 624
HinP1I GCGC 2 cut(s) 591, 624
HincII GTYRAC 1 cut(s) 733
HindII GTYRAC 1 cut(s) 733
HinfI GANTC 5 cut(s) 8, 91, 259, 530, 766
HpaI GTTAAC 1 cut(s) 733
HpaII CCGG 1 cut(s) 74
HphI GGTGA 2 cut(s) 142, 425
Hpy166II GTNNAC 3 cut(s) 143, 726, 733
Hpy188I TCNGA 6 cut(s) 25, 96, 120, 150, 813, 826
Hpy188III TCNNGA 4 cut(s) 269, 464, 641, 770
Hpy8I GTNNAC 3 cut(s) 143, 726, 733
HpyCH4III ACNGT 3 cut(s) 140, 701, 730
HpyCH4IV ACGT 1 cut(s) 663
HpyF10VI GCNNNNNNNGC 2 cut(s) 85, 602
HpyF3I CTNAG 5 cut(s) 95, 119, 147, 563, 771
HpySE526I ACGT 1 cut(s) 663
Hsp92II CATG 3 cut(s) 130, 358, 747
HspAI GCGC 2 cut(s) 591, 624
KspAI GTTAAC 1 cut(s) 733
Kzo9I GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
LguI GCTCTTC 1 cut(s) 195
LmnI GCTCC 2 cut(s) 672, 718
Lsp1109I GCAGC 2 cut(s) 110, 580
LweI GCATC 2 cut(s) 310, 634
MaeI CTAG 1 cut(s) 269
MaeII ACGT 1 cut(s) 663
MaeIII GTNAC 1 cut(s) 230
MalI GATC 7 cut(s) 100, 171, 222, 329, 402, 561, 810
MboI GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
MboII GAAGA 6 cut(s) 101, 145, 182, 410, 443, 732
MfeI CAATTG 2 cut(s) 175, 304
MflI RGATCY 3 cut(s) 169, 327, 400
MluCI AATT 7 cut(s) 19, 175, 304, 362, 494, 705, 736
MlyI GAGTC 2 cut(s) 268, 539
MmeI TCCRAC 2 cut(s) 297, 804
MnlI CCTC 8 cut(s) 156, 173, 362, 436, 439, 765, 766, 829
MseI TTAA 4 cut(s) 360, 708, 732, 804
MslI CAYNNNNRTG 1 cut(s) 657
MspI CCGG 1 cut(s) 74
MspR9I CCNGG 2 cut(s) 167, 483
MunI CAATTG 2 cut(s) 175, 304
Mva1269I GAATGC 1 cut(s) 787
MvaI CCWGG 2 cut(s) 167, 483
MwoI GCNNNNNNNGC 2 cut(s) 85, 602
NcoI CCATGG 1 cut(s) 354
NdeI CATATG 1 cut(s) 343
NdeII GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
NlaIII CATG 3 cut(s) 130, 358, 747
NlaIV GGNNCC 2 cut(s) 78, 171
NmuCI GTSAC 1 cut(s) 230
PasI CCCWGGG 1 cut(s) 482
PciSI GCTCTTC 1 cut(s) 195
PctI GAATGC 1 cut(s) 787
PfeI GAWTC 3 cut(s) 8, 91, 766
PfoI TCCNGGA 1 cut(s) 165
PkrI GCNGC 3 cut(s) 125, 595, 649
PleI GAGTC 2 cut(s) 267, 538
PpsI GAGTC 2 cut(s) 267, 538
PsiI TTATAA 1 cut(s) 53
Psp6I CCWGG 2 cut(s) 165, 481
PspGI CCWGG 2 cut(s) 165, 481
PspN4I GGNNCC 2 cut(s) 78, 171
PspPI GGNCC 1 cut(s) 143
PstI CTGCAG 1 cut(s) 90
PstNI CAGNNNCTG 2 cut(s) 94, 154
PsuI RGATCY 3 cut(s) 169, 327, 400
RseI CAYNNNNRTG 1 cut(s) 657
SapI GCTCTTC 1 cut(s) 195
SaqAI TTAA 4 cut(s) 360, 708, 732, 804
SatI GCNGC 3 cut(s) 124, 594, 648
Sau3AI GATC 7 cut(s) 98, 169, 220, 327, 400, 559, 808
Sau96I GGNCC 1 cut(s) 143
SchI GAGTC 2 cut(s) 268, 539
ScrFI CCNGG 2 cut(s) 167, 483
SfaNI GCATC 2 cut(s) 310, 634
SfcI CTRYAG 1 cut(s) 86
SinI GGWCC 1 cut(s) 143
SmiMI CAYNNNNRTG 1 cut(s) 657
Sse9I AATT 7 cut(s) 19, 175, 304, 362, 494, 705, 736
SsiI CCGC 4 cut(s) 426, 449, 647, 687
SspMI CTAG 1 cut(s) 269
StyD4I CCNGG 2 cut(s) 165, 481
StyI CCWWGG 1 cut(s) 354
TaaI ACNGT 3 cut(s) 140, 701, 730
TaiI ACGT 1 cut(s) 666
TaqI TCGA 1 cut(s) 367
TasI AATT 7 cut(s) 19, 175, 304, 362, 494, 705, 736
TauI GCSGC 1 cut(s) 650
TfiI GAWTC 3 cut(s) 8, 91, 766
Tru1I TTAA 4 cut(s) 360, 708, 732, 804
Tru9I TTAA 4 cut(s) 360, 708, 732, 804
TscAI CASTG 2 cut(s) 18, 505
TseFI GTSAC 1 cut(s) 230
TseI GCWGC 2 cut(s) 123, 593
Tsp45I GTSAC 1 cut(s) 230
TspDTI ATGAA 1 cut(s) 732
TspGWI ACGGA 1 cut(s) 781
TspRI CASTG 2 cut(s) 18, 505
VpaK11BI GGWCC 1 cut(s) 143
XapI RAATTY 1 cut(s) 362
XbaI TCTAGA 1 cut(s) 268
XspI CTAG 1 cut(s) 269
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.