Rw3G018170

YLS9-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0001177
Physical Location & Seq
Reverse (-)
20162357 .. 20163396
1040 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G018170.1

Sequence Viewer

Length: 690 bp
ATGGCAGAGAAAGAAGAAGCCCACTTAAATGGGGCATACTACGGCCCCTCAGTCCCGGCCAGCAAATCCTACCACCGTCCCAGCCGCGGCGGTGGCCCCCTCGGCTGCTGCTGCAGTTGCATCTTCGGCCTCGTCTTCAAAATCATCTTCGCAGCAGTCGTCTTCATGGGACTAGCCTTCCTCGTCTTCTGGCTCATAGTACGCCCCACTAAAGTCAAGTTCCACGTCACCGACGCCACGCTCACCCAATTCAACTTCTCCACCGATAGTAGCCTGCATTACAACCTAGCCCTCAACCTCACCATTCGAAACCCCAACAAGAAGATCGGTGTCTACTACGACCGCATTGAAGCCAGAGGTCTTTACGAGGGCCAGAGGTTTGGTACGGTCACCCTCACGCCATTTTACCAAGGCCACAAAACCACAAACGTTTTGAACCCGGTGTTTCAGGGACAGCAATTGATTGTTGGATCCAACTTGCTTGATGAGTTTAATCAACAGAAAAGTGCAGGGGTTTACGAGATTGAGATGAAGCTTTATTTGAGGATTCGGTTCAAGTTGGGTAGAATCAAGACTGGAAAGTTCAAGCCTAGAATTGAATGTGACTTGAAGGTTCCTTTGAACCAGAATGGGAATTCAGTTAGTACTTTTCAGACGGAGAAGTGCTCAGTAGATTACTTTAATTATTGA
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
LEA_2

Protein Analysis

229

Amino Acids

25.91

Weight (kDa)

9.4

Isoelectric Point (pI)

29.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LEA_2 PF03168 100 - 195 2e-10 Late embryogenesis abundant protein
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)
AccI GTMKAC 1 cut(s) 333
AccII CGCG 1 cut(s) 87
AciI CCGC 4 cut(s) 85, 87, 90, 343
AclI AACGTT 1 cut(s) 429
AclWI GGATC 2 cut(s) 465, 478
AcoI YGGCCR 1 cut(s) 57
AcsI RAATTY 1 cut(s) 634
AcyI GRCGYC 1 cut(s) 234
AfaI GTAC 3 cut(s) 201, 385, 646
AfiI CCNNNNNNNGG 1 cut(s) 86
AgsI TTSAA 9 cut(s) 139, 253, 350, 436, 556, 586, 599, 610, 622
AjiI CACGTC 1 cut(s) 226
AluBI AGCT 1 cut(s) 535
AluI AGCT 1 cut(s) 535
Alw21I GWGCWC 1 cut(s) 668
AlwI GGATC 2 cut(s) 465, 478
AoxI GGCC 6 cut(s) 43, 57, 94, 127, 370, 412
ApeKI GCWGC 4 cut(s) 105, 108, 111, 152
ApoI RAATTY 1 cut(s) 634
AspS9I GGNCC 3 cut(s) 44, 95, 370
AsuC2I CCSGG 2 cut(s) 56, 440
AsuHPI GGTGA 4 cut(s) 220, 235, 292, 382
AsuII TTCGAA 1 cut(s) 307
BamHI GGATCC 1 cut(s) 470
BbsI GAAGAC 3 cut(s) 127, 154, 178
Bbv12I GWGCWC 1 cut(s) 668
BbvI GCAGC 4 cut(s) 92, 95, 98, 164
BceAI ACGGC 1 cut(s) 58
BcnI CCSGG 2 cut(s) 56, 440
BfaI CTAG 3 cut(s) 173, 287, 591
BfmI CTRYAG 1 cut(s) 112
BglI GCCNNNNNGGC 1 cut(s) 102
BisI GCNGC 6 cut(s) 85, 88, 106, 109, 112, 153
BlsI GCNGC 6 cut(s) 86, 89, 107, 110, 113, 154
BmcAI AGTACT 1 cut(s) 646
Bme1390I CCNGG 2 cut(s) 56, 440
BmgBI CACGTC 1 cut(s) 226
BmgT120I GGNCC 3 cut(s) 44, 95, 370
BmiI GGNNCC 4 cut(s) 46, 97, 472, 615
BmrFI CCNGG 2 cut(s) 56, 440
BmsI GCATC 1 cut(s) 129
BpiI GAAGAC 3 cut(s) 127, 154, 178
BplI GAGNNNNNCTC 2 cut(s) 650, 682
Bpu14I TTCGAA 1 cut(s) 307
BpuMI CCSGG 2 cut(s) 56, 440
BsaHI GRCGYC 1 cut(s) 234
BsaJI CCNNGG 3 cut(s) 85, 100, 409
Bsc4I CCNNNNNNNGG 1 cut(s) 86
Bse1I ACTGG 1 cut(s) 580
BseDI CCNNGG 3 cut(s) 85, 100, 409
BseLI CCNNNNNNNGG 1 cut(s) 86
BseMII CTCAG 2 cut(s) 63, 681
BseNI ACTGG 1 cut(s) 580
BseXI GCAGC 4 cut(s) 92, 95, 98, 164
BseYI CCCAGC 1 cut(s) 80
BsgI GTGCAG 1 cut(s) 528
Bsh1236I CGCG 1 cut(s) 87
Bsh1285I CGRYCG 1 cut(s) 343
BshFI GGCC 6 cut(s) 45, 59, 96, 129, 372, 414
BsiEI CGRYCG 1 cut(s) 343
BsiHKAI GWGCWC 1 cut(s) 668
BsiSI CCGG 2 cut(s) 56, 440
BslFI GGGAC 4 cut(s) 38, 63, 183, 465
BslI CCNNNNNNNGG 1 cut(s) 86
BsmFI GGGAC 4 cut(s) 38, 63, 183, 465
BsnI GGCC 6 cut(s) 45, 59, 96, 129, 372, 414
Bsp119I TTCGAA 1 cut(s) 307
Bsp1286I GDGCHC 1 cut(s) 668
Bsp143I GATC 2 cut(s) 324, 470
BspACI CCGC 4 cut(s) 85, 87, 90, 343
BspANI GGCC 6 cut(s) 45, 59, 96, 129, 372, 414
BspCNI CTCAG 2 cut(s) 62, 680
BspFNI CGCG 1 cut(s) 87
BspLI GGNNCC 4 cut(s) 46, 97, 472, 615
BspMAI CTGCAG 1 cut(s) 116
BspPI GGATC 2 cut(s) 465, 478
BspT104I TTCGAA 1 cut(s) 307
BsrI ACTGG 1 cut(s) 580
BssECI CCNNGG 3 cut(s) 85, 100, 409
BssMI GATC 2 cut(s) 324, 470
BssNI GRCGYC 1 cut(s) 234
BssT1I CCWWGG 1 cut(s) 409
Bst4CI ACNGT 2 cut(s) 77, 388
BstACI GRCGYC 1 cut(s) 234
BstBI TTCGAA 1 cut(s) 307
BstC8I GCNNGC 2 cut(s) 61, 275
BstDEI CTNAG 2 cut(s) 49, 667
BstDSI CCRYGG 1 cut(s) 85
BstEII GGTNACC 1 cut(s) 388
BstFNI CGCG 1 cut(s) 87
BstKTI GATC 2 cut(s) 327, 473
BstMBI GATC 2 cut(s) 324, 470
BstMCI CGRYCG 1 cut(s) 343
BstMWI GCNNNNNNNGC 5 cut(s) 93, 102, 111, 117, 126
BstPI GGTNACC 1 cut(s) 388
BstSCI CCNGG 2 cut(s) 54, 438
BstSFI CTRYAG 1 cut(s) 112
BstUI CGCG 1 cut(s) 87
BstV1I GCAGC 4 cut(s) 92, 95, 98, 164
BstV2I GAAGAC 3 cut(s) 127, 154, 178
BstX2I RGATCY 1 cut(s) 470
BstXI CCANNNNNNTGG 2 cut(s) 29, 380
BstYI RGATCY 1 cut(s) 470
BsuRI GGCC 6 cut(s) 45, 59, 96, 129, 372, 414
BtgI CCRYGG 1 cut(s) 85
BtrI CACGTC 1 cut(s) 226
Cac8I GCNNGC 2 cut(s) 61, 275
Cfr13I GGNCC 3 cut(s) 44, 95, 370
Cfr42I CCGCGG 1 cut(s) 88
CseI GACGC 1 cut(s) 242
Csp6I GTAC 3 cut(s) 200, 384, 645
CviAII CATG 1 cut(s) 166
CviQI GTAC 3 cut(s) 200, 384, 645
DdeI CTNAG 2 cut(s) 49, 667
DpnI GATC 2 cut(s) 326, 472
DpnII GATC 2 cut(s) 324, 470
EaeI YGGCCR 1 cut(s) 57
Eco130I CCWWGG 1 cut(s) 409
Eco91I GGTNACC 1 cut(s) 388
EcoO65I GGTNACC 1 cut(s) 388
EcoRI GAATTC 1 cut(s) 634
EcoT14I CCWWGG 1 cut(s) 409
ErhI CCWWGG 1 cut(s) 409
FaeI CATG 1 cut(s) 169
FaiI YATR 3 cut(s) 37, 167, 197
FaqI GGGAC 4 cut(s) 38, 63, 183, 465
FatI CATG 1 cut(s) 165
FblI GTMKAC 1 cut(s) 333
Fnu4HI GCNGC 6 cut(s) 85, 88, 106, 109, 112, 153
Fsp4HI GCNGC 6 cut(s) 85, 88, 106, 109, 112, 153
FspBI CTAG 3 cut(s) 173, 287, 591
GluI GCNGC 6 cut(s) 85, 88, 106, 109, 112, 153
GsaI CCCAGC 1 cut(s) 84
HaeIII GGCC 6 cut(s) 45, 59, 96, 129, 372, 414
HapII CCGG 2 cut(s) 56, 440
HgaI GACGC 1 cut(s) 242
Hin1I GRCGYC 1 cut(s) 234
Hin1II CATG 1 cut(s) 169
HindIII AAGCTT 1 cut(s) 533
HinfI GANTC 2 cut(s) 547, 567
HpaII CCGG 2 cut(s) 56, 440
HphI GGTGA 4 cut(s) 220, 235, 292, 382
Hpy166II GTNNAC 2 cut(s) 334, 517
Hpy188I TCNGA 1 cut(s) 654
Hpy188III TCNNGA 1 cut(s) 571
Hpy8I GTNNAC 2 cut(s) 334, 517
Hpy99I CGWCG 1 cut(s) 236
HpyAV CCTTC 2 cut(s) 187, 604
HpyCH4III ACNGT 2 cut(s) 77, 388
HpyCH4IV ACGT 2 cut(s) 225, 429
HpyCH4V TGCA 4 cut(s) 114, 120, 277, 509
HpyF10VI GCNNNNNNNGC 5 cut(s) 93, 102, 111, 117, 126
HpyF3I CTNAG 2 cut(s) 49, 667
HpySE526I ACGT 2 cut(s) 225, 429
Hsp92I GRCGYC 1 cut(s) 234
Hsp92II CATG 1 cut(s) 169
KspI CCGCGG 1 cut(s) 88
Kzo9I GATC 2 cut(s) 324, 470
Lsp1109I GCAGC 4 cut(s) 92, 95, 98, 164
LweI GCATC 1 cut(s) 129
MaeI CTAG 3 cut(s) 173, 287, 591
MaeII ACGT 2 cut(s) 225, 429
MaeIII GTNAC 3 cut(s) 226, 388, 602
MalI GATC 2 cut(s) 326, 472
MboI GATC 2 cut(s) 324, 470
MboII GAAGA 7 cut(s) 26, 115, 127, 139, 154, 178, 334
MfeI CAATTG 1 cut(s) 458
MflI RGATCY 1 cut(s) 470
MhlI GDGCHC 1 cut(s) 668
MluCI AATT 5 cut(s) 248, 458, 594, 634, 682
MmeI TCCRAC 2 cut(s) 448, 498
MseI TTAA 3 cut(s) 26, 492, 681
MslI CAYNNNNRTG 1 cut(s) 27
MspA1I CMGCKG 1 cut(s) 87
MspI CCGG 2 cut(s) 56, 440
MspR9I CCNGG 2 cut(s) 56, 440
MunI CAATTG 1 cut(s) 458
MvnI CGCG 1 cut(s) 87
MwoI GCNNNNNNNGC 5 cut(s) 93, 102, 111, 117, 126
NciI CCSGG 2 cut(s) 56, 440
NdeII GATC 2 cut(s) 324, 470
NlaIII CATG 1 cut(s) 169
NlaIV GGNNCC 4 cut(s) 46, 97, 472, 615
NmeAIII GCCGAG 1 cut(s) 81
NmuCI GTSAC 3 cut(s) 226, 388, 602
NspV TTCGAA 1 cut(s) 307
PcsI WCGNNNNNNNCGW 1 cut(s) 156
PfeI GAWTC 2 cut(s) 547, 567
PkrI GCNGC 6 cut(s) 86, 89, 107, 110, 113, 154
Psp1406I AACGTT 1 cut(s) 429
PspEI GGTNACC 1 cut(s) 388
PspFI CCCAGC 1 cut(s) 80
PspN4I GGNNCC 4 cut(s) 46, 97, 472, 615
PspPI GGNCC 3 cut(s) 44, 95, 370
PstI CTGCAG 1 cut(s) 116
PsuI RGATCY 1 cut(s) 470
RsaI GTAC 3 cut(s) 201, 385, 646
RsaNI GTAC 3 cut(s) 200, 384, 645
RseI CAYNNNNRTG 1 cut(s) 27
SacII CCGCGG 1 cut(s) 88
SaqAI TTAA 3 cut(s) 26, 492, 681
SatI GCNGC 6 cut(s) 85, 88, 106, 109, 112, 153
Sau3AI GATC 2 cut(s) 324, 470
Sau96I GGNCC 3 cut(s) 44, 95, 370
ScaI AGTACT 1 cut(s) 646
ScrFI CCNGG 2 cut(s) 56, 440
SduI GDGCHC 1 cut(s) 668
SetI ASST 8 cut(s) 228, 288, 300, 361, 380, 432, 537, 615
SfaNI GCATC 1 cut(s) 129
SfcI CTRYAG 1 cut(s) 112
Sfr303I CCGCGG 1 cut(s) 88
SfuI TTCGAA 1 cut(s) 307
SgrBI CCGCGG 1 cut(s) 88
SmiMI CAYNNNNRTG 1 cut(s) 27
Sse9I AATT 5 cut(s) 248, 458, 594, 634, 682
SsiI CCGC 4 cut(s) 85, 87, 90, 343
SspMI CTAG 3 cut(s) 173, 287, 591
StyD4I CCNGG 2 cut(s) 54, 438
StyI CCWWGG 1 cut(s) 409
TaaI ACNGT 2 cut(s) 77, 388
TaiI ACGT 2 cut(s) 228, 432
TaqI TCGA 1 cut(s) 307
TasI AATT 5 cut(s) 248, 458, 594, 634, 682
TatI WGTACW 1 cut(s) 644
TauI GCSGC 2 cut(s) 87, 90
TfiI GAWTC 2 cut(s) 547, 567
Tru1I TTAA 3 cut(s) 26, 492, 681
Tru9I TTAA 3 cut(s) 26, 492, 681
TseFI GTSAC 3 cut(s) 226, 388, 602
TseI GCWGC 4 cut(s) 105, 108, 111, 152
Tsp45I GTSAC 3 cut(s) 226, 388, 602
TspDTI ATGAA 2 cut(s) 154, 545
TspGWI ACGGA 1 cut(s) 671
XapI RAATTY 1 cut(s) 634
XmiI GTMKAC 1 cut(s) 333
XspI CTAG 3 cut(s) 173, 287, 591
ZrmI AGTACT 1 cut(s) 646
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.