Rroxscaffold_3G00255960

Ycf49-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0008707
Physical Location & Seq
Reverse (-)
50410834 .. 50412959
2126 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00255960.1

Sequence Viewer

Length: 540 bp
ATGGCAATGAACTCCTTACTGCACCTCCCTAAACCCCATTTCCCTCCAACCTTCCCTGCACACCCAAAGCCCCAAACCCAACTCTCAAAGTCCACCAGTCAAAATGGTAACCCGAAAACCATGGTGGGTAGTCTACTCGGGGCGGGTCTGACCCTGTCCCTGACGGTCATGGCACCCGCCTCAGCCGCTGAGCTACCGTTACTGGATTCTCTGCAGCTCAGTGAACCTGCCAATGCCCTCTCCCTGCCCACATGGGCCATACACGTGTCCAGCGTCGTTGAATGGATTACAGCAATGGTGTTGGTGTGGCAGTATGGTGAGAAGTCCGGGTTCGAATCGTGGAAAGGGCTGGCTTGGGGTATGGTTCCCCTTCTTGGTGGAGCATTCTGTGCATGCACTTGGCATTTCTTTTATAACTCAGAGTCTCTTGAGGTATTGGTGGCTCTTCAAGCAGCCCTGACAGTTATAGGCAATGCCACAATGTGTTTTGCTGCATATCGTATTTACAGATCAACTGAAGAACGCTCCAAGAAGCTTTGA
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
DUF2499

Protein Analysis

179

Amino Acids

19.42

Weight (kDa)

7.76

Isoelectric Point (pI)

39.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF2499 PF10693 79 - 166 1.3e-39 Protein of unknown function (DUF2499)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 414
Acc36I ACCTGC 1 cut(s) 235
AccB1I GGYRCC 1 cut(s) 172
AccI GTMKAC 1 cut(s) 133
AciI CCGC 3 cut(s) 143, 177, 186
AcuI CTGAAG 1 cut(s) 537
AcvI CACGTG 1 cut(s) 265
AdeI CACNNNGTG 1 cut(s) 483
AfiI CCNNNNNNNGG 1 cut(s) 374
AflIII ACRYGT 2 cut(s) 262, 264
AgsI TTSAA 2 cut(s) 281, 449
AluBI AGCT 3 cut(s) 193, 217, 535
AluI AGCT 3 cut(s) 193, 217, 535
Alw26I GTCTC 1 cut(s) 429
AlwNI CAGNNNCTG 1 cut(s) 188
Ama87I CYCGRG 1 cut(s) 137
AoxI GGCC 1 cut(s) 255
ApeKI GCWGC 3 cut(s) 214, 452, 491
AspS9I GGNCC 1 cut(s) 255
AsuC2I CCSGG 1 cut(s) 328
AsuHPI GGTGA 1 cut(s) 329
AsuII TTCGAA 1 cut(s) 333
AvaI CYCGRG 1 cut(s) 137
BanI GGYRCC 1 cut(s) 172
BbrPI CACGTG 1 cut(s) 265
BbvCI CCTCAGC 1 cut(s) 181
BbvI GCAGC 3 cut(s) 226, 464, 478
BcnI CCSGG 1 cut(s) 328
BcoDI GTCTC 1 cut(s) 429
BfmI CTRYAG 1 cut(s) 212
BfuAI ACCTGC 1 cut(s) 235
BisI GCNGC 4 cut(s) 186, 215, 453, 492
BlpI GCTNAGC 1 cut(s) 189
BlsI GCNGC 4 cut(s) 187, 216, 454, 493
Bme1390I CCNGG 1 cut(s) 328
BmeT110I CYCGRG 1 cut(s) 137
BmgT120I GGNCC 1 cut(s) 255
BmiI GGNNCC 2 cut(s) 174, 366
BmrFI CCNGG 1 cut(s) 328
Bpu10I CCTNAGC 1 cut(s) 181
Bpu1102I GCTNAGC 1 cut(s) 189
Bpu14I TTCGAA 1 cut(s) 333
BpuEI CTTGAG 1 cut(s) 449
BpuMI CCSGG 1 cut(s) 328
BsaAI YACGTR 1 cut(s) 265
BsaJI CCNNGG 1 cut(s) 120
BsaXI ACNNNNNCTCC 2 cut(s) 9, 39
Bsc4I CCNNNNNNNGG 1 cut(s) 374
Bse1I ACTGG 2 cut(s) 96, 207
Bse3DI GCAATG 3 cut(s) 12, 300, 478
BseDI CCNNGG 1 cut(s) 120
BseLI CCNNNNNNNGG 1 cut(s) 374
BseMI GCAATG 3 cut(s) 12, 300, 478
BseMII CTCAG 4 cut(s) 180, 195, 232, 432
BseNI ACTGG 2 cut(s) 96, 207
BseXI GCAGC 3 cut(s) 226, 464, 478
BsgI GTGCAG 2 cut(s) 5, 42
BshFI GGCC 1 cut(s) 257
BshNI GGYRCC 1 cut(s) 172
BsiHKCI CYCGRG 1 cut(s) 137
BsiSI CCGG 1 cut(s) 327
BslFI GGGAC 1 cut(s) 142
BslI CCNNNNNNNGG 1 cut(s) 374
BsmAI GTCTC 1 cut(s) 429
BsmFI GGGAC 1 cut(s) 142
BsmI GAATGC 1 cut(s) 383
BsnI GGCC 1 cut(s) 257
BsoBI CYCGRG 1 cut(s) 137
Bsp119I TTCGAA 1 cut(s) 333
Bsp143I GATC 1 cut(s) 509
Bsp1720I GCTNAGC 1 cut(s) 189
Bsp19I CCATGG 1 cut(s) 120
BspACI CCGC 3 cut(s) 143, 177, 186
BspANI GGCC 1 cut(s) 257
BspCNI CTCAG 4 cut(s) 181, 194, 231, 431
BspLI GGNNCC 2 cut(s) 174, 366
BspMAI CTGCAG 1 cut(s) 216
BspMI ACCTGC 1 cut(s) 235
BspQI GCTCTTC 1 cut(s) 450
BspT104I TTCGAA 1 cut(s) 333
BspT107I GGYRCC 1 cut(s) 172
BsrDI GCAATG 3 cut(s) 12, 300, 478
BsrI ACTGG 2 cut(s) 96, 207
BssECI CCNNGG 1 cut(s) 120
BssMI GATC 1 cut(s) 509
BssT1I CCWWGG 1 cut(s) 120
Bst4CI ACNGT 3 cut(s) 166, 198, 463
Bst6I CTCTTC 1 cut(s) 450
BstAPI GCANNNNNTGC 1 cut(s) 389
BstBAI YACGTR 1 cut(s) 265
BstBI TTCGAA 1 cut(s) 333
BstC8I GCNNGC 2 cut(s) 351, 394
BstDEI CTNAG 4 cut(s) 181, 189, 218, 418
BstDSI CCRYGG 1 cut(s) 120
BstEII GGTNACC 1 cut(s) 107
BstKTI GATC 1 cut(s) 512
BstMAI GTCTC 1 cut(s) 429
BstMBI GATC 1 cut(s) 509
BstMWI GCNNNNNNNGC 3 cut(s) 185, 389, 449
BstNSI RCATGY 1 cut(s) 396
BstPI GGTNACC 1 cut(s) 107
BstSCI CCNGG 1 cut(s) 326
BstSFI CTRYAG 1 cut(s) 212
BstV1I GCAGC 3 cut(s) 226, 464, 478
BsuRI GGCC 1 cut(s) 257
BtgI CCRYGG 1 cut(s) 120
BtsIMutI CAGTG 1 cut(s) 226
BveI ACCTGC 1 cut(s) 235
Cac8I GCNNGC 2 cut(s) 351, 394
CaiI CAGNNNCTG 1 cut(s) 188
Cfr13I GGNCC 1 cut(s) 255
CseI GACGC 1 cut(s) 262
CviAII CATG 4 cut(s) 121, 169, 252, 393
DdeI CTNAG 4 cut(s) 181, 189, 218, 418
DpnI GATC 1 cut(s) 511
DpnII GATC 1 cut(s) 509
DraIII CACNNNGTG 1 cut(s) 483
Eam1104I CTCTTC 1 cut(s) 450
EarI CTCTTC 1 cut(s) 450
Eco130I CCWWGG 1 cut(s) 120
Eco57I CTGAAG 1 cut(s) 537
Eco72I CACGTG 1 cut(s) 265
Eco88I CYCGRG 1 cut(s) 137
Eco91I GGTNACC 1 cut(s) 107
EcoO65I GGTNACC 1 cut(s) 107
EcoT14I CCWWGG 1 cut(s) 120
ErhI CCWWGG 1 cut(s) 120
FaeI CATG 4 cut(s) 124, 172, 255, 396
FaqI GGGAC 1 cut(s) 142
FatI CATG 4 cut(s) 120, 168, 251, 392
FauI CCCGC 2 cut(s) 136, 184
FblI GTMKAC 1 cut(s) 133
Fnu4HI GCNGC 4 cut(s) 186, 215, 453, 492
Fsp4HI GCNGC 4 cut(s) 186, 215, 453, 492
GluI GCNGC 4 cut(s) 186, 215, 453, 492
HaeIII GGCC 1 cut(s) 257
HapII CCGG 1 cut(s) 327
HgaI GACGC 1 cut(s) 262
Hin1II CATG 4 cut(s) 124, 172, 255, 396
HindIII AAGCTT 1 cut(s) 533
HinfI GANTC 3 cut(s) 206, 335, 422
HpaII CCGG 1 cut(s) 327
HphI GGTGA 1 cut(s) 329
Hpy166II GTNNAC 3 cut(s) 93, 134, 224
Hpy188I TCNGA 2 cut(s) 150, 421
Hpy188III TCNNGA 1 cut(s) 428
Hpy8I GTNNAC 3 cut(s) 93, 134, 224
Hpy99I CGWCG 1 cut(s) 278
HpyAV CCTTC 2 cut(s) 61, 380
HpyCH4III ACNGT 3 cut(s) 166, 198, 463
HpyCH4IV ACGT 1 cut(s) 264
HpyCH4V TGCA 6 cut(s) 22, 59, 214, 392, 396, 494
HpyF10VI GCNNNNNNNGC 3 cut(s) 185, 389, 449
HpyF3I CTNAG 4 cut(s) 181, 189, 218, 418
HpySE526I ACGT 1 cut(s) 264
Hsp92II CATG 4 cut(s) 124, 172, 255, 396
Kzo9I GATC 1 cut(s) 509
LguI GCTCTTC 1 cut(s) 450
LmnI GCTCC 2 cut(s) 380, 530
Lsp1109I GCAGC 3 cut(s) 226, 464, 478
MaeII ACGT 1 cut(s) 264
MaeIII GTNAC 2 cut(s) 107, 198
MalI GATC 1 cut(s) 511
MboI GATC 1 cut(s) 509
MboII GAAGA 2 cut(s) 437, 530
MlyI GAGTC 1 cut(s) 431
MmeI TCCRAC 1 cut(s) 71
MnlI CCTC 5 cut(s) 35, 54, 190, 248, 424
MslI CAYNNNNRTG 1 cut(s) 263
MspA1I CMGCKG 1 cut(s) 188
MspI CCGG 1 cut(s) 327
MspR9I CCNGG 1 cut(s) 328
Mva1269I GAATGC 1 cut(s) 383
MwoI GCNNNNNNNGC 3 cut(s) 185, 389, 449
NciI CCSGG 1 cut(s) 328
NcoI CCATGG 1 cut(s) 120
NdeII GATC 1 cut(s) 509
NlaIII CATG 4 cut(s) 124, 172, 255, 396
NlaIV GGNNCC 2 cut(s) 174, 366
NspI RCATGY 1 cut(s) 396
NspV TTCGAA 1 cut(s) 333
PaeI GCATGC 1 cut(s) 396
PciSI GCTCTTC 1 cut(s) 450
PcsI WCGNNNNNNNCGW 1 cut(s) 270
PctI GAATGC 1 cut(s) 383
PfeI GAWTC 2 cut(s) 206, 335
PflFI GACNNNGTC 1 cut(s) 154
PkrI GCNGC 4 cut(s) 187, 216, 454, 493
PleI GAGTC 1 cut(s) 430
PmaCI CACGTG 1 cut(s) 265
PmlI CACGTG 1 cut(s) 265
PpsI GAGTC 1 cut(s) 430
Ppu21I YACGTR 1 cut(s) 265
PsiI TTATAA 1 cut(s) 414
PspCI CACGTG 1 cut(s) 265
PspEI GGTNACC 1 cut(s) 107
PspN4I GGNNCC 2 cut(s) 174, 366
PspPI GGNCC 1 cut(s) 255
PstI CTGCAG 1 cut(s) 216
PstNI CAGNNNCTG 1 cut(s) 188
PsyI GACNNNGTC 1 cut(s) 154
RseI CAYNNNNRTG 1 cut(s) 263
SapI GCTCTTC 1 cut(s) 450
SatI GCNGC 4 cut(s) 186, 215, 453, 492
Sau3AI GATC 1 cut(s) 509
Sau96I GGNCC 1 cut(s) 255
SchI GAGTC 1 cut(s) 431
ScrFI CCNGG 1 cut(s) 328
SetI ASST 8 cut(s) 27, 53, 195, 219, 229, 267, 435, 537
SfcI CTRYAG 1 cut(s) 212
SfuI TTCGAA 1 cut(s) 333
SmiMI CAYNNNNRTG 1 cut(s) 263
SmlI CTYRAG 1 cut(s) 428
SmoI CTYRAG 1 cut(s) 428
SphI GCATGC 1 cut(s) 396
SsiI CCGC 3 cut(s) 143, 177, 186
StyD4I CCNGG 1 cut(s) 326
StyI CCWWGG 1 cut(s) 120
TaaI ACNGT 3 cut(s) 166, 198, 463
TaiI ACGT 1 cut(s) 267
TaqI TCGA 1 cut(s) 333
TauI GCSGC 1 cut(s) 188
TfiI GAWTC 2 cut(s) 206, 335
TscAI CASTG 1 cut(s) 226
TseI GCWGC 3 cut(s) 214, 452, 491
TspDTI ATGAA 1 cut(s) 23
TspRI CASTG 1 cut(s) 226
Tth111I GACNNNGTC 1 cut(s) 154
XceI RCATGY 1 cut(s) 396
XmiI GTMKAC 1 cut(s) 133
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.