Rw4G009820

cla,cla1,def,dxps2,dxs

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0000901
Physical Location & Seq
Forward (+)
22400428 .. 22402520
2093 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G009820.1

Sequence Viewer

Length: 561 bp
ATGGGTGGTTATGGGGCATGTCTGTTTGAAGAACTTGGACTACACTATATTGGTCCTGTGGATGGTCATAATGTCGAAGACCTTGTCTACATTTTGAACAACATCAAATCCTTACCAGAACCAGGGCTTGTTCTGATTCATGTCATCACTGAGAAAGGAAAAAGCTATGCTCCAGCTGAAGTTTCCCCTGATAAGATGCATGAAACAATCCCAGACAGATGTTTCGATGTTGGGATAGCAGAACAGCATGCTATAACCTTTGCTGCTGGCCTAGCTGCAGAAGGCCTTAAACCTCCTTGTGCTATTTACTCTTCGTTTCTTCAGAGTGGTTATGATCAGCTCCCGGTGAGATTTGCTATAGACAAGGCTAGTTTTGTCGGTGCAGATGGTCCACCACATTGGGGAGCTTTTGATACAACTTTCATGGCTTGTTTACCTAACATGGTGGTCATGGCCGGCCTTCTTCTGAGACTCAACTTAGACAACAAAGGAACCCCATTGGAGAATGGCATGTATGCTAACTCAAACTCTGGAAATAGTTTGGCAAGGGAAGGGTGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00730 ko00900 ko01100 ko01110 ko01130 map00730 map00900 map01100 map01110 map01130
Pfam Domains
Protein Families
DXP_synthase_N Transket_pyr Transketolase_C

Protein Analysis

186

Amino Acids

19.91

Weight (kDa)

4.86

Isoelectric Point (pI)

50.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DXP_synthase_N PF13292 7 - 50 5.6e-11 1-deoxy-D-xylulose-5-phosphate synthase
Transket_pyr PF02779 65 - 152 7.6e-17 Transketolase, pyrimidine binding 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)
AccI GTMKAC 1 cut(s) 87
AcoI YGGCCR 1 cut(s) 453
AcuI CTGAAG 2 cut(s) 198, 305
AfiI CCNNNNNNNGG 3 cut(s) 62, 122, 401
AgsI TTSAA 2 cut(s) 29, 97
AjnI CCWGG 1 cut(s) 121
AluBI AGCT 5 cut(s) 165, 176, 275, 340, 407
AluI AGCT 5 cut(s) 165, 176, 275, 340, 407
Alw26I GTCTC 1 cut(s) 463
AoxI GGCC 4 cut(s) 268, 283, 453, 457
ApeKI GCWGC 2 cut(s) 263, 275
ArsI GACNNNNNNTTYG 4 cut(s) 69, 101, 206, 238
AspS9I GGNCC 2 cut(s) 53, 389
AsuC2I CCSGG 1 cut(s) 344
AsuHPI GGTGA 1 cut(s) 358
AvaII GGWCC 2 cut(s) 53, 389
BbsI GAAGAC 1 cut(s) 84
BbvI GCAGC 2 cut(s) 250, 262
BccI CCATC 2 cut(s) 56, 380
BciT130I CCWGG 1 cut(s) 123
BclI TGATCA 1 cut(s) 334
BcnI CCSGG 1 cut(s) 344
BcoDI GTCTC 1 cut(s) 463
BfaI CTAG 2 cut(s) 272, 369
BfmI CTRYAG 2 cut(s) 276, 357
BisI GCNGC 2 cut(s) 264, 276
BlsI GCNGC 2 cut(s) 265, 277
Bme1390I CCNGG 2 cut(s) 123, 344
Bme18I GGWCC 2 cut(s) 53, 389
BmgT120I GGNCC 2 cut(s) 53, 389
BmiI GGNNCC 1 cut(s) 493
BmrFI CCNGG 2 cut(s) 123, 344
BmsI GCATC 1 cut(s) 186
BpiI GAAGAC 1 cut(s) 84
BpmI CTGGAG 1 cut(s) 156
BpuMI CCSGG 1 cut(s) 344
BsaJI CCNNGG 1 cut(s) 122
Bsc4I CCNNNNNNNGG 3 cut(s) 62, 122, 401
Bse118I RCCGGY 1 cut(s) 455
BseBI CCWGG 1 cut(s) 123
BseDI CCNNGG 1 cut(s) 122
BseGI GGATG 1 cut(s) 67
BseLI CCNNNNNNNGG 3 cut(s) 62, 122, 401
BseMII CTCAG 2 cut(s) 141, 458
BseXI GCAGC 2 cut(s) 250, 262
BsgI GTGCAG 1 cut(s) 402
BshFI GGCC 4 cut(s) 270, 285, 455, 459
BsiSI CCGG 2 cut(s) 344, 456
BslI CCNNNNNNNGG 3 cut(s) 62, 122, 401
BsmAI GTCTC 1 cut(s) 463
BsnI GGCC 4 cut(s) 270, 285, 455, 459
Bsp143I GATC 1 cut(s) 334
BspANI GGCC 4 cut(s) 270, 285, 455, 459
BspCNI CTCAG 2 cut(s) 142, 459
BspLI GGNNCC 1 cut(s) 493
BspMAI CTGCAG 1 cut(s) 280
BsrFI RCCGGY 1 cut(s) 455
BssAI RCCGGY 1 cut(s) 455
BssECI CCNNGG 1 cut(s) 122
BssMI GATC 1 cut(s) 334
Bst2UI CCWGG 1 cut(s) 123
Bst6I CTCTTC 1 cut(s) 316
BstC8I GCNNGC 3 cut(s) 249, 268, 457
BstDEI CTNAG 3 cut(s) 150, 467, 478
BstF5I GGATG 1 cut(s) 67
BstKTI GATC 1 cut(s) 337
BstMAI GTCTC 1 cut(s) 463
BstMBI GATC 1 cut(s) 334
BstMWI GCNNNNNNNGC 1 cut(s) 272
BstNI CCWGG 1 cut(s) 123
BstNSI RCATGY 3 cut(s) 21, 251, 514
BstSCI CCNGG 2 cut(s) 121, 342
BstSFI CTRYAG 2 cut(s) 276, 357
BstV1I GCAGC 2 cut(s) 250, 262
BstV2I GAAGAC 1 cut(s) 84
BstXI CCANNNNNNTGG 1 cut(s) 399
BsuRI GGCC 4 cut(s) 270, 285, 455, 459
BtsCI GGATG 1 cut(s) 67
BtsIMutI CAGTG 1 cut(s) 147
Cac8I GCNNGC 3 cut(s) 249, 268, 457
Cfr10I RCCGGY 1 cut(s) 455
Cfr13I GGNCC 2 cut(s) 53, 389
CviAII CATG 8 cut(s) 18, 140, 200, 248, 424, 442, 451, 511
DdeI CTNAG 3 cut(s) 150, 467, 478
DpnI GATC 1 cut(s) 336
DpnII GATC 1 cut(s) 334
EaeI YGGCCR 1 cut(s) 453
Eam1104I CTCTTC 1 cut(s) 316
EarI CTCTTC 1 cut(s) 316
Eco147I AGGCCT 1 cut(s) 285
Eco47I GGWCC 2 cut(s) 53, 389
Eco57I CTGAAG 2 cut(s) 198, 305
EcoRII CCWGG 1 cut(s) 121
EcoT22I ATGCAT 1 cut(s) 201
FaeI CATG 8 cut(s) 21, 143, 203, 251, 427, 445, 454, 514
FatI CATG 8 cut(s) 17, 139, 199, 247, 423, 441, 450, 510
FbaI TGATCA 1 cut(s) 334
FblI GTMKAC 1 cut(s) 87
Fnu4HI GCNGC 2 cut(s) 264, 276
FokI GGATG 1 cut(s) 74
FseI GGCCGGCC 1 cut(s) 459
Fsp4HI GCNGC 2 cut(s) 264, 276
FspBI CTAG 2 cut(s) 272, 369
GluI GCNGC 2 cut(s) 264, 276
GsuI CTGGAG 1 cut(s) 156
HaeIII GGCC 4 cut(s) 270, 285, 455, 459
HapII CCGG 2 cut(s) 344, 456
Hin1II CATG 8 cut(s) 21, 143, 203, 251, 427, 445, 454, 514
HinfI GANTC 2 cut(s) 136, 471
HpaII CCGG 2 cut(s) 344, 456
HphI GGTGA 1 cut(s) 358
Hpy166II GTNNAC 3 cut(s) 88, 392, 434
Hpy188I TCNGA 3 cut(s) 135, 324, 468
Hpy188III TCNNGA 1 cut(s) 531
Hpy8I GTNNAC 3 cut(s) 88, 392, 434
HpyAV CCTTC 3 cut(s) 275, 470, 545
HpyCH4V TGCA 3 cut(s) 199, 278, 383
HpyF10VI GCNNNNNNNGC 1 cut(s) 272
HpyF3I CTNAG 3 cut(s) 150, 467, 478
Hsp92II CATG 8 cut(s) 21, 143, 203, 251, 427, 445, 454, 514
KroI GCCGGC 1 cut(s) 455
KroNI GCCGGC 1 cut(s) 457
Ksp22I TGATCA 1 cut(s) 334
Kzo9I GATC 1 cut(s) 334
LmnI GCTCC 3 cut(s) 175, 345, 404
Lsp1109I GCAGC 2 cut(s) 250, 262
LweI GCATC 1 cut(s) 186
MaeI CTAG 2 cut(s) 272, 369
MalI GATC 1 cut(s) 336
MboI GATC 1 cut(s) 334
MboII GAAGA 5 cut(s) 41, 89, 303, 311, 455
MlyI GAGTC 1 cut(s) 465
MnlI CCTC 1 cut(s) 303
Mph1103I ATGCAT 1 cut(s) 201
MroNI GCCGGC 1 cut(s) 455
MseI TTAA 2 cut(s) 288, 559
MspA1I CMGCKG 1 cut(s) 176
MspI CCGG 2 cut(s) 344, 456
MspR9I CCNGG 2 cut(s) 123, 344
MvaI CCWGG 1 cut(s) 123
MwoI GCNNNNNNNGC 1 cut(s) 272
NaeI GCCGGC 1 cut(s) 457
NciI CCSGG 1 cut(s) 344
NdeII GATC 1 cut(s) 334
NgoMIV GCCGGC 1 cut(s) 455
NlaIII CATG 8 cut(s) 21, 143, 203, 251, 427, 445, 454, 514
NlaIV GGNNCC 1 cut(s) 493
NsiI ATGCAT 1 cut(s) 201
NspI RCATGY 3 cut(s) 21, 251, 514
PaeI GCATGC 1 cut(s) 251
PceI AGGCCT 1 cut(s) 285
PdiI GCCGGC 1 cut(s) 457
PfeI GAWTC 1 cut(s) 136
PflFI GACNNNGTC 1 cut(s) 83
PkrI GCNGC 2 cut(s) 265, 277
PleI GAGTC 1 cut(s) 465
PpsI GAGTC 1 cut(s) 465
Psp6I CCWGG 1 cut(s) 121
PspGI CCWGG 1 cut(s) 121
PspN4I GGNNCC 1 cut(s) 493
PspPI GGNCC 2 cut(s) 53, 389
PsrI GAACNNNNNNTAC 2 cut(s) 24, 56
PstI CTGCAG 1 cut(s) 280
PsyI GACNNNGTC 1 cut(s) 83
PvuII CAGCTG 1 cut(s) 176
RigI GGCCGGCC 1 cut(s) 459
SaqAI TTAA 2 cut(s) 288, 559
SatI GCNGC 2 cut(s) 264, 276
Sau3AI GATC 1 cut(s) 334
Sau96I GGNCC 2 cut(s) 53, 389
SchI GAGTC 1 cut(s) 465
ScrFI CCNGG 2 cut(s) 123, 344
SetI ASST 9 cut(s) 84, 167, 178, 260, 277, 295, 342, 409, 439
SfaNI GCATC 1 cut(s) 186
SfcI CTRYAG 2 cut(s) 276, 357
SinI GGWCC 2 cut(s) 53, 389
SphI GCATGC 1 cut(s) 251
SseBI AGGCCT 1 cut(s) 285
SspMI CTAG 2 cut(s) 272, 369
StuI AGGCCT 1 cut(s) 285
StyD4I CCNGG 2 cut(s) 121, 342
TaqI TCGA 2 cut(s) 75, 225
TfiI GAWTC 1 cut(s) 136
Tru1I TTAA 2 cut(s) 288, 559
Tru9I TTAA 2 cut(s) 288, 559
TscAI CASTG 1 cut(s) 154
TseI GCWGC 2 cut(s) 263, 275
TspDTI ATGAA 3 cut(s) 128, 216, 412
TspRI CASTG 1 cut(s) 154
Tth111I GACNNNGTC 1 cut(s) 83
VpaK11BI GGWCC 2 cut(s) 53, 389
XceI RCATGY 3 cut(s) 21, 251, 514
XmiI GTMKAC 1 cut(s) 87
XspI CTAG 2 cut(s) 272, 369
Zsp2I ATGCAT 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.