Rorug03G0162100

Sterile alpha motif.

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0006591
Physical Location & Seq
Forward (+)
13457925 .. 13458916
992 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0162100.1

Sequence Viewer

Length: 489 bp
ATGGCGTCAAGGATGACCAGCTTCCAGTCCAAACCCAACTACCTGTTCCCGACTCACAACCCGATTCGCAACTCCGACGGAGTCTTCGAGTTCGACGAGGCCGAGTTGTGGGTCAATCCATCCAACGGTTCAAACCAGCCGGCCGAGTCCAAGAAGATGATGTCCACCATACCCAGAGAGCCTAGGAGGAAGACGATGGCCGATCAGAAAGGCACTGACACCGTGACTTCAGCGTCTTTGCCAGTCAACATTCCGGACTGGTCAAAGATTCTGAAAGAACAGAGGAAGCAGAGAGACGTGAGCGATGAAGATGTGGATAATGACTACGAGAATGGTGACGAAGTCGAGAGGGTTCCGCCTCATGAGTACTTGGCCAGGAACAGAGGGGCTTCGTTTTCTGTGCACGAAGGGATTGGGAGGACTTTGAAGGGGAGAGACTTGAGGCGCGTGAGGAATGCGATTTGGAAGCAGGTCGGGTTTGAAGACTGA
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
SAM_2

Protein Analysis

162

Amino Acids

18.58

Weight (kDa)

6.33

Isoelectric Point (pI)

41.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Senescence_reg PF04520 44 - 162 1.9e-39 Senescence regulator
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)
AasI GACNNNNNNGTC 1 cut(s) 232
Acc36I ACCTGC 1 cut(s) 460
AccII CGCG 1 cut(s) 447
AccIII TCCGGA 1 cut(s) 253
AciI CCGC 1 cut(s) 356
AcoI YGGCCR 3 cut(s) 141, 198, 372
AcuI CTGAAG 1 cut(s) 213
AcyI GRCGYC 1 cut(s) 5
AfaI GTAC 1 cut(s) 368
AfiI CCNNNNNNNGG 2 cut(s) 108, 125
AgsI TTSAA 3 cut(s) 132, 427, 482
AjiI CACGTC 1 cut(s) 298
AjnI CCWGG 1 cut(s) 374
AjuI GAANNNNNNNTTGG 2 cut(s) 29, 61
AluBI AGCT 1 cut(s) 21
AluI AGCT 1 cut(s) 21
Alw21I GWGCWC 1 cut(s) 405
Alw26I GTCTC 2 cut(s) 288, 429
Alw44I GTGCAC 1 cut(s) 401
Aor13HI TCCGGA 1 cut(s) 253
AoxI GGCC 4 cut(s) 99, 141, 198, 372
ApaLI GTGCAC 1 cut(s) 401
ArsI GACNNNNNNTTYG 2 cut(s) 68, 100
AspA2I CCTAGG 1 cut(s) 182
AspLEI GCGC 1 cut(s) 447
AsuHPI GGTGA 1 cut(s) 347
AvrII CCTAGG 1 cut(s) 182
BaeGI GKGCMC 1 cut(s) 405
BalI TGGCCA 1 cut(s) 374
BbsI GAAGAC 2 cut(s) 76, 197
Bbv12I GWGCWC 1 cut(s) 405
BccI CCATC 2 cut(s) 127, 190
BciT130I CCWGG 1 cut(s) 376
BcoDI GTCTC 2 cut(s) 288, 429
BfaI CTAG 1 cut(s) 183
BfuAI ACCTGC 1 cut(s) 460
BlnI CCTAGG 1 cut(s) 182
BmcAI AGTACT 1 cut(s) 368
Bme1390I CCNGG 1 cut(s) 376
BmgBI CACGTC 1 cut(s) 298
BmiI GGNNCC 1 cut(s) 354
BmrFI CCNGG 1 cut(s) 376
BpiI GAAGAC 2 cut(s) 76, 197
BpuEI CTTGAG 1 cut(s) 460
BsaHI GRCGYC 1 cut(s) 5
BsaJI CCNNGG 1 cut(s) 182
BsaWI WCCGGW 1 cut(s) 253
Bsc4I CCNNNNNNNGG 2 cut(s) 108, 125
Bse118I RCCGGY 1 cut(s) 139
Bse1I ACTGG 3 cut(s) 25, 242, 263
BseAI TCCGGA 1 cut(s) 253
BseBI CCWGG 1 cut(s) 376
BseDI CCNNGG 1 cut(s) 182
BseGI GGATG 2 cut(s) 18, 119
BseLI CCNNNNNNNGG 2 cut(s) 108, 125
BseNI ACTGG 3 cut(s) 25, 242, 263
BseSI GKGCMC 1 cut(s) 405
BseX3I CGGCCG 1 cut(s) 141
Bsh1236I CGCG 1 cut(s) 447
Bsh1285I CGRYCG 1 cut(s) 144
BshFI GGCC 4 cut(s) 101, 143, 200, 374
BsiEI CGRYCG 1 cut(s) 144
BsiHKAI GWGCWC 1 cut(s) 405
BsiSI CCGG 2 cut(s) 140, 254
BslI CCNNNNNNNGG 2 cut(s) 108, 125
BsmAI GTCTC 2 cut(s) 288, 429
BsmBI CGTCTC 1 cut(s) 288
BsmI GAATGC 1 cut(s) 460
BsnI GGCC 4 cut(s) 101, 143, 200, 374
Bsp1286I GDGCHC 1 cut(s) 405
Bsp13I TCCGGA 1 cut(s) 253
Bsp143I GATC 1 cut(s) 202
BspACI CCGC 1 cut(s) 356
BspANI GGCC 4 cut(s) 101, 143, 200, 374
BspEI TCCGGA 1 cut(s) 253
BspFNI CGCG 1 cut(s) 447
BspHI TCATGA 1 cut(s) 361
BspLI GGNNCC 1 cut(s) 354
BspMI ACCTGC 1 cut(s) 460
BsrFI RCCGGY 1 cut(s) 139
BsrI ACTGG 3 cut(s) 25, 242, 263
BssAI RCCGGY 1 cut(s) 139
BssECI CCNNGG 1 cut(s) 182
BssMI GATC 1 cut(s) 202
BssNI GRCGYC 1 cut(s) 5
BssT1I CCWWGG 1 cut(s) 182
Bst2UI CCWGG 1 cut(s) 376
Bst4CI ACNGT 2 cut(s) 128, 223
BstACI GRCGYC 1 cut(s) 5
BstC8I GCNNGC 1 cut(s) 141
BstF5I GGATG 2 cut(s) 18, 119
BstFNI CGCG 1 cut(s) 447
BstHHI GCGC 1 cut(s) 447
BstKTI GATC 1 cut(s) 205
BstMAI GTCTC 2 cut(s) 288, 429
BstMBI GATC 1 cut(s) 202
BstMCI CGRYCG 1 cut(s) 144
BstNI CCWGG 1 cut(s) 376
BstSCI CCNGG 1 cut(s) 374
BstSLI GKGCMC 1 cut(s) 405
BstUI CGCG 1 cut(s) 447
BstV2I GAAGAC 2 cut(s) 76, 197
BstZI CGGCCG 1 cut(s) 141
BsuRI GGCC 4 cut(s) 101, 143, 200, 374
BtgZI GCGATG 1 cut(s) 318
BtrI CACGTC 1 cut(s) 298
BtsCI GGATG 2 cut(s) 18, 119
BtsIMutI CAGTG 1 cut(s) 213
BveI ACCTGC 1 cut(s) 460
Cac8I GCNNGC 1 cut(s) 141
CciI TCATGA 1 cut(s) 361
CfoI GCGC 1 cut(s) 447
Cfr10I RCCGGY 1 cut(s) 139
CseI GACGC 1 cut(s) 222
Csp6I GTAC 1 cut(s) 367
CviAII CATG 1 cut(s) 362
CviJI RGCY 8 cut(s) 21, 101, 139, 143, 181, 200, 374, 389
CviKI_1 RGCY 8 cut(s) 21, 101, 139, 143, 181, 200, 374, 389
CviQI GTAC 1 cut(s) 367
DpnI GATC 1 cut(s) 204
DpnII GATC 1 cut(s) 202
DrdI GACNNNNNNGTC 1 cut(s) 232
DseDI GACNNNNNNGTC 1 cut(s) 232
EaeI YGGCCR 3 cut(s) 141, 198, 372
EagI CGGCCG 1 cut(s) 141
EciI GGCGGA 1 cut(s) 345
EclXI CGGCCG 1 cut(s) 141
Eco130I CCWWGG 1 cut(s) 182
Eco52I CGGCCG 1 cut(s) 141
Eco57I CTGAAG 1 cut(s) 213
EcoRII CCWGG 1 cut(s) 374
EcoT14I CCWWGG 1 cut(s) 182
ErhI CCWWGG 1 cut(s) 182
Esp3I CGTCTC 1 cut(s) 288
FaeI CATG 1 cut(s) 365
FaiI YATR 2 cut(s) 170, 363
FatI CATG 1 cut(s) 361
FokI GGATG 2 cut(s) 25, 106
FspBI CTAG 1 cut(s) 183
GlaI GCGC 1 cut(s) 446
HaeIII GGCC 4 cut(s) 101, 143, 200, 374
HapII CCGG 2 cut(s) 140, 254
HgaI GACGC 1 cut(s) 222
HhaI GCGC 1 cut(s) 447
Hin1I GRCGYC 1 cut(s) 5
Hin1II CATG 1 cut(s) 365
Hin6I GCGC 1 cut(s) 445
HinP1I GCGC 1 cut(s) 445
HincII GTYRAC 1 cut(s) 247
HindII GTYRAC 1 cut(s) 247
HinfI GANTC 5 cut(s) 52, 64, 81, 146, 268
HpaII CCGG 2 cut(s) 140, 254
HphI GGTGA 1 cut(s) 347
Hpy166II GTNNAC 3 cut(s) 165, 247, 403
Hpy188I TCNGA 3 cut(s) 76, 207, 273
Hpy188III TCNNGA 4 cut(s) 49, 254, 346, 362
Hpy8I GTNNAC 3 cut(s) 165, 247, 403
Hpy99I CGWCG 2 cut(s) 80, 98
HpyAV CCTTC 2 cut(s) 401, 421
HpyCH4III ACNGT 2 cut(s) 128, 223
HpyCH4IV ACGT 1 cut(s) 297
HpyCH4V TGCA 1 cut(s) 403
HpySE526I ACGT 1 cut(s) 297
Hsp92I GRCGYC 1 cut(s) 5
Hsp92II CATG 1 cut(s) 365
HspAI GCGC 1 cut(s) 445
Kpn2I TCCGGA 1 cut(s) 253
KroI GCCGGC 1 cut(s) 139
KroNI GCCGGC 1 cut(s) 141
Kzo9I GATC 1 cut(s) 202
MaeI CTAG 1 cut(s) 183
MaeII ACGT 1 cut(s) 297
MaeIII GTNAC 2 cut(s) 223, 335
MalI GATC 1 cut(s) 204
MboI GATC 1 cut(s) 202
MboII GAAGA 4 cut(s) 76, 166, 202, 320
MhlI GDGCHC 1 cut(s) 405
MlsI TGGCCA 1 cut(s) 374
MluNI TGGCCA 1 cut(s) 374
MlyI GAGTC 3 cut(s) 46, 90, 155
MmeI TCCRAC 2 cut(s) 99, 147
MnlI CCTC 9 cut(s) 91, 180, 276, 342, 369, 377, 411, 435, 444
Mox20I TGGCCA 1 cut(s) 374
MroI TCCGGA 1 cut(s) 253
MroNI GCCGGC 1 cut(s) 139
MscI TGGCCA 1 cut(s) 374
Msp20I TGGCCA 1 cut(s) 374
MspI CCGG 2 cut(s) 140, 254
MspR9I CCNGG 1 cut(s) 376
Mva1269I GAATGC 1 cut(s) 460
MvaI CCWGG 1 cut(s) 376
MvnI CGCG 1 cut(s) 447
NaeI GCCGGC 1 cut(s) 141
NdeII GATC 1 cut(s) 202
NgoMIV GCCGGC 1 cut(s) 139
NlaIII CATG 1 cut(s) 365
NlaIV GGNNCC 1 cut(s) 354
NmeAIII GCCGAG 2 cut(s) 127, 169
NmuCI GTSAC 2 cut(s) 223, 335
PagI TCATGA 1 cut(s) 361
PcsI WCGNNNNNNNCGW 3 cut(s) 84, 93, 99
PctI GAATGC 1 cut(s) 460
PdiI GCCGGC 1 cut(s) 141
PfeI GAWTC 2 cut(s) 64, 268
PflFI GACNNNGTC 2 cut(s) 80, 341
PleI GAGTC 3 cut(s) 46, 89, 154
PpsI GAGTC 3 cut(s) 46, 89, 154
Psp6I CCWGG 1 cut(s) 374
PspGI CCWGG 1 cut(s) 374
PspN4I GGNNCC 1 cut(s) 354
PsyI GACNNNGTC 2 cut(s) 80, 341
RsaI GTAC 1 cut(s) 368
RsaNI GTAC 1 cut(s) 367
Sau3AI GATC 1 cut(s) 202
ScaI AGTACT 1 cut(s) 368
SchI GAGTC 3 cut(s) 46, 90, 155
ScrFI CCNGG 1 cut(s) 376
SduI GDGCHC 1 cut(s) 405
SetI ASST 4 cut(s) 23, 45, 300, 474
SmlI CTYRAG 1 cut(s) 439
SmoI CTYRAG 1 cut(s) 439
SsiI CCGC 1 cut(s) 356
SspMI CTAG 1 cut(s) 183
StyD4I CCNGG 1 cut(s) 374
StyI CCWWGG 1 cut(s) 182
TaaI ACNGT 2 cut(s) 128, 223
TaiI ACGT 1 cut(s) 300
TaqI TCGA 3 cut(s) 87, 93, 345
TatI WGTACW 1 cut(s) 366
TfiI GAWTC 2 cut(s) 64, 268
TscAI CASTG 1 cut(s) 220
TseFI GTSAC 2 cut(s) 223, 335
Tsp45I GTSAC 2 cut(s) 223, 335
TspDTI ATGAA 1 cut(s) 321
TspGWI ACGGA 1 cut(s) 93
TspRI CASTG 1 cut(s) 220
Tth111I GACNNNGTC 2 cut(s) 80, 341
VneI GTGCAC 1 cut(s) 401
XmaJI CCTAGG 1 cut(s) 182
XspI CTAG 1 cut(s) 183
ZrmI AGTACT 1 cut(s) 368
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.