Rroxscaffold_3G00224780

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0005834
Physical Location & Seq
Reverse (-)
8033036 .. 8034041
1006 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00224780.1

Sequence Viewer

Length: 645 bp
ATGTTTTCTTTCAATGAGTTGTTGTTGGAGCGAAAATATCACAGGGGATACAACTTCCCCTCCTCCTGTTCGCCGTCGGTGGTCAACATGAAGGACGGTGCAGATTTCGTCACGAGCTCAGCTGCTTCCCTGAGCCACAAGGAAGCCGAGAGGCGGCGCAGGCAGCGTATCAACACCCACCTCTCCACCCTCCGTTCTCTCCTCCCCAGCACCGCCAGAACGGACAAGGCGTCGCTGCTGGCGGAGGTGGTGCAACACATGAAGGACTTGAAGCGGCGGGCTGATGAGCTGGCGCGACAGGAGGGAGACTCGTCGCCTTTTCCCGGGGAGTTGGACGAGGCGAGTGTGAGTTACCACGGCGAAGGGCTTTTGAAGGCGACGCTTTGCTGCGAGGATAGGCCGGGTCTGAACCGGGACTTGGTCCAGGCGATCCGGTCGGTTAGGGTCAGGCCGGTTAAGGCGGAGATGGTGACGGTCGGTGGAAGGACTAAGAGTGTGGTGGTGATGAAGCGGACTGGTGGCGGCGGCGGGGAGGAGGAGGTGAAGGATTTGAAGGTGGCTTTGAAAGCGGTGGTGGAGAATCGGGCCTTCGGTTCCCGGGTCGGTCTATTTGGGAAGCGGGCTCGGTTTTACGGGTCGGTTTAG
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
HLH

Protein Analysis

214

Amino Acids

23.64

Weight (kDa)

9.83

Isoelectric Point (pI)

51.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 45 - 91 1.4e-12 Helix-loop-helix DNA-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)
AccII CGCG 1 cut(s) 295
AclWI GGATC 1 cut(s) 424
AcyI GRCGYC 1 cut(s) 230
AfiI CCNNNNNNNGG 3 cut(s) 153, 323, 418
AgsI TTSAA 5 cut(s) 13, 271, 373, 553, 565
AhdI GACNNNNNGTC 1 cut(s) 229
AjnI CCWGG 1 cut(s) 423
AjuI GAANNNNNNNTTGG 2 cut(s) 401, 433
AluBI AGCT 3 cut(s) 117, 122, 289
AluI AGCT 3 cut(s) 117, 122, 289
Alw21I GWGCWC 1 cut(s) 119
Alw26I GTCTC 1 cut(s) 300
AlwI GGATC 1 cut(s) 424
Ama87I CYCGRG 2 cut(s) 323, 597
AoxI GGCC 3 cut(s) 398, 449, 585
ApeKI GCWGC 4 cut(s) 122, 163, 235, 387
AspLEI GCGC 2 cut(s) 159, 295
AspS9I GGNCC 2 cut(s) 421, 585
AsuC2I CCSGG 6 cut(s) 324, 325, 402, 413, 598, 599
AsuHPI GGTGA 3 cut(s) 481, 514, 553
AvaI CYCGRG 2 cut(s) 323, 597
AvaII GGWCC 1 cut(s) 421
BanII GRGCYC 2 cut(s) 119, 625
BauI CACGAG 1 cut(s) 112
Bbv12I GWGCWC 1 cut(s) 119
BbvI GCAGC 4 cut(s) 109, 175, 222, 374
BccI CCATC 1 cut(s) 460
BceAI ACGGC 2 cut(s) 58, 373
BciT130I CCWGG 1 cut(s) 425
BciVI GTATCC 1 cut(s) 41
BcnI CCSGG 6 cut(s) 324, 325, 402, 413, 598, 599
BcoDI GTCTC 1 cut(s) 300
BfuI GTATCC 1 cut(s) 41
BisI GCNGC 8 cut(s) 123, 155, 164, 236, 275, 388, 523, 526
BlpI GCTNAGC 1 cut(s) 118
BlsI GCNGC 8 cut(s) 124, 156, 165, 237, 276, 389, 524, 527
Bme1390I CCNGG 7 cut(s) 324, 325, 402, 413, 425, 598, 599
Bme18I GGWCC 1 cut(s) 421
BmeRI GACNNNNNGTC 1 cut(s) 229
BmeT110I CYCGRG 2 cut(s) 323, 597
BmgT120I GGNCC 2 cut(s) 421, 585
BmiI GGNNCC 1 cut(s) 595
BmrFI CCNGG 7 cut(s) 324, 325, 402, 413, 425, 598, 599
BplI GAGNNNNNCTC 2 cut(s) 293, 325
Bpu10I CCTNAGC 1 cut(s) 131
Bpu1102I GCTNAGC 1 cut(s) 118
BpuMI CCSGG 6 cut(s) 324, 325, 402, 413, 598, 599
BsaHI GRCGYC 1 cut(s) 230
BsaJI CCNNGG 4 cut(s) 323, 324, 355, 597
BsaWI WCCGGW 1 cut(s) 432
BsaXI ACNNNNNCTCC 2 cut(s) 44, 74
Bsc4I CCNNNNNNNGG 3 cut(s) 153, 323, 418
Bse118I RCCGGY 1 cut(s) 451
Bse1I ACTGG 1 cut(s) 520
BseBI CCWGG 1 cut(s) 425
BseDI CCNNGG 4 cut(s) 323, 324, 355, 597
BseLI CCNNNNNNNGG 3 cut(s) 153, 323, 418
BseMII CTCAG 2 cut(s) 122, 132
BseNI ACTGG 1 cut(s) 520
BseRI GAGGAG 4 cut(s) 52, 191, 548, 551
BseXI GCAGC 4 cut(s) 109, 175, 222, 374
BseYI CCCAGC 1 cut(s) 206
BsgI GTGCAG 1 cut(s) 120
Bsh1236I CGCG 1 cut(s) 295
Bsh1285I CGRYCG 2 cut(s) 437, 477
BshFI GGCC 3 cut(s) 400, 451, 587
BsiEI CGRYCG 2 cut(s) 437, 477
BsiHKAI GWGCWC 1 cut(s) 119
BsiHKCI CYCGRG 2 cut(s) 323, 597
BsiSI CCGG 6 cut(s) 324, 401, 412, 433, 452, 598
BslFI GGGAC 1 cut(s) 428
BslI CCNNNNNNNGG 3 cut(s) 153, 323, 418
BsmAI GTCTC 1 cut(s) 300
BsmFI GGGAC 1 cut(s) 428
BsnI GGCC 3 cut(s) 400, 451, 587
BsoBI CYCGRG 2 cut(s) 323, 597
Bsp1286I GDGCHC 2 cut(s) 119, 625
Bsp143I GATC 1 cut(s) 429
Bsp1720I GCTNAGC 1 cut(s) 118
BspANI GGCC 3 cut(s) 400, 451, 587
BspCNI CTCAG 2 cut(s) 123, 131
BspFNI CGCG 1 cut(s) 295
BspLI GGNNCC 1 cut(s) 595
BspPI GGATC 1 cut(s) 424
BsrFI RCCGGY 1 cut(s) 451
BsrI ACTGG 1 cut(s) 520
BssAI RCCGGY 1 cut(s) 451
BssECI CCNNGG 4 cut(s) 323, 324, 355, 597
BssMI GATC 1 cut(s) 429
BssNI GRCGYC 1 cut(s) 230
BssSI CACGAG 1 cut(s) 112
Bst2BI CACGAG 1 cut(s) 112
Bst2UI CCWGG 1 cut(s) 425
Bst4CI ACNGT 2 cut(s) 98, 475
BstACI GRCGYC 1 cut(s) 230
BstC8I GCNNGC 5 cut(s) 161, 240, 279, 291, 621
BstDEI CTNAG 3 cut(s) 118, 131, 489
BstDSI CCRYGG 1 cut(s) 355
BstFNI CGCG 1 cut(s) 295
BstHHI GCGC 2 cut(s) 159, 295
BstKTI GATC 1 cut(s) 432
BstMAI GTCTC 1 cut(s) 300
BstMBI GATC 1 cut(s) 429
BstMCI CGRYCG 2 cut(s) 437, 477
BstMWI GCNNNNNNNGC 3 cut(s) 160, 163, 566
BstNI CCWGG 1 cut(s) 425
BstSCI CCNGG 7 cut(s) 322, 323, 400, 411, 423, 596, 597
BstUI CGCG 1 cut(s) 295
BstV1I GCAGC 4 cut(s) 109, 175, 222, 374
BsuI GTATCC 1 cut(s) 41
BsuRI GGCC 3 cut(s) 400, 451, 587
BtgI CCRYGG 1 cut(s) 355
Cac8I GCNNGC 5 cut(s) 161, 240, 279, 291, 621
CfoI GCGC 2 cut(s) 159, 295
Cfr10I RCCGGY 1 cut(s) 451
Cfr13I GGNCC 2 cut(s) 421, 585
Cfr9I CCCGGG 2 cut(s) 323, 597
CseI GACGC 2 cut(s) 219, 388
CviAII CATG 2 cut(s) 88, 259
DdeI CTNAG 3 cut(s) 118, 131, 489
DpnI GATC 1 cut(s) 431
DpnII GATC 1 cut(s) 429
DriI GACNNNNNGTC 1 cut(s) 229
Eam1105I GACNNNNNGTC 1 cut(s) 229
EciI GGCGGA 2 cut(s) 257, 476
Ecl136II GAGCTC 1 cut(s) 117
Eco24I GRGCYC 2 cut(s) 119, 625
Eco47I GGWCC 1 cut(s) 421
Eco53kI GAGCTC 1 cut(s) 117
Eco88I CYCGRG 2 cut(s) 323, 597
EcoICRI GAGCTC 1 cut(s) 117
EcoRII CCWGG 1 cut(s) 423
EcoT38I GRGCYC 2 cut(s) 119, 625
FaeI CATG 2 cut(s) 91, 262
FaiI YATR 2 cut(s) 89, 260
FaqI GGGAC 1 cut(s) 428
FatI CATG 2 cut(s) 87, 258
FauI CCCGC 3 cut(s) 270, 521, 612
Fnu4HI GCNGC 8 cut(s) 123, 155, 164, 236, 275, 388, 523, 526
FriOI GRGCYC 2 cut(s) 119, 625
Fsp4HI GCNGC 8 cut(s) 123, 155, 164, 236, 275, 388, 523, 526
GlaI GCGC 2 cut(s) 158, 294
GluI GCNGC 8 cut(s) 123, 155, 164, 236, 275, 388, 523, 526
GsaI CCCAGC 1 cut(s) 210
HaeIII GGCC 3 cut(s) 400, 451, 587
HapII CCGG 6 cut(s) 324, 401, 412, 433, 452, 598
HgaI GACGC 2 cut(s) 219, 388
HhaI GCGC 2 cut(s) 159, 295
Hin1I GRCGYC 1 cut(s) 230
Hin1II CATG 2 cut(s) 91, 262
Hin6I GCGC 2 cut(s) 157, 293
HinP1I GCGC 2 cut(s) 157, 293
HincII GTYRAC 1 cut(s) 85
HindII GTYRAC 1 cut(s) 85
HinfI GANTC 2 cut(s) 308, 580
HpaII CCGG 6 cut(s) 324, 401, 412, 433, 452, 598
HphI GGTGA 3 cut(s) 481, 514, 553
Hpy166II GTNNAC 1 cut(s) 85
Hpy188I TCNGA 1 cut(s) 408
Hpy188III TCNNGA 1 cut(s) 112
Hpy8I GTNNAC 1 cut(s) 85
Hpy99I CGWCG 4 cut(s) 79, 235, 316, 382
HpyAV CCTTC 8 cut(s) 85, 256, 356, 367, 477, 538, 547, 598
HpyCH4III ACNGT 2 cut(s) 98, 475
HpyCH4V TGCA 2 cut(s) 101, 253
HpyF10VI GCNNNNNNNGC 3 cut(s) 160, 163, 566
HpyF3I CTNAG 3 cut(s) 118, 131, 489
Hsp92I GRCGYC 1 cut(s) 230
Hsp92II CATG 2 cut(s) 91, 262
HspAI GCGC 2 cut(s) 157, 293
Kzo9I GATC 1 cut(s) 429
LmnI GCTCC 1 cut(s) 28
Lsp1109I GCAGC 4 cut(s) 109, 175, 222, 374
MaeIII GTNAC 3 cut(s) 109, 350, 469
MalI GATC 1 cut(s) 431
MboI GATC 1 cut(s) 429
MhlI GDGCHC 2 cut(s) 119, 625
MlyI GAGTC 1 cut(s) 302
MmeI TCCRAC 2 cut(s) 6, 312
MseI TTAA 1 cut(s) 456
MspA1I CMGCKG 1 cut(s) 122
MspI CCGG 6 cut(s) 324, 401, 412, 433, 452, 598
MspR9I CCNGG 7 cut(s) 324, 325, 402, 413, 425, 598, 599
MvaI CCWGG 1 cut(s) 425
MvnI CGCG 1 cut(s) 295
MwoI GCNNNNNNNGC 3 cut(s) 160, 163, 566
NciI CCSGG 6 cut(s) 324, 325, 402, 413, 598, 599
NdeII GATC 1 cut(s) 429
NlaIII CATG 2 cut(s) 91, 262
NlaIV GGNNCC 1 cut(s) 595
NmeAIII GCCGAG 1 cut(s) 172
NmuCI GTSAC 2 cut(s) 109, 469
PcsI WCGNNNNNNNCGW 1 cut(s) 227
PfeI GAWTC 1 cut(s) 580
PflFI GACNNNGTC 1 cut(s) 419
PkrI GCNGC 8 cut(s) 124, 156, 165, 237, 276, 389, 524, 527
PleI GAGTC 1 cut(s) 302
PpsI GAGTC 1 cut(s) 302
Psp124BI GAGCTC 1 cut(s) 119
Psp6I CCWGG 1 cut(s) 423
PspFI CCCAGC 1 cut(s) 206
PspGI CCWGG 1 cut(s) 423
PspN4I GGNNCC 1 cut(s) 595
PspPI GGNCC 2 cut(s) 421, 585
PsyI GACNNNGTC 1 cut(s) 419
PvuII CAGCTG 1 cut(s) 122
SacI GAGCTC 1 cut(s) 119
SaqAI TTAA 1 cut(s) 456
SatI GCNGC 8 cut(s) 123, 155, 164, 236, 275, 388, 523, 526
Sau3AI GATC 1 cut(s) 429
Sau96I GGNCC 2 cut(s) 421, 585
SchI GAGTC 1 cut(s) 302
ScrFI CCNGG 7 cut(s) 324, 325, 402, 413, 425, 598, 599
SduI GDGCHC 2 cut(s) 119, 625
SetI ASST 7 cut(s) 119, 124, 183, 249, 291, 543, 558
SinI GGWCC 1 cut(s) 421
SmaI CCCGGG 2 cut(s) 325, 599
SstI GAGCTC 1 cut(s) 119
StyD4I CCNGG 7 cut(s) 322, 323, 400, 411, 423, 596, 597
TaaI ACNGT 2 cut(s) 98, 475
TaqII GACCGA 1 cut(s) 593
TauI GCSGC 4 cut(s) 157, 277, 525, 528
TfiI GAWTC 1 cut(s) 580
Tru1I TTAA 1 cut(s) 456
Tru9I TTAA 1 cut(s) 456
TseFI GTSAC 2 cut(s) 109, 469
TseI GCWGC 4 cut(s) 122, 163, 235, 387
Tsp45I GTSAC 2 cut(s) 109, 469
TspDTI ATGAA 3 cut(s) 104, 275, 521
TspGWI ACGGA 2 cut(s) 182, 236
TspMI CCCGGG 2 cut(s) 323, 597
Tth111I GACNNNGTC 1 cut(s) 419
VpaK11BI GGWCC 1 cut(s) 421
XmaI CCCGGG 2 cut(s) 323, 597
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.