Rroxscaffold_4G00282410

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0006418
Physical Location & Seq
Reverse (-)
4459309 .. 4460308
1000 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00282410.1

Sequence Viewer

Length: 717 bp
ATGGAATTACAAATATCTTCAACTCCCCACCAAGAAGATTTTATGCAACAGGATCTGATCATGATGCGGGGTAGTCATGAGGTTTTGCCATCTGATCTGGAGGGACGTAGTCTATCCAATATTAATATTAGTGAAGCAAATATTAACAATATGGCTACTGATTCTGACGAAAGGAAGATCATGCGTAGGGACAACGAGCGCCAAAGAAGACAAGTTATGGCGATTCGCACTGCATCACTTCGATCCCTCCTCCCTCTAGAATTAATCAAGGGAAAACGTTCAATCTCCGAGCACATAAATGAATCAGTGAATTATATAAAGCAGCTGAAGGAAAAGATACAGGAGTTGAATGCCAAGAGGGAAGAGCTTAGAAGGGTGTATAAACATTACAGTAGTTCTGCACATGATTTCAGTCCTGAAATTAATGAAAGTTTGGGTACTAAGAGTACTTCCAATATAATGGTTGGCCCAACATGTTGGGGTGGAGTGGAGATTATGGTAAGTACTAATGGTACAAATTGCAGTGAGCTAGAAGGGTTTTCTCTTTCAGGAGTACTCAAAGCATTGCTTGCAGAGGGCCTTACCGTTTTGGAGTGTGCTTCCACTACAGCAAATCAGAGGTTGTTTCACTCTATTCAGTGTGAGGTCGACGATTTGGCATGTCTGGATTTGCCTGAGCTACAACTGAAACTAAATTTTTTATGCAATTCTGGCTAG
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

238

Amino Acids

26.76

Weight (kDa)

5.46

Isoelectric Point (pI)

59.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 58 - 110 3e-06 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)
AccI GTMKAC 1 cut(s) 648
AciI CCGC 1 cut(s) 67
AclI AACGTT 1 cut(s) 277
AclWI GGATC 2 cut(s) 60, 237
AcsI RAATTY 1 cut(s) 694
AcuI CTGAAG 1 cut(s) 347
AfaI GTAC 5 cut(s) 439, 448, 505, 514, 555
AflIII ACRYGT 1 cut(s) 473
AgsI TTSAA 3 cut(s) 21, 282, 349
AluBI AGCT 4 cut(s) 325, 367, 529, 679
AluI AGCT 4 cut(s) 325, 367, 529, 679
Alw21I GWGCWC 1 cut(s) 294
AlwI GGATC 2 cut(s) 60, 237
AlwNI CAGNNNCTG 1 cut(s) 55
AoxI GGCC 2 cut(s) 466, 577
ApeKI GCWGC 1 cut(s) 322
ApoI RAATTY 1 cut(s) 694
AseI ATTAAT 3 cut(s) 123, 263, 423
Asp700I GAANNNNTTC 1 cut(s) 277
AspLEI GCGC 1 cut(s) 201
AspS9I GGNCC 2 cut(s) 467, 577
BaeI ACNNNNGTAYC 2 cut(s) 329, 362
BbsI GAAGAC 1 cut(s) 214
Bbv12I GWGCWC 1 cut(s) 294
BbvI GCAGC 1 cut(s) 334
BccI CCATC 1 cut(s) 97
BclI TGATCA 1 cut(s) 57
BfaI CTAG 3 cut(s) 257, 530, 715
BfmI CTRYAG 1 cut(s) 606
BfoI RGCGCY 1 cut(s) 202
BisI GCNGC 1 cut(s) 323
BlsI GCNGC 1 cut(s) 324
BmcAI AGTACT 3 cut(s) 448, 505, 555
BmgT120I GGNCC 2 cut(s) 467, 577
BmsI GCATC 2 cut(s) 54, 242
BpiI GAAGAC 1 cut(s) 214
BpmI CTGGAG 1 cut(s) 119
Bpu10I CCTNAGC 1 cut(s) 675
Bse3DI GCAATG 1 cut(s) 563
BseMI GCAATG 1 cut(s) 563
BseMII CTCAG 1 cut(s) 666
BseRI GAGGAG 1 cut(s) 239
BseXI GCAGC 1 cut(s) 334
BsgI GTGCAG 1 cut(s) 384
BshFI GGCC 2 cut(s) 468, 579
BsiHKAI GWGCWC 1 cut(s) 294
BslFI GGGAC 2 cut(s) 117, 203
BsmFI GGGAC 2 cut(s) 117, 203
BsmI GAATGC 1 cut(s) 355
BsnI GGCC 2 cut(s) 468, 579
Bsp1286I GDGCHC 1 cut(s) 294
Bsp143I GATC 5 cut(s) 52, 57, 94, 177, 242
BspACI CCGC 1 cut(s) 67
BspANI GGCC 2 cut(s) 468, 579
BspCNI CTCAG 1 cut(s) 667
BspHI TCATGA 2 cut(s) 60, 76
BspPI GGATC 2 cut(s) 60, 237
BspQI GCTCTTC 1 cut(s) 357
BsrDI GCAATG 1 cut(s) 563
BssMI GATC 5 cut(s) 52, 57, 94, 177, 242
Bst4CI ACNGT 2 cut(s) 392, 586
Bst6I CTCTTC 1 cut(s) 357
BstAPI GCANNNNNTGC 1 cut(s) 569
BstC8I GCNNGC 1 cut(s) 570
BstDEI CTNAG 3 cut(s) 368, 441, 675
BstH2I RGCGCY 1 cut(s) 202
BstHHI GCGC 1 cut(s) 201
BstKTI GATC 5 cut(s) 55, 60, 97, 180, 245
BstMBI GATC 5 cut(s) 52, 57, 94, 177, 242
BstMWI GCNNNNNNNGC 2 cut(s) 569, 711
BstNSI RCATGY 2 cut(s) 477, 663
BstSFI CTRYAG 1 cut(s) 606
BstV1I GCAGC 1 cut(s) 334
BstV2I GAAGAC 1 cut(s) 214
BstX2I RGATCY 1 cut(s) 52
BstXI CCANNNNNNTGG 2 cut(s) 460, 477
BstYI RGATCY 1 cut(s) 52
BsuRI GGCC 2 cut(s) 468, 579
BtsI GCAGTG 2 cut(s) 228, 529
BtsIMutI CAGTG 4 cut(s) 228, 312, 529, 644
Cac8I GCNNGC 1 cut(s) 570
CaiI CAGNNNCTG 1 cut(s) 55
CciI TCATGA 2 cut(s) 60, 76
CfoI GCGC 1 cut(s) 201
Cfr13I GGNCC 2 cut(s) 467, 577
Csp6I GTAC 5 cut(s) 438, 447, 504, 513, 554
CviAII CATG 6 cut(s) 61, 77, 181, 404, 474, 660
CviJI RGCY 8 cut(s) 155, 325, 367, 468, 529, 579, 679, 714
CviKI_1 RGCY 8 cut(s) 155, 325, 367, 468, 529, 579, 679, 714
CviQI GTAC 5 cut(s) 438, 447, 504, 513, 554
DdeI CTNAG 3 cut(s) 368, 441, 675
DpnI GATC 5 cut(s) 54, 59, 96, 179, 244
DpnII GATC 5 cut(s) 52, 57, 94, 177, 242
Eam1104I CTCTTC 1 cut(s) 357
EarI CTCTTC 1 cut(s) 357
Eco57I CTGAAG 1 cut(s) 347
EcoO109I RGGNCCY 1 cut(s) 577
FaeI CATG 6 cut(s) 64, 80, 184, 407, 477, 663
FalI AAGNNNNNCTT 2 cut(s) 552, 584
FaqI GGGAC 2 cut(s) 117, 203
FatI CATG 6 cut(s) 60, 76, 180, 403, 473, 659
FauI CCCGC 1 cut(s) 60
FbaI TGATCA 1 cut(s) 57
FblI GTMKAC 1 cut(s) 648
Fnu4HI GCNGC 1 cut(s) 323
Fsp4HI GCNGC 1 cut(s) 323
FspBI CTAG 3 cut(s) 257, 530, 715
GlaI GCGC 1 cut(s) 200
GluI GCNGC 1 cut(s) 323
GsuI CTGGAG 1 cut(s) 119
HaeII RGCGCY 1 cut(s) 202
HaeIII GGCC 2 cut(s) 468, 579
HhaI GCGC 1 cut(s) 201
Hin1II CATG 6 cut(s) 64, 80, 184, 407, 477, 663
Hin6I GCGC 1 cut(s) 199
HinP1I GCGC 1 cut(s) 199
HincII GTYRAC 1 cut(s) 649
HindII GTYRAC 1 cut(s) 649
HinfI GANTC 3 cut(s) 161, 223, 302
Hpy166II GTNNAC 1 cut(s) 649
Hpy188I TCNGA 5 cut(s) 57, 94, 166, 289, 618
Hpy188III TCNNGA 7 cut(s) 61, 77, 98, 257, 416, 549, 665
Hpy8I GTNNAC 1 cut(s) 649
Hpy99I CGWCG 1 cut(s) 653
HpyAV CCTTC 3 cut(s) 322, 366, 527
HpyCH4III ACNGT 2 cut(s) 392, 586
HpyCH4IV ACGT 2 cut(s) 106, 277
HpyCH4V TGCA 6 cut(s) 46, 233, 401, 522, 572, 705
HpyF10VI GCNNNNNNNGC 2 cut(s) 569, 711
HpyF3I CTNAG 3 cut(s) 368, 441, 675
HpySE526I ACGT 2 cut(s) 106, 277
Hsp92II CATG 6 cut(s) 64, 80, 184, 407, 477, 663
HspAI GCGC 1 cut(s) 199
Ksp22I TGATCA 1 cut(s) 57
Kzo9I GATC 5 cut(s) 52, 57, 94, 177, 242
LguI GCTCTTC 1 cut(s) 357
LpnPI CCDG 8 cut(s) 35, 83, 326, 429, 534, 650, 687, 696
Lsp1109I GCAGC 1 cut(s) 334
LweI GCATC 2 cut(s) 54, 242
MaeI CTAG 3 cut(s) 257, 530, 715
MaeII ACGT 2 cut(s) 106, 277
MalI GATC 5 cut(s) 54, 59, 96, 179, 244
MboI GATC 5 cut(s) 52, 57, 94, 177, 242
MboII GAAGA 5 cut(s) 9, 47, 187, 219, 374
MflI RGATCY 1 cut(s) 52
MhlI GDGCHC 1 cut(s) 294
MluCI AATT 7 cut(s) 5, 260, 310, 420, 517, 694, 706
MnlI CCTC 9 cut(s) 73, 94, 257, 260, 264, 351, 568, 612, 637
MroXI GAANNNNTTC 1 cut(s) 277
MseI TTAA 4 cut(s) 123, 144, 263, 423
MslI CAYNNNNRTG 1 cut(s) 297
MspA1I CMGCKG 1 cut(s) 325
Mva1269I GAATGC 1 cut(s) 355
MwoI GCNNNNNNNGC 2 cut(s) 569, 711
NdeII GATC 5 cut(s) 52, 57, 94, 177, 242
NlaIII CATG 6 cut(s) 64, 80, 184, 407, 477, 663
NspI RCATGY 2 cut(s) 477, 663
PagI TCATGA 2 cut(s) 60, 76
PciI ACATGT 1 cut(s) 473
PciSI GCTCTTC 1 cut(s) 357
PctI GAATGC 1 cut(s) 355
PdmI GAANNNNTTC 1 cut(s) 277
PfeI GAWTC 3 cut(s) 161, 223, 302
PflFI GACNNNGTC 1 cut(s) 108
PkrI GCNGC 1 cut(s) 324
PscI ACATGT 1 cut(s) 473
PshBI ATTAAT 3 cut(s) 123, 263, 423
Psp1406I AACGTT 1 cut(s) 277
PspPI GGNCC 2 cut(s) 467, 577
PstNI CAGNNNCTG 1 cut(s) 55
PsuI RGATCY 1 cut(s) 52
PsyI GACNNNGTC 1 cut(s) 108
PvuII CAGCTG 1 cut(s) 325
RsaI GTAC 5 cut(s) 439, 448, 505, 514, 555
RsaNI GTAC 5 cut(s) 438, 447, 504, 513, 554
RseI CAYNNNNRTG 1 cut(s) 297
SalI GTCGAC 1 cut(s) 647
SapI GCTCTTC 1 cut(s) 357
SaqAI TTAA 4 cut(s) 123, 144, 263, 423
SatI GCNGC 1 cut(s) 323
Sau3AI GATC 5 cut(s) 52, 57, 94, 177, 242
Sau96I GGNCC 2 cut(s) 467, 577
ScaI AGTACT 3 cut(s) 448, 505, 555
SduI GDGCHC 1 cut(s) 294
SetI ASST 9 cut(s) 84, 109, 280, 327, 369, 531, 623, 648, 681
SfaNI GCATC 2 cut(s) 54, 242
SfcI CTRYAG 1 cut(s) 606
SmiMI CAYNNNNRTG 1 cut(s) 297
Sse9I AATT 7 cut(s) 5, 260, 310, 420, 517, 694, 706
SsiI CCGC 1 cut(s) 67
SspI AATATT 3 cut(s) 121, 127, 142
SspMI CTAG 3 cut(s) 257, 530, 715
TaaI ACNGT 2 cut(s) 392, 586
TaiI ACGT 2 cut(s) 109, 280
TaqI TCGA 2 cut(s) 241, 648
TasI AATT 7 cut(s) 5, 260, 310, 420, 517, 694, 706
TatI WGTACW 3 cut(s) 446, 503, 553
TfiI GAWTC 3 cut(s) 161, 223, 302
Tru1I TTAA 4 cut(s) 123, 144, 263, 423
Tru9I TTAA 4 cut(s) 123, 144, 263, 423
TscAI CASTG 4 cut(s) 235, 312, 529, 644
TseI GCWGC 1 cut(s) 322
TspDTI ATGAA 2 cut(s) 315, 441
TspRI CASTG 4 cut(s) 235, 312, 529, 644
Tth111I GACNNNGTC 1 cut(s) 108
VspI ATTAAT 3 cut(s) 123, 263, 423
XapI RAATTY 1 cut(s) 694
XbaI TCTAGA 1 cut(s) 256
XceI RCATGY 2 cut(s) 477, 663
XmiI GTMKAC 1 cut(s) 648
XmnI GAANNNNTTC 1 cut(s) 277
XspI CTAG 3 cut(s) 257, 530, 715
ZrmI AGTACT 3 cut(s) 448, 505, 555
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.