Rroxscaffold_2G00123120

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0002989
Physical Location & Seq
Reverse (-)
56821779 .. 56822546
768 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00123120.1

Sequence Viewer

Length: 768 bp
ATGACTAGTCTTACCGATGAAAAAGATATCAAGGCCGCTTTTAGTCTTTGTTTTATGAAGCATGTGGTGCTTGATTCTGAAAAAGAGATACAGAAATTGGAGGACACGAAGCGCAAGTCTGTTGGACATATTAGGGTATACCCGAATCCCGAAACCAAACCAAGGGCACTGCAAATCGAAAAACAAGAGGAAGACACTGTCAATGTTGCACAAGGCTTGTCCAGAAAGCAGCAACTACAACAAGGTCCTAAGCAGAAAGCGGTGCACACTGAAGAACAAGAAGCTATGAATGTAGCAAAACCACAGCAAGGTTTGTTCTATGGAGACTATACCCCTCCTAATCTCCCACCAGTCCCAAGCCTACACAAATTGATCGAAATTTGCAGCGAGCCTTTTGAGAAGCAATTGACATGTAGTGATGTGAGGGATGACCAGTCAAGGCTAGCTATGAGCAAAGAAGATGTGCAAAAGCATCTAATGCCATTGTTGAATGAGAGTGAAGATCTTAACGAAGGAATTGACGTGACGACTTATGATTTGGCTGGTAAGGAGTACCCCATGAAGTTCAAAACTTGGGTGTCCAAGATTCATGTCTTAACTGGAGGATGGAAAGCTTTCTGCCGTGATCATCAATTGGTTCAGACACAACATTTTGTCACAGTGTGGATGTTTCGGAATATTGCAACCGGCAATCTTTGCTTCGTAATCGAGGTGAGAAGGTTGCCGGTGTTTGAAACCATCAAGAGAAGAAGAATAAGGCAGAGTTGA
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
B3

Protein Analysis

255

Amino Acids

29.49

Weight (kDa)

8.2

Isoelectric Point (pI)

65.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 132 - 219 1.8e-08 B3 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) 138
AciI CCGC 2 cut(s) 36, 260
AcsI RAATTY 1 cut(s) 378
AcuI CTGAAG 1 cut(s) 291
AdeI CACNNNGTG 1 cut(s) 663
AfaI GTAC 1 cut(s) 554
AfiI CCNNNNNNNGG 2 cut(s) 162, 308
AflIII ACRYGT 1 cut(s) 410
AgsI TTSAA 3 cut(s) 490, 568, 734
AhlI ACTAGT 1 cut(s) 5
AjiI CACGTC 1 cut(s) 523
AluBI AGCT 3 cut(s) 284, 446, 614
AluI AGCT 3 cut(s) 284, 446, 614
Alw21I GWGCWC 1 cut(s) 267
Alw26I GTCTC 1 cut(s) 318
Alw44I GTGCAC 1 cut(s) 263
AoxI GGCC 1 cut(s) 33
ApaLI GTGCAC 1 cut(s) 263
ApeKI GCWGC 2 cut(s) 229, 384
ApoI RAATTY 1 cut(s) 378
ArsI GACNNNNNNTTYG 4 cut(s) 101, 133, 520, 552
Asp700I GAANNNNTTC 1 cut(s) 614
AspLEI GCGC 1 cut(s) 114
AspS9I GGNCC 1 cut(s) 245
AsuHPI GGTGA 1 cut(s) 724
AsuNHI GCTAGC 1 cut(s) 442
AvaII GGWCC 1 cut(s) 245
BaeGI GKGCMC 2 cut(s) 169, 267
BbsI GAAGAC 1 cut(s) 198
Bbv12I GWGCWC 1 cut(s) 267
BbvI GCAGC 2 cut(s) 241, 396
BccI CCATC 2 cut(s) 600, 746
BceAI ACGGC 1 cut(s) 606
BclI TGATCA 1 cut(s) 625
BcoDI GTCTC 1 cut(s) 318
BcuI ACTAGT 1 cut(s) 5
BfaI CTAG 2 cut(s) 6, 443
BglII AGATCT 1 cut(s) 502
BisI GCNGC 3 cut(s) 36, 230, 385
BlsI GCNGC 3 cut(s) 37, 231, 386
Bme18I GGWCC 1 cut(s) 245
BmgBI CACGTC 1 cut(s) 523
BmgT120I GGNCC 1 cut(s) 245
BmsI GCATC 1 cut(s) 481
BmtI GCTAGC 1 cut(s) 446
BpiI GAAGAC 1 cut(s) 198
BpmI CTGGAG 1 cut(s) 621
Bpu10I CCTNAGC 1 cut(s) 249
BsaJI CCNNGG 1 cut(s) 161
Bsc4I CCNNNNNNNGG 2 cut(s) 162, 308
Bse118I RCCGGY 2 cut(s) 686, 724
Bse1I ACTGG 3 cut(s) 350, 433, 604
BseDI CCNNGG 1 cut(s) 161
BseGI GGATG 3 cut(s) 433, 611, 672
BseLI CCNNNNNNNGG 2 cut(s) 162, 308
BseNI ACTGG 3 cut(s) 350, 433, 604
BseSI GKGCMC 2 cut(s) 169, 267
BseXI GCAGC 2 cut(s) 241, 396
BshFI GGCC 1 cut(s) 35
BsiHKAI GWGCWC 1 cut(s) 267
BsiSI CCGG 2 cut(s) 687, 725
BslFI GGGAC 1 cut(s) 338
BslI CCNNNNNNNGG 2 cut(s) 162, 308
BsmAI GTCTC 1 cut(s) 318
BsmFI GGGAC 1 cut(s) 338
BsnI GGCC 1 cut(s) 35
Bsp1286I GDGCHC 2 cut(s) 169, 267
Bsp143I GATC 3 cut(s) 372, 502, 625
BspACI CCGC 2 cut(s) 36, 260
BspANI GGCC 1 cut(s) 35
BspOI GCTAGC 1 cut(s) 446
BsrFI RCCGGY 2 cut(s) 686, 724
BsrI ACTGG 3 cut(s) 350, 433, 604
BssAI RCCGGY 2 cut(s) 686, 724
BssECI CCNNGG 1 cut(s) 161
BssMI GATC 3 cut(s) 372, 502, 625
BssNAI GTATAC 1 cut(s) 139
BssT1I CCWWGG 1 cut(s) 161
Bst1107I GTATAC 1 cut(s) 139
Bst4CI ACNGT 2 cut(s) 199, 661
BstAPI GCANNNNNTGC 3 cut(s) 67, 478, 696
BstC8I GCNNGC 2 cut(s) 389, 444
BstDEI CTNAG 1 cut(s) 249
BstF5I GGATG 3 cut(s) 433, 611, 672
BstHHI GCGC 1 cut(s) 114
BstKTI GATC 3 cut(s) 375, 505, 628
BstMAI GTCTC 1 cut(s) 318
BstMBI GATC 3 cut(s) 372, 502, 625
BstMWI GCNNNNNNNGC 3 cut(s) 67, 478, 696
BstNSI RCATGY 2 cut(s) 65, 414
BstSLI GKGCMC 2 cut(s) 169, 267
BstV1I GCAGC 2 cut(s) 241, 396
BstV2I GAAGAC 1 cut(s) 198
BstX2I RGATCY 1 cut(s) 502
BstYI RGATCY 1 cut(s) 502
BstZ17I GTATAC 1 cut(s) 139
BsuRI GGCC 1 cut(s) 35
BtrI CACGTC 1 cut(s) 523
BtsCI GGATG 3 cut(s) 433, 611, 672
BtsI GCAGTG 1 cut(s) 167
BtsIMutI CAGTG 4 cut(s) 167, 195, 267, 666
Cac8I GCNNGC 2 cut(s) 389, 444
CfoI GCGC 1 cut(s) 114
Cfr10I RCCGGY 2 cut(s) 686, 724
Cfr13I GGNCC 1 cut(s) 245
Csp6I GTAC 1 cut(s) 553
CviAII CATG 4 cut(s) 62, 411, 559, 590
CviJI RGCY 9 cut(s) 35, 216, 284, 360, 391, 442, 446, 542, 614
CviKI_1 RGCY 9 cut(s) 35, 216, 284, 360, 391, 442, 446, 542, 614
CviQI GTAC 1 cut(s) 553
DdeI CTNAG 1 cut(s) 249
DpnI GATC 3 cut(s) 374, 504, 627
DpnII GATC 3 cut(s) 372, 502, 625
DraIII CACNNNGTG 1 cut(s) 663
Eco130I CCWWGG 1 cut(s) 161
Eco32I GATATC 1 cut(s) 28
Eco47I GGWCC 1 cut(s) 245
Eco57I CTGAAG 1 cut(s) 291
EcoO109I RGGNCCY 1 cut(s) 245
EcoRV GATATC 1 cut(s) 28
EcoT14I CCWWGG 1 cut(s) 161
ErhI CCWWGG 1 cut(s) 161
FaeI CATG 4 cut(s) 65, 414, 562, 593
FaqI GGGAC 1 cut(s) 338
FatI CATG 4 cut(s) 61, 410, 558, 589
FbaI TGATCA 1 cut(s) 625
FblI GTMKAC 1 cut(s) 138
Fnu4HI GCNGC 3 cut(s) 36, 230, 385
FokI GGATG 3 cut(s) 440, 618, 679
Fsp4HI GCNGC 3 cut(s) 36, 230, 385
FspBI CTAG 2 cut(s) 6, 443
GlaI GCGC 1 cut(s) 113
GluI GCNGC 3 cut(s) 36, 230, 385
GsuI CTGGAG 1 cut(s) 621
HaeIII GGCC 1 cut(s) 35
HapII CCGG 2 cut(s) 687, 725
HhaI GCGC 1 cut(s) 114
Hin1II CATG 4 cut(s) 65, 414, 562, 593
Hin6I GCGC 1 cut(s) 112
HinP1I GCGC 1 cut(s) 112
HindIII AAGCTT 1 cut(s) 612
HinfI GANTC 3 cut(s) 74, 145, 586
HpaII CCGG 2 cut(s) 687, 725
HphI GGTGA 1 cut(s) 724
Hpy166II GTNNAC 2 cut(s) 139, 265
Hpy188I TCNGA 3 cut(s) 79, 642, 675
Hpy188III TCNNGA 3 cut(s) 149, 222, 742
Hpy8I GTNNAC 2 cut(s) 139, 265
HpyAV CCTTC 2 cut(s) 506, 711
HpyCH4III ACNGT 2 cut(s) 199, 661
HpyCH4IV ACGT 1 cut(s) 522
HpyCH4V TGCA 6 cut(s) 172, 209, 265, 384, 466, 683
HpyF10VI GCNNNNNNNGC 3 cut(s) 67, 478, 696
HpyF3I CTNAG 1 cut(s) 249
HpySE526I ACGT 1 cut(s) 522
Hsp92II CATG 4 cut(s) 65, 414, 562, 593
HspAI GCGC 1 cut(s) 112
Ksp22I TGATCA 1 cut(s) 625
Kzo9I GATC 3 cut(s) 372, 502, 625
LpnPI CCDG 7 cut(s) 235, 363, 446, 528, 585, 700, 738
Lsp1109I GCAGC 2 cut(s) 241, 396
LweI GCATC 1 cut(s) 481
MaeI CTAG 2 cut(s) 6, 443
MaeII ACGT 1 cut(s) 522
MaeIII GTNAC 2 cut(s) 523, 655
MalI GATC 3 cut(s) 374, 504, 627
MboI GATC 3 cut(s) 372, 502, 625
MboII GAAGA 6 cut(s) 203, 284, 470, 512, 759, 762
MfeI CAATTG 2 cut(s) 404, 632
MflI RGATCY 1 cut(s) 502
MhlI GDGCHC 2 cut(s) 169, 267
MluCI AATT 6 cut(s) 95, 368, 378, 404, 516, 632
MmeI TCCRAC 1 cut(s) 103
MnlI CCTC 6 cut(s) 94, 181, 345, 417, 596, 703
MroXI GAANNNNTTC 1 cut(s) 614
MseI TTAA 2 cut(s) 507, 596
MspI CCGG 2 cut(s) 687, 725
MunI CAATTG 2 cut(s) 404, 632
MwoI GCNNNNNNNGC 3 cut(s) 67, 478, 696
NdeII GATC 3 cut(s) 372, 502, 625
NheI GCTAGC 1 cut(s) 442
NlaIII CATG 4 cut(s) 65, 414, 562, 593
NmuCI GTSAC 2 cut(s) 523, 655
NspI RCATGY 2 cut(s) 65, 414
PciI ACATGT 1 cut(s) 410
PdmI GAANNNNTTC 1 cut(s) 614
PfeI GAWTC 3 cut(s) 74, 145, 586
PflFI GACNNNGTC 1 cut(s) 197
PkrI GCNGC 3 cut(s) 37, 231, 386
PpuMI RGGWCCY 1 cut(s) 245
PscI ACATGT 1 cut(s) 410
Psp5II RGGWCCY 1 cut(s) 245
PspPI GGNCC 1 cut(s) 245
PspPPI RGGWCCY 1 cut(s) 245
PsuI RGATCY 1 cut(s) 502
PsyI GACNNNGTC 1 cut(s) 197
RsaI GTAC 1 cut(s) 554
RsaNI GTAC 1 cut(s) 553
SaqAI TTAA 2 cut(s) 507, 596
SatI GCNGC 3 cut(s) 36, 230, 385
Sau3AI GATC 3 cut(s) 372, 502, 625
Sau96I GGNCC 1 cut(s) 245
SduI GDGCHC 2 cut(s) 169, 267
SetI ASST 8 cut(s) 247, 286, 313, 448, 525, 616, 714, 722
SfaNI GCATC 1 cut(s) 481
SinI GGWCC 1 cut(s) 245
SpeI ACTAGT 1 cut(s) 5
Sse9I AATT 6 cut(s) 95, 368, 378, 404, 516, 632
SsiI CCGC 2 cut(s) 36, 260
SspI AATATT 1 cut(s) 679
SspMI CTAG 2 cut(s) 6, 443
StyI CCWWGG 1 cut(s) 161
TaaI ACNGT 2 cut(s) 199, 661
TaiI ACGT 1 cut(s) 525
TaqI TCGA 3 cut(s) 177, 375, 708
TasI AATT 6 cut(s) 95, 368, 378, 404, 516, 632
TauI GCSGC 1 cut(s) 38
TfiI GAWTC 3 cut(s) 74, 145, 586
Tru1I TTAA 2 cut(s) 507, 596
Tru9I TTAA 2 cut(s) 507, 596
TscAI CASTG 4 cut(s) 174, 202, 274, 666
TseFI GTSAC 2 cut(s) 523, 655
TseI GCWGC 2 cut(s) 229, 384
Tsp45I GTSAC 2 cut(s) 523, 655
TspDTI ATGAA 5 cut(s) 33, 71, 302, 575, 578
TspRI CASTG 4 cut(s) 174, 202, 274, 666
Tth111I GACNNNGTC 1 cut(s) 197
VneI GTGCAC 1 cut(s) 263
VpaK11BI GGWCC 1 cut(s) 245
XapI RAATTY 1 cut(s) 378
XceI RCATGY 2 cut(s) 65, 414
XmiI GTMKAC 1 cut(s) 138
XmnI GAANNNNTTC 1 cut(s) 614
XspI CTAG 2 cut(s) 6, 443
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.