RchiOBHm_Chr6g0258081

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000561
Physical Location & Seq
Reverse (-)
13498882 .. 13501453
2572 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ23142

Sequence Viewer

Length: 954 bp
ATGGTCAAAGTTATGTTGCCATCACATGTCTCAGGAGGATTCTGGCTTACTAGTGCTTGTTCAGAAAAGGAAAAACCAGTGCTCAACATGAATGTGGAGGACCAATGCTTCGAGCATTTCTCAGACCAAGACGAAGAAGACGACGATTTTACCATTTCGCAAATTTCTTCTCTCCGTAGACCACAATTTCACCCTTCATTCTCTCCATCGGTCTCTCTCGTTTTTGTTCATGAATGGCAGGTAGAGCAGAGGAAGCTTTTGGAGACCCAGAAAAAGGGGTTCAAGACCCGGACAAGTCCTTTCAGTCCAACCCATGACACCCACCGAAAAGTTTCTGGTGACCATCAGAAGCCTCAAGGCTGTAAACGGAAGAGAACCATGTTCGCGAATGTTGACAATCCTGAAGATTCTTCAGTCAAAAGCCAAGTTGAAGAGATCAAAGCAAAAATAGGAGTGGAAGCCCCCATCTTTGTGAAGGCTATGCAGCCATCAAATGTTGCCAGTGGCTTTTTGTTGGCATTGCCTAAGCAATTCTGCCATTCGCATTTGCCATCCCATGATGCAACAATAATTTTACAAGATGAAAGCGGGGAAAAATACAGAACAAAGTTTATTGTGCAAAAGGACAAGAGCATACTGAGTAGTGGATGGAGAAGGTTTTGCTTTGCTAACAAGTTAGTTGTTGGTGATGTTTTAGTATTCCACTTGGTCAGGCCTTTAAAGTTCAAGGTGTACATAATGGGAACACATAGTTTAGCTGAAGTGGAAGCGGCTTTCAGCCTCTTGAAGTTCGGTTCCTGCACCAAACAAACAGCTTTTGAGGAAATACGTCCAATGCCTCTTCCAAAAGATGTCTGTCAAGTTCATATTGATGAGAAGACAAGTTTGACATTAGATTCTAATGCTGCACTGATAGATGAGGAGTACAATGAAGAATTTGGCTCAACATTTTAG
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

317

Amino Acids

35.97

Weight (kDa)

6.5

Isoelectric Point (pI)

49.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 157 - 246 1.4e-19 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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Orthologous Genes (Group: OG0000561)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330
malus_domestica MD05G1077500.v1.1 MD10G1092700.v1.1
prunus_persica Prupe.8G122500_v2.0.a1 Prupe.8G122500_v2.0.a1 Prupe.8G122500_v2.0.a1
pyrus_communis pycom10g07620
rosa_chinensis RchiOBHm_Chr2g0147541 RchiOBHm_Chr2g0168211 RchiOBHm_Chr6g0256791 RchiOBHm_Chr6g0258071 RchiOBHm_Chr6g0258081 RchiOBHm_Chr6g0258121 RchiOBHm_Chr6g0258181 RchiOBHm_Chr6g0258201 RchiOBHm_Chr6g0258211
rosa_laevigata RLG00000014639 RLG00000014642 RLG00000014647
rosa_multiflora Rmu_sc0006058.1_g000005 Rmu_sc0007933.1_g000012
rosa_roxburghii Rroxscaffold_7G00205330 Rroxscaffold_7G00205340 Rroxscaffold_7G00208080 Rroxscaffold_7G00208100 Rroxscaffold_7G00208160
rosa_rugosa Rorug05G0578100 Rorug05G0578200 Rorug05G0578300 Rorug05G0578400 Rorug05G0578400 Rorug05G0578500 Rorug05G0578600 Rorug05G0578700 Rorug05G0578800 Rorug05G0578900 Rorug05G0579000 Rorug05G0579300 Rorug05G0579300 Rorug05G0579400
rosa_samantha Rh2BG613900 Rh4BG034900 Rh6AG096700 Rh6AG097000 Rh6AG097100 Rh6AG097300 Rh6BG087600 Rh6BG088200 Rh6BG088300 Rh6CG083700 Rh6CG083900 Rh6CG084000 Rh6CG084200 Rh6DG079500 Rh6DG080000 Rh6DG080200 Rh6DG080400 Rh6DG164000 Rh7BG391100 Rh7CG434700 Rh7CG467700
rosa_wichuraiana Rw0G021370 Rw0G021380 Rw6G008220 Rw6G008240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 229
AccI GTMKAC 1 cut(s) 178
AccII CGCG 1 cut(s) 386
AciI CCGC 2 cut(s) 588, 770
AcsI RAATTY 2 cut(s) 162, 935
AcuI CTGAAG 3 cut(s) 396, 423, 780
AfaI GTAC 2 cut(s) 734, 926
AfiI CCNNNNNNNGG 1 cut(s) 274
AflIII ACRYGT 1 cut(s) 25
AgsI TTSAA 4 cut(s) 283, 431, 727, 787
AhlI ACTAGT 1 cut(s) 50
AluBI AGCT 3 cut(s) 256, 758, 815
AluI AGCT 3 cut(s) 256, 758, 815
Alw21I GWGCWC 1 cut(s) 84
Alw26I GTCTC 3 cut(s) 34, 217, 257
AoxI GGCC 1 cut(s) 713
ApeKI GCWGC 2 cut(s) 484, 905
ApoI RAATTY 2 cut(s) 162, 935
ArsI GACNNNNNNTTYG 2 cut(s) 92, 124
Asp700I GAANNNNTTC 1 cut(s) 331
AspS9I GGNCC 1 cut(s) 100
AsuC2I CCSGG 1 cut(s) 289
AsuHPI GGTGA 3 cut(s) 182, 350, 698
AvaII GGWCC 1 cut(s) 100
BbsI GAAGAC 2 cut(s) 144, 884
Bbv12I GWGCWC 1 cut(s) 84
BbvI GCAGC 2 cut(s) 496, 892
BccI CCATC 7 cut(s) 28, 214, 351, 473, 496, 559, 642
BcnI CCSGG 1 cut(s) 289
BcoDI GTCTC 3 cut(s) 34, 217, 257
BcuI ACTAGT 1 cut(s) 50
BfaI CTAG 1 cut(s) 51
BfuAI ACCTGC 1 cut(s) 229
BisI GCNGC 3 cut(s) 485, 771, 906
BlsI GCNGC 3 cut(s) 486, 772, 907
Bme1390I CCNGG 1 cut(s) 289
Bme18I GGWCC 1 cut(s) 100
BmgT120I GGNCC 1 cut(s) 100
BmiI GGNNCC 1 cut(s) 796
BmrFI CCNGG 1 cut(s) 289
BmsI GCATC 1 cut(s) 550
BpiI GAAGAC 2 cut(s) 144, 884
BplI GAGNNNNNCTC 2 cut(s) 104, 136
Bpu10I CCTNAGC 1 cut(s) 525
BpuEI CTTGAG 1 cut(s) 339
BpuMI CCSGG 1 cut(s) 289
BsaI GGTCTC 2 cut(s) 217, 257
Bsc4I CCNNNNNNNGG 1 cut(s) 274
Bse1I ACTGG 2 cut(s) 77, 501
Bse3DI GCAATG 1 cut(s) 518
BseGI GGATG 2 cut(s) 551, 653
BseLI CCNNNNNNNGG 1 cut(s) 274
BseMI GCAATG 1 cut(s) 518
BseMII CTCAG 3 cut(s) 45, 135, 629
BseNI ACTGG 2 cut(s) 77, 501
BseRI GAGGAG 1 cut(s) 935
BseXI GCAGC 2 cut(s) 496, 892
BsgI GTGCAG 2 cut(s) 784, 891
Bsh1236I CGCG 1 cut(s) 386
BshFI GGCC 1 cut(s) 715
BsiHKAI GWGCWC 1 cut(s) 84
BsiSI CCGG 1 cut(s) 289
BslI CCNNNNNNNGG 1 cut(s) 274
BsmAI GTCTC 3 cut(s) 34, 217, 257
BsnI GGCC 1 cut(s) 715
Bso31I GGTCTC 2 cut(s) 217, 257
Bsp1286I GDGCHC 1 cut(s) 84
Bsp1407I TGTACA 1 cut(s) 732
Bsp143I GATC 1 cut(s) 435
Bsp68I TCGCGA 1 cut(s) 386
BspACI CCGC 2 cut(s) 588, 770
BspANI GGCC 1 cut(s) 715
BspCNI CTCAG 3 cut(s) 44, 134, 630
BspFNI CGCG 1 cut(s) 386
BspHI TCATGA 1 cut(s) 229
BspLI GGNNCC 1 cut(s) 796
BspMI ACCTGC 1 cut(s) 229
BspTNI GGTCTC 2 cut(s) 217, 257
BsrDI GCAATG 1 cut(s) 518
BsrGI TGTACA 1 cut(s) 732
BsrI ACTGG 2 cut(s) 77, 501
BssMI GATC 1 cut(s) 435
Bst6I CTCTTC 3 cut(s) 365, 426, 846
BstAUI TGTACA 1 cut(s) 732
BstDEI CTNAG 4 cut(s) 31, 121, 525, 638
BstEII GGTNACC 1 cut(s) 338
BstF5I GGATG 2 cut(s) 551, 653
BstFNI CGCG 1 cut(s) 386
BstKTI GATC 1 cut(s) 438
BstMAI GTCTC 3 cut(s) 34, 217, 257
BstMBI GATC 1 cut(s) 435
BstMWI GCNNNNNNNGC 2 cut(s) 244, 253
BstNSI RCATGY 1 cut(s) 29
BstPI GGTNACC 1 cut(s) 338
BstSCI CCNGG 1 cut(s) 287
BstUI CGCG 1 cut(s) 386
BstV1I GCAGC 2 cut(s) 496, 892
BstV2I GAAGAC 2 cut(s) 144, 884
BsuRI GGCC 1 cut(s) 715
BtsCI GGATG 2 cut(s) 551, 653
BtsIMutI CAGTG 3 cut(s) 84, 508, 908
BtuMI TCGCGA 1 cut(s) 386
BveI ACCTGC 1 cut(s) 229
CciI TCATGA 1 cut(s) 229
Cfr13I GGNCC 1 cut(s) 100
Csp6I GTAC 2 cut(s) 733, 925
CviAII CATG 6 cut(s) 26, 88, 230, 314, 379, 557
CviQI GTAC 2 cut(s) 733, 925
DdeI CTNAG 4 cut(s) 31, 121, 525, 638
DpnI GATC 1 cut(s) 437
DpnII GATC 1 cut(s) 435
DraI TTTAAA 1 cut(s) 720
Eam1104I CTCTTC 3 cut(s) 365, 426, 846
EarI CTCTTC 3 cut(s) 365, 426, 846
Eco147I AGGCCT 1 cut(s) 715
Eco31I GGTCTC 2 cut(s) 217, 257
Eco47I GGWCC 1 cut(s) 100
Eco57I CTGAAG 3 cut(s) 396, 423, 780
Eco91I GGTNACC 1 cut(s) 338
EcoO65I GGTNACC 1 cut(s) 338
FaeI CATG 6 cut(s) 29, 91, 233, 317, 382, 560
FatI CATG 6 cut(s) 25, 87, 229, 313, 378, 556
FauI CCCGC 1 cut(s) 581
FblI GTMKAC 1 cut(s) 178
Fnu4HI GCNGC 3 cut(s) 485, 771, 906
FokI GGATG 2 cut(s) 538, 660
Fsp4HI GCNGC 3 cut(s) 485, 771, 906
FspBI CTAG 1 cut(s) 51
GluI GCNGC 3 cut(s) 485, 771, 906
HaeIII GGCC 1 cut(s) 715
HapII CCGG 1 cut(s) 289
Hin1II CATG 6 cut(s) 29, 91, 233, 317, 382, 560
HincII GTYRAC 1 cut(s) 394
HindII GTYRAC 1 cut(s) 394
HindIII AAGCTT 1 cut(s) 254
HinfI GANTC 3 cut(s) 39, 407, 896
HpaII CCGG 1 cut(s) 289
HphI GGTGA 3 cut(s) 182, 350, 698
Hpy166II GTNNAC 4 cut(s) 179, 365, 394, 733
Hpy188I TCNGA 3 cut(s) 64, 124, 348
Hpy188III TCNNGA 6 cut(s) 33, 230, 283, 385, 401, 784
Hpy8I GTNNAC 4 cut(s) 179, 365, 394, 733
Hpy99I CGWCG 1 cut(s) 146
HpyAV CCTTC 3 cut(s) 204, 469, 648
HpyCH4IV ACGT 1 cut(s) 829
HpyCH4V TGCA 5 cut(s) 484, 563, 619, 801, 908
HpyF10VI GCNNNNNNNGC 2 cut(s) 244, 253
HpyF3I CTNAG 4 cut(s) 31, 121, 525, 638
HpySE526I ACGT 1 cut(s) 829
Hsp92II CATG 6 cut(s) 29, 91, 233, 317, 382, 560
Kzo9I GATC 1 cut(s) 435
Lsp1109I GCAGC 2 cut(s) 496, 892
LweI GCATC 1 cut(s) 550
MaeI CTAG 1 cut(s) 51
MaeII ACGT 1 cut(s) 829
MaeIII GTNAC 1 cut(s) 338
MalI GATC 1 cut(s) 437
MboI GATC 1 cut(s) 435
MhlI GDGCHC 1 cut(s) 84
MluCI AATT 5 cut(s) 162, 185, 530, 570, 935
MmeI TCCRAC 1 cut(s) 332
MnlI CCTC 8 cut(s) 29, 91, 243, 363, 791, 814, 849, 913
MroXI GAANNNNTTC 1 cut(s) 331
MseI TTAA 1 cut(s) 719
MslI CAYNNNNRTG 3 cut(s) 92, 470, 870
MspI CCGG 1 cut(s) 289
MspR9I CCNGG 1 cut(s) 289
MvnI CGCG 1 cut(s) 386
MwoI GCNNNNNNNGC 2 cut(s) 244, 253
NciI CCSGG 1 cut(s) 289
NdeII GATC 1 cut(s) 435
NlaIII CATG 6 cut(s) 29, 91, 233, 317, 382, 560
NlaIV GGNNCC 1 cut(s) 796
NmuCI GTSAC 1 cut(s) 338
NruI TCGCGA 1 cut(s) 386
NspI RCATGY 1 cut(s) 29
PagI TCATGA 1 cut(s) 229
PceI AGGCCT 1 cut(s) 715
PciI ACATGT 1 cut(s) 25
PcsI WCGNNNNNNNCGW 1 cut(s) 138
PdmI GAANNNNTTC 1 cut(s) 331
PfeI GAWTC 3 cut(s) 39, 407, 896
PkrI GCNGC 3 cut(s) 486, 772, 907
PscI ACATGT 1 cut(s) 25
PspEI GGTNACC 1 cut(s) 338
PspN4I GGNNCC 1 cut(s) 796
PspPI GGNCC 1 cut(s) 100
RruI TCGCGA 1 cut(s) 386
RsaI GTAC 2 cut(s) 734, 926
RsaNI GTAC 2 cut(s) 733, 925
RseI CAYNNNNRTG 3 cut(s) 92, 470, 870
SaqAI TTAA 1 cut(s) 719
SatI GCNGC 3 cut(s) 485, 771, 906
Sau3AI GATC 1 cut(s) 435
Sau96I GGNCC 1 cut(s) 100
ScrFI CCNGG 1 cut(s) 289
SduI GDGCHC 1 cut(s) 84
SetI ASST 7 cut(s) 243, 258, 659, 732, 760, 817, 832
SfaNI GCATC 1 cut(s) 550
SinI GGWCC 1 cut(s) 100
SmiMI CAYNNNNRTG 3 cut(s) 92, 470, 870
SmlI CTYRAG 1 cut(s) 354
SmoI CTYRAG 1 cut(s) 354
SpeI ACTAGT 1 cut(s) 50
Sse9I AATT 5 cut(s) 162, 185, 530, 570, 935
SseBI AGGCCT 1 cut(s) 715
SsiI CCGC 2 cut(s) 588, 770
SspMI CTAG 1 cut(s) 51
StuI AGGCCT 1 cut(s) 715
StyD4I CCNGG 1 cut(s) 287
TaiI ACGT 1 cut(s) 832
TaqI TCGA 1 cut(s) 111
TaqII GACCGA 1 cut(s) 199
TasI AATT 5 cut(s) 162, 185, 530, 570, 935
TatI WGTACW 2 cut(s) 732, 924
TauI GCSGC 1 cut(s) 773
TfiI GAWTC 3 cut(s) 39, 407, 896
Tru1I TTAA 1 cut(s) 719
Tru9I TTAA 1 cut(s) 719
TscAI CASTG 3 cut(s) 84, 508, 915
TseFI GTSAC 1 cut(s) 338
TseI GCWGC 2 cut(s) 484, 905
Tsp45I GTSAC 1 cut(s) 338
TspDTI ATGAA 7 cut(s) 104, 186, 218, 246, 597, 854, 945
TspGWI ACGGA 2 cut(s) 164, 382
TspRI CASTG 3 cut(s) 84, 508, 915
VpaK11BI GGWCC 1 cut(s) 100
XapI RAATTY 2 cut(s) 162, 935
XceI RCATGY 1 cut(s) 29
XmiI GTMKAC 1 cut(s) 178
XmnI GAANNNNTTC 1 cut(s) 331
XspI CTAG 1 cut(s) 51
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.