RLG00000014642

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000561
Physical Location & Seq
Forward (+)
55691901 .. 55693783
1883 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000014642

Sequence Viewer

Length: 1005 bp
ATGTTCGAGAATGTTGACAATCCTGAAGTTTCTTCGGTCAAAAGCCAAGTTGAAGAGATCAAAGCAAAAATAGGAGTGGAATGCCCCATCTTTGTGAAGGCTATGCAGCCATCAAATGTTGCCAGTGGCTTTTTGTTGGCATTGCCTAAGCAATTCTGCCATTCGCATTTGCCATCCCATGATGCAACAATAATTTTAGAAGATGAAAGCGGGGAGAAATACAGAACAAAGTTTATTGTGCAGAAGGACAAGAGCATACTGAGTAGTGGATGGAGAAGATTTTGCTTTGCTAACAAGTTAGTTGTTGGTGATGTTTTAGTATTCCACTTGGTCAGGCCTTTAAAGTTCAAGACAAGTTTGACATTAGATTCTAATGCTGCACTGATAGATGAGGAGTACAATGAAGAATTTGGCTTCAACATTTTAGAAGATGTTGGACTTCCAATACCAGCTACTGATTTTGGTGATGTTGAAAATACCAAGGATTTTACCATTCTCGTGAATGGTGTGAGTATAAATTCTTGTCTCTCCGAAGAGATCAGAAATAGGTATTATGATCTATGCTGCTCGCAAAGGTCATTTCTGCACAACCATCTCCTCGAAAGTATTAATGGTAAGTTAGCTGCTGAAATAATAACCAAAACTATTAACATCGCTAATGCCATTAGAGCTTGCAGGCTTTCCACCCCCCATGGTGCTTATATATTGTGGGAGAAGACTTTAGATGCCTTTGAGATTTTGGGTATGAATGTTGGATTCTTACGTGCCCGGCTGAAGCGGCTTCTGAGCCTTTCTTTCAGGACCAAACAGGCTCTGATAAGGAAATCAAAGGAGGCTAAACTTGAGCAAGCTCGTGCAAAGGACAAGGTGATAACTCTTGAATCCAAGTATTGGAAATGGAAAGAGAGGATGGTAAGTGCTGATGCAAAGATAGAGGCTCTAAAGGAAGTTGCAGAGAGGCGTGAACTTTTCTTCCAGGAAGAGGCTGTTGCTCCATGGGGATGA
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

335

Amino Acids

37.93

Weight (kDa)

7.59

Isoelectric Point (pI)

44.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 31 - 118 3.2e-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)
AccB7I CCANNNNNTGG 1 cut(s) 891
AciI CCGC 2 cut(s) 210, 778
AcsI RAATTY 2 cut(s) 407, 517
AcuI CTGAAG 2 cut(s) 45, 794
AfaI GTAC 1 cut(s) 398
AfiI CCNNNNNNNGG 2 cut(s) 891, 982
AgsI TTSAA 5 cut(s) 53, 349, 418, 473, 881
AjnI CCWGG 1 cut(s) 975
AloI GAACNNNNNNTCC 2 cut(s) 957, 989
AluBI AGCT 4 cut(s) 452, 623, 671, 851
AluI AGCT 4 cut(s) 452, 623, 671, 851
Alw26I GTCTC 1 cut(s) 530
AlwNI CAGNNNCTG 2 cut(s) 455, 814
AoxI GGCC 1 cut(s) 335
ApeKI GCWGC 4 cut(s) 106, 377, 564, 623
ApoI RAATTY 2 cut(s) 407, 517
AseI ATTAAT 1 cut(s) 609
AspS9I GGNCC 1 cut(s) 801
AsuC2I CCSGG 1 cut(s) 769
AsuHPI GGTGA 3 cut(s) 320, 476, 880
AvaII GGWCC 1 cut(s) 801
BaeGI GKGCMC 1 cut(s) 769
BauI CACGAG 2 cut(s) 497, 852
BbsI GAAGAC 1 cut(s) 722
BbvI GCAGC 4 cut(s) 118, 364, 551, 610
BccI CCATC 6 cut(s) 95, 118, 181, 264, 600, 904
BciT130I CCWGG 1 cut(s) 977
BcnI CCSGG 1 cut(s) 769
BcoDI GTCTC 1 cut(s) 530
BisI GCNGC 5 cut(s) 107, 378, 565, 624, 779
BlsI GCNGC 5 cut(s) 108, 379, 566, 625, 780
Bme1390I CCNGG 2 cut(s) 769, 977
Bme18I GGWCC 1 cut(s) 801
BmgT120I GGNCC 1 cut(s) 801
BmrFI CCNGG 2 cut(s) 769, 977
BmsI GCATC 3 cut(s) 172, 715, 913
BpiI GAAGAC 1 cut(s) 722
Bpu10I CCTNAGC 1 cut(s) 147
BpuEI CTTGAG 1 cut(s) 863
BpuMI CCSGG 1 cut(s) 769
BsaAI YACGTR 1 cut(s) 764
BsaJI CCNNGG 3 cut(s) 480, 691, 995
Bsc4I CCNNNNNNNGG 2 cut(s) 891, 982
Bse1I ACTGG 1 cut(s) 123
Bse3DI GCAATG 1 cut(s) 140
BseBI CCWGG 1 cut(s) 977
BseDI CCNNGG 3 cut(s) 480, 691, 995
BseGI GGATG 3 cut(s) 173, 275, 915
BseLI CCNNNNNNNGG 2 cut(s) 891, 982
BseMI GCAATG 1 cut(s) 140
BseMII CTCAG 2 cut(s) 251, 776
BseNI ACTGG 1 cut(s) 123
BseRI GAGGAG 2 cut(s) 407, 587
BseSI GKGCMC 1 cut(s) 769
BseXI GCAGC 4 cut(s) 118, 364, 551, 610
BsgI GTGCAG 3 cut(s) 260, 363, 569
BshFI GGCC 1 cut(s) 337
BsiSI CCGG 1 cut(s) 769
BslI CCNNNNNNNGG 2 cut(s) 891, 982
BsmAI GTCTC 1 cut(s) 530
BsmI GAATGC 1 cut(s) 86
BsnI GGCC 1 cut(s) 337
Bsp1286I GDGCHC 1 cut(s) 769
Bsp143I GATC 3 cut(s) 57, 537, 556
Bsp19I CCATGG 2 cut(s) 691, 995
BspACI CCGC 2 cut(s) 210, 778
BspANI GGCC 1 cut(s) 337
BspCNI CTCAG 2 cut(s) 252, 777
BsrDI GCAATG 1 cut(s) 140
BsrI ACTGG 1 cut(s) 123
BssECI CCNNGG 3 cut(s) 480, 691, 995
BssMI GATC 3 cut(s) 57, 537, 556
BssSI CACGAG 2 cut(s) 497, 852
BssT1I CCWWGG 3 cut(s) 480, 691, 995
Bst2BI CACGAG 2 cut(s) 497, 852
Bst2UI CCWGG 1 cut(s) 977
Bst6I CTCTTC 3 cut(s) 48, 528, 975
BstBAI YACGTR 1 cut(s) 764
BstC8I GCNNGC 4 cut(s) 569, 673, 677, 849
BstDEI CTNAG 3 cut(s) 147, 260, 785
BstDSI CCRYGG 2 cut(s) 691, 995
BstF5I GGATG 3 cut(s) 173, 275, 915
BstKTI GATC 3 cut(s) 60, 540, 559
BstMAI GTCTC 1 cut(s) 530
BstMBI GATC 3 cut(s) 57, 537, 556
BstMWI GCNNNNNNNGC 2 cut(s) 668, 778
BstNI CCWGG 1 cut(s) 977
BstSCI CCNGG 2 cut(s) 767, 975
BstSLI GKGCMC 1 cut(s) 769
BstV1I GCAGC 4 cut(s) 118, 364, 551, 610
BstV2I GAAGAC 1 cut(s) 722
BsuRI GGCC 1 cut(s) 337
BtgI CCRYGG 2 cut(s) 691, 995
BtgZI GCGATG 1 cut(s) 637
BtsCI GGATG 3 cut(s) 173, 275, 915
BtsIMutI CAGTG 2 cut(s) 130, 380
Cac8I GCNNGC 4 cut(s) 569, 673, 677, 849
CaiI CAGNNNCTG 2 cut(s) 455, 814
Cfr13I GGNCC 1 cut(s) 801
Csp6I GTAC 1 cut(s) 397
CviAII CATG 3 cut(s) 179, 692, 996
CviQI GTAC 1 cut(s) 397
DdeI CTNAG 3 cut(s) 147, 260, 785
DpnI GATC 3 cut(s) 59, 539, 558
DpnII GATC 3 cut(s) 57, 537, 556
DraI TTTAAA 1 cut(s) 342
Eam1104I CTCTTC 3 cut(s) 48, 528, 975
EarI CTCTTC 3 cut(s) 48, 528, 975
Eco130I CCWWGG 3 cut(s) 480, 691, 995
Eco147I AGGCCT 1 cut(s) 337
Eco47I GGWCC 1 cut(s) 801
Eco57I CTGAAG 2 cut(s) 45, 794
EcoRII CCWGG 1 cut(s) 975
EcoT14I CCWWGG 3 cut(s) 480, 691, 995
ErhI CCWWGG 3 cut(s) 480, 691, 995
FaeI CATG 3 cut(s) 182, 695, 999
FatI CATG 3 cut(s) 178, 691, 995
FauI CCCGC 1 cut(s) 203
Fnu4HI GCNGC 5 cut(s) 107, 378, 565, 624, 779
FokI GGATG 3 cut(s) 160, 282, 922
Fsp4HI GCNGC 5 cut(s) 107, 378, 565, 624, 779
GluI GCNGC 5 cut(s) 107, 378, 565, 624, 779
HaeIII GGCC 1 cut(s) 337
HapII CCGG 1 cut(s) 769
Hin1II CATG 3 cut(s) 182, 695, 999
HincII GTYRAC 1 cut(s) 16
HindII GTYRAC 1 cut(s) 16
HinfI GANTC 3 cut(s) 368, 756, 881
HpaII CCGG 1 cut(s) 769
HphI GGTGA 3 cut(s) 320, 476, 880
Hpy166II GTNNAC 2 cut(s) 16, 965
Hpy188I TCNGA 4 cut(s) 532, 542, 786, 816
Hpy188III TCNNGA 6 cut(s) 7, 23, 349, 499, 799, 878
Hpy8I GTNNAC 2 cut(s) 16, 965
HpyAV CCTTC 2 cut(s) 91, 238
HpyCH4IV ACGT 1 cut(s) 763
HpyCH4V TGCA 9 cut(s) 106, 185, 241, 380, 586, 675, 857, 926, 953
HpyF10VI GCNNNNNNNGC 2 cut(s) 668, 778
HpyF3I CTNAG 3 cut(s) 147, 260, 785
HpySE526I ACGT 1 cut(s) 763
Hsp92II CATG 3 cut(s) 182, 695, 999
Kzo9I GATC 3 cut(s) 57, 537, 556
LmnI GCTCC 1 cut(s) 997
Lsp1109I GCAGC 4 cut(s) 118, 364, 551, 610
LweI GCATC 3 cut(s) 172, 715, 913
MaeII ACGT 1 cut(s) 763
MalI GATC 3 cut(s) 59, 539, 558
MboI GATC 3 cut(s) 57, 537, 556
MhlI GDGCHC 1 cut(s) 769
MluCI AATT 4 cut(s) 152, 192, 407, 517
MmeI TCCRAC 2 cut(s) 415, 733
MnlI CCTC 7 cut(s) 385, 608, 826, 900, 928, 951, 976
MseI TTAA 3 cut(s) 341, 609, 648
MslI CAYNNNNRTG 3 cut(s) 92, 497, 1000
MspI CCGG 1 cut(s) 769
MspR9I CCNGG 2 cut(s) 769, 977
Mva1269I GAATGC 1 cut(s) 86
MvaI CCWGG 1 cut(s) 977
MwoI GCNNNNNNNGC 2 cut(s) 668, 778
NciI CCSGG 1 cut(s) 769
NcoI CCATGG 2 cut(s) 691, 995
NdeII GATC 3 cut(s) 57, 537, 556
NlaIII CATG 3 cut(s) 182, 695, 999
PceI AGGCCT 1 cut(s) 337
PctI GAATGC 1 cut(s) 86
PfeI GAWTC 3 cut(s) 368, 756, 881
PflMI CCANNNNNTGG 1 cut(s) 891
PfoI TCCNGGA 1 cut(s) 975
PkrI GCNGC 5 cut(s) 108, 379, 566, 625, 780
Ppu21I YACGTR 1 cut(s) 764
PshBI ATTAAT 1 cut(s) 609
Psp6I CCWGG 1 cut(s) 975
PspGI CCWGG 1 cut(s) 975
PspPI GGNCC 1 cut(s) 801
PstNI CAGNNNCTG 2 cut(s) 455, 814
RsaI GTAC 1 cut(s) 398
RsaNI GTAC 1 cut(s) 397
RseI CAYNNNNRTG 3 cut(s) 92, 497, 1000
SaqAI TTAA 3 cut(s) 341, 609, 648
SatI GCNGC 5 cut(s) 107, 378, 565, 624, 779
Sau3AI GATC 3 cut(s) 57, 537, 556
Sau96I GGNCC 1 cut(s) 801
ScrFI CCNGG 2 cut(s) 769, 977
SduI GDGCHC 1 cut(s) 769
SetI ASST 8 cut(s) 454, 551, 578, 625, 673, 766, 853, 870
SfaNI GCATC 3 cut(s) 172, 715, 913
SinI GGWCC 1 cut(s) 801
SmiMI CAYNNNNRTG 3 cut(s) 92, 497, 1000
SmlI CTYRAG 1 cut(s) 842
SmoI CTYRAG 1 cut(s) 842
Sse9I AATT 4 cut(s) 152, 192, 407, 517
SseBI AGGCCT 1 cut(s) 337
SsiI CCGC 2 cut(s) 210, 778
StuI AGGCCT 1 cut(s) 337
StyD4I CCNGG 2 cut(s) 767, 975
StyI CCWWGG 3 cut(s) 480, 691, 995
TaiI ACGT 1 cut(s) 766
TaqI TCGA 2 cut(s) 6, 600
TaqII GACCGA 1 cut(s) 25
TasI AATT 4 cut(s) 152, 192, 407, 517
TatI WGTACW 1 cut(s) 396
TauI GCSGC 1 cut(s) 781
TfiI GAWTC 3 cut(s) 368, 756, 881
Tru1I TTAA 3 cut(s) 341, 609, 648
Tru9I TTAA 3 cut(s) 341, 609, 648
TscAI CASTG 2 cut(s) 130, 387
TseI GCWGC 4 cut(s) 106, 377, 564, 623
TspDTI ATGAA 3 cut(s) 219, 417, 761
TspRI CASTG 2 cut(s) 130, 387
Van91I CCANNNNNTGG 1 cut(s) 891
VpaK11BI GGWCC 1 cut(s) 801
VspI ATTAAT 1 cut(s) 609
XapI RAATTY 2 cut(s) 407, 517
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.