RchiOBHm_Chr6g0258121

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000561
Physical Location & Seq
Reverse (-)
13525368 .. 13526890
1523 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ23146

Sequence Viewer

Length: 1077 bp
ATGTTCGAGAATGTTGACAATCCTGAAGATTCTTCAGTCAAAAGCCAAGTTGAAGAGATCAAAGCAAAAATAGGGGTGGAATGCCCCATCTTTGTGAAGGCTATGCAGCCATCAAATGTTGCCAGTGGCTTTTTGTTGGCATTGCCTAAGCAATTCTGCCATTCACATTTGCCATCCCATGATGCAACAATAATTTTACAAGATGAAAGCGGGGAGAAATACAGAACAAAGTTTATTGTGCAAAAGGACAAGAGCATACTGAGTAGTGGATGGAGAAGGTTTTGCTTTGCTAACAAGTTAGTTGTTGGTGATGTTTTAGTATTCCATTTGGTCAGGCCTTTAAAGTTCAAGGTGTACATAATGGGAACACATAGTTTAGCTGAAGTGGAAGAGGCTTTCAGCCTCTTGAAGTTCGGTTCCTGCACCAAACAAACAGCTTTTGAGGAAATACGTCCAATGCCTCTTCCAAAAGATGTCTGTCAAGTTCATATTGGTGAGAAGACAAGTTTGACATTAGATTCTAATGCTGCACTGATAGATGAGGAGTACAATGAAGAATTTGGCTTCAACATTTTAGAAGATGTTGGACTTTCAATACCAGCTACTGATTTTGGTGATGTTGAAAATACCAAGGATTTTACCATTCTCGTGAATGGTGTGAGTATAAATTCTTGTCTCTCCGAAGAGATCAGAAATAGGTATTATGATCTATGCTGCTCACAAAGGTCATTTCTGCACAACCATCTCCTCAAAAGTATTAATGGTAAGTTAGCTGCTGAAATAATAACCGAAACGATTAACATCGCTAATGCCATTAGAGCTTGCAGGCTTTCCACCCCCCATGGTGCTTATGTATTGTGGGAGAAGACTTTAGATGCCTTTGAGATTTTGGGTATGAATGTTGGATTCTTACATGCCCGGCTGAAGCAGCTTCTGAGCCTTTCTTTCAGGACCAAACAGGCTCTGATAAGGAAATCAAAGGAGGCTAAACTTGAGCAAGCTCGTGCAAAGGACAAGGTGATAACTCTTGAATCCAAGTATTGGAAATTAATGGAAAGAGAGGATGGTAAGTGCTGA
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

358

Amino Acids

40.43

Weight (kDa)

6.57

Isoelectric Point (pI)

45.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 31 - 120 1.8e-19 B3 DNA binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 1041
AciI CCGC 1 cut(s) 210
AcsI RAATTY 2 cut(s) 557, 667
AcuI CTGAAG 4 cut(s) 18, 45, 402, 944
AfaI GTAC 2 cut(s) 356, 548
AfiI CCNNNNNNNGG 1 cut(s) 1041
AgsI TTSAA 7 cut(s) 53, 349, 409, 568, 594, 623, 1031
AluBI AGCT 7 cut(s) 380, 437, 602, 773, 821, 931, 1001
AluI AGCT 7 cut(s) 380, 437, 602, 773, 821, 931, 1001
Alw26I GTCTC 1 cut(s) 680
AlwNI CAGNNNCTG 3 cut(s) 605, 934, 964
AoxI GGCC 1 cut(s) 335
ApeKI GCWGC 5 cut(s) 106, 527, 714, 773, 928
ApoI RAATTY 2 cut(s) 557, 667
AseI ATTAAT 2 cut(s) 759, 1049
AspS9I GGNCC 1 cut(s) 951
AsuC2I CCSGG 1 cut(s) 919
AsuHPI GGTGA 4 cut(s) 320, 506, 626, 1030
AvaII GGWCC 1 cut(s) 951
BauI CACGAG 2 cut(s) 647, 1002
BbsI GAAGAC 2 cut(s) 506, 872
BbvI GCAGC 5 cut(s) 118, 514, 701, 760, 940
BccI CCATC 6 cut(s) 95, 118, 181, 264, 750, 1058
BcnI CCSGG 1 cut(s) 919
BcoDI GTCTC 1 cut(s) 680
BisI GCNGC 5 cut(s) 107, 528, 715, 774, 929
BlsI GCNGC 5 cut(s) 108, 529, 716, 775, 930
Bme1390I CCNGG 1 cut(s) 919
Bme18I GGWCC 1 cut(s) 951
BmgT120I GGNCC 1 cut(s) 951
BmiI GGNNCC 1 cut(s) 418
BmrFI CCNGG 1 cut(s) 919
BmsI GCATC 2 cut(s) 172, 865
BpiI GAAGAC 2 cut(s) 506, 872
Bpu10I CCTNAGC 1 cut(s) 147
BpuEI CTTGAG 1 cut(s) 1013
BpuMI CCSGG 1 cut(s) 919
BsaBI GATNNNNATC 1 cut(s) 800
BsaJI CCNNGG 2 cut(s) 630, 841
Bsc4I CCNNNNNNNGG 1 cut(s) 1041
Bse1I ACTGG 1 cut(s) 123
Bse3DI GCAATG 1 cut(s) 140
Bse8I GATNNNNATC 1 cut(s) 800
BseDI CCNNGG 2 cut(s) 630, 841
BseGI GGATG 3 cut(s) 173, 275, 1069
BseJI GATNNNNATC 1 cut(s) 800
BseLI CCNNNNNNNGG 1 cut(s) 1041
BseMI GCAATG 1 cut(s) 140
BseMII CTCAG 2 cut(s) 251, 926
BseNI ACTGG 1 cut(s) 123
BseRI GAGGAG 2 cut(s) 557, 737
BseXI GCAGC 5 cut(s) 118, 514, 701, 760, 940
BsgI GTGCAG 3 cut(s) 406, 513, 719
BshFI GGCC 1 cut(s) 337
BsiSI CCGG 1 cut(s) 919
BslI CCNNNNNNNGG 1 cut(s) 1041
BsmAI GTCTC 1 cut(s) 680
BsmI GAATGC 1 cut(s) 86
BsnI GGCC 1 cut(s) 337
Bsp1407I TGTACA 1 cut(s) 354
Bsp143I GATC 3 cut(s) 57, 687, 706
Bsp19I CCATGG 1 cut(s) 841
BspACI CCGC 1 cut(s) 210
BspANI GGCC 1 cut(s) 337
BspCNI CTCAG 2 cut(s) 252, 927
BspLI GGNNCC 1 cut(s) 418
BsrDI GCAATG 1 cut(s) 140
BsrGI TGTACA 1 cut(s) 354
BsrI ACTGG 1 cut(s) 123
BssECI CCNNGG 2 cut(s) 630, 841
BssMI GATC 3 cut(s) 57, 687, 706
BssSI CACGAG 2 cut(s) 647, 1002
BssT1I CCWWGG 2 cut(s) 630, 841
Bst2BI CACGAG 2 cut(s) 647, 1002
Bst6I CTCTTC 4 cut(s) 48, 384, 468, 678
BstAUI TGTACA 1 cut(s) 354
BstC8I GCNNGC 3 cut(s) 823, 827, 999
BstDEI CTNAG 3 cut(s) 147, 260, 935
BstDSI CCRYGG 1 cut(s) 841
BstF5I GGATG 3 cut(s) 173, 275, 1069
BstKTI GATC 3 cut(s) 60, 690, 709
BstMAI GTCTC 1 cut(s) 680
BstMBI GATC 3 cut(s) 57, 687, 706
BstMWI GCNNNNNNNGC 2 cut(s) 818, 928
BstNSI RCATGY 1 cut(s) 917
BstSCI CCNGG 1 cut(s) 917
BstV1I GCAGC 5 cut(s) 118, 514, 701, 760, 940
BstV2I GAAGAC 2 cut(s) 506, 872
BsuRI GGCC 1 cut(s) 337
BtgI CCRYGG 1 cut(s) 841
BtgZI GCGATG 1 cut(s) 787
BtsCI GGATG 3 cut(s) 173, 275, 1069
BtsIMutI CAGTG 2 cut(s) 130, 530
Cac8I GCNNGC 3 cut(s) 823, 827, 999
CaiI CAGNNNCTG 3 cut(s) 605, 934, 964
Cfr13I GGNCC 1 cut(s) 951
Csp6I GTAC 2 cut(s) 355, 547
CviAII CATG 3 cut(s) 179, 842, 914
CviQI GTAC 2 cut(s) 355, 547
DdeI CTNAG 3 cut(s) 147, 260, 935
DpnI GATC 3 cut(s) 59, 689, 708
DpnII GATC 3 cut(s) 57, 687, 706
DraI TTTAAA 1 cut(s) 342
Eam1104I CTCTTC 4 cut(s) 48, 384, 468, 678
EarI CTCTTC 4 cut(s) 48, 384, 468, 678
Eco130I CCWWGG 2 cut(s) 630, 841
Eco147I AGGCCT 1 cut(s) 337
Eco47I GGWCC 1 cut(s) 951
Eco57I CTGAAG 4 cut(s) 18, 45, 402, 944
EcoT14I CCWWGG 2 cut(s) 630, 841
ErhI CCWWGG 2 cut(s) 630, 841
FaeI CATG 3 cut(s) 182, 845, 917
FatI CATG 3 cut(s) 178, 841, 913
FauI CCCGC 1 cut(s) 203
Fnu4HI GCNGC 5 cut(s) 107, 528, 715, 774, 929
FokI GGATG 2 cut(s) 160, 282
Fsp4HI GCNGC 5 cut(s) 107, 528, 715, 774, 929
GluI GCNGC 5 cut(s) 107, 528, 715, 774, 929
HaeIII GGCC 1 cut(s) 337
HapII CCGG 1 cut(s) 919
Hin1II CATG 3 cut(s) 182, 845, 917
HincII GTYRAC 1 cut(s) 16
HindII GTYRAC 1 cut(s) 16
HinfI GANTC 4 cut(s) 29, 518, 906, 1031
HpaII CCGG 1 cut(s) 919
HphI GGTGA 4 cut(s) 320, 506, 626, 1030
Hpy166II GTNNAC 2 cut(s) 16, 355
Hpy188I TCNGA 4 cut(s) 682, 692, 936, 966
Hpy188III TCNNGA 6 cut(s) 7, 23, 406, 649, 949, 1028
Hpy8I GTNNAC 2 cut(s) 16, 355
HpyAV CCTTC 2 cut(s) 91, 270
HpyCH4IV ACGT 1 cut(s) 451
HpyCH4V TGCA 8 cut(s) 106, 185, 241, 423, 530, 736, 825, 1007
HpyF10VI GCNNNNNNNGC 2 cut(s) 818, 928
HpyF3I CTNAG 3 cut(s) 147, 260, 935
HpySE526I ACGT 1 cut(s) 451
Hsp92II CATG 3 cut(s) 182, 845, 917
Kzo9I GATC 3 cut(s) 57, 687, 706
LpnPI CCDG 9 cut(s) 36, 136, 319, 433, 612, 811, 932, 934, 944
Lsp1109I GCAGC 5 cut(s) 118, 514, 701, 760, 940
LweI GCATC 2 cut(s) 172, 865
MaeII ACGT 1 cut(s) 451
MalI GATC 3 cut(s) 59, 689, 708
MboI GATC 3 cut(s) 57, 687, 706
MluCI AATT 5 cut(s) 152, 192, 557, 667, 1046
MmeI TCCRAC 2 cut(s) 565, 883
MnlI CCTC 8 cut(s) 385, 413, 436, 471, 535, 758, 976, 1054
MseI TTAA 4 cut(s) 341, 759, 798, 1049
MslI CAYNNNNRTG 3 cut(s) 92, 492, 647
MspI CCGG 1 cut(s) 919
MspR9I CCNGG 1 cut(s) 919
Mva1269I GAATGC 1 cut(s) 86
MwoI GCNNNNNNNGC 2 cut(s) 818, 928
NciI CCSGG 1 cut(s) 919
NcoI CCATGG 1 cut(s) 841
NdeII GATC 3 cut(s) 57, 687, 706
NlaIII CATG 3 cut(s) 182, 845, 917
NlaIV GGNNCC 1 cut(s) 418
NspI RCATGY 1 cut(s) 917
PceI AGGCCT 1 cut(s) 337
PctI GAATGC 1 cut(s) 86
PfeI GAWTC 4 cut(s) 29, 518, 906, 1031
PflMI CCANNNNNTGG 1 cut(s) 1041
PkrI GCNGC 5 cut(s) 108, 529, 716, 775, 930
PshBI ATTAAT 2 cut(s) 759, 1049
PspN4I GGNNCC 1 cut(s) 418
PspPI GGNCC 1 cut(s) 951
PstNI CAGNNNCTG 3 cut(s) 605, 934, 964
RsaI GTAC 2 cut(s) 356, 548
RsaNI GTAC 2 cut(s) 355, 547
RseI CAYNNNNRTG 3 cut(s) 92, 492, 647
SaqAI TTAA 4 cut(s) 341, 759, 798, 1049
SatI GCNGC 5 cut(s) 107, 528, 715, 774, 929
Sau3AI GATC 3 cut(s) 57, 687, 706
Sau96I GGNCC 1 cut(s) 951
ScrFI CCNGG 1 cut(s) 919
SfaNI GCATC 2 cut(s) 172, 865
SinI GGWCC 1 cut(s) 951
SmiMI CAYNNNNRTG 3 cut(s) 92, 492, 647
SmlI CTYRAG 1 cut(s) 992
SmoI CTYRAG 1 cut(s) 992
Sse9I AATT 5 cut(s) 152, 192, 557, 667, 1046
SseBI AGGCCT 1 cut(s) 337
SsiI CCGC 1 cut(s) 210
StuI AGGCCT 1 cut(s) 337
StyD4I CCNGG 1 cut(s) 917
StyI CCWWGG 2 cut(s) 630, 841
TaiI ACGT 1 cut(s) 454
TaqI TCGA 1 cut(s) 6
TasI AATT 5 cut(s) 152, 192, 557, 667, 1046
TatI WGTACW 2 cut(s) 354, 546
TfiI GAWTC 4 cut(s) 29, 518, 906, 1031
Tru1I TTAA 4 cut(s) 341, 759, 798, 1049
Tru9I TTAA 4 cut(s) 341, 759, 798, 1049
TscAI CASTG 2 cut(s) 130, 537
TseI GCWGC 5 cut(s) 106, 527, 714, 773, 928
TspDTI ATGAA 4 cut(s) 219, 476, 567, 911
TspRI CASTG 2 cut(s) 130, 537
Van91I CCANNNNNTGG 1 cut(s) 1041
VpaK11BI GGWCC 1 cut(s) 951
VspI ATTAAT 2 cut(s) 759, 1049
XapI RAATTY 2 cut(s) 557, 667
XceI RCATGY 1 cut(s) 917
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.