Rh6CG084000

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0000561
Physical Location & Seq
Reverse (-)
9213064 .. 9215640
2577 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG084000.1

Sequence Viewer

Length: 900 bp
ATGAATCTGGAGGGGAATTTCTTCCAGTATTTCCAGGAAGACGAAGAGCACACCACCTTCCCCGAGCTCCCTGTCCCTACTACTTCAACTCCATTTGACGATTTCACCCTTCATCCGGTAGAGCAGCGCAGAGAGACATTGGAGGAGACCACCCAAAATGGGTTCAGGCCTTGGAAGTGGAAAAGTCCCTTGAGTCCAATTCCCAAGAGAAAAAAGGCTGGGGATCCTCTGAGGAATGGAGGCTATAAGCGTAAGATCACCAAGTCCAACTATCATGAAAAGTCTTCTGTCAGAAACCAACTGCAACATATCCTGGCAAATCTAGGACCTGAATGTCCCTTCTTTTTGAAGTCTATGATACATTGTAATGTTGTCCATGGCTTTAGTTTGACATTGCCGAAGCAATTCTGCTATTTGTATCTGCCATTCCATGATACAACTATAACCTTGGAAGATGAAAGAGGAGAGGAATATAGAACAATATTTCTTGGGGACAAGAGGAGACTGAGCGGTGGATGGAGAGGGTTTTGTGTTGCAAAGAAATTAGTTCTTGGCGACCTCTTAGTTTTCCATTTGGTTAGTCCTTTGAAGTTTAAGGTATGCTTCTATTGTTGCTTGGGCATAGTTTTCTGTATTTTTGACAATAACTGCTATTGGTTCTTGATACCCCACCAATTTGATGCGACTTTGTCCACATTAATTGGAATTTCTTGCTTGGATGAAGAGCTTGTTCTTTGGCCTTCGCATCTGCATTTTGACTCTTGTAGTGTAGTACACAATCATATATACACAATATTGCAGGTGTACAAAGTGGAACCTGATAGTCTAACTGAAGTAGATGCAGCTTTTATCCTCTTGAAATTGAGTCTCCCCACACTATTTGGTACTCTCTATTTATAG
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

299

Amino Acids

34.69

Weight (kDa)

6.49

Isoelectric Point (pI)

49.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 115 - 205 3.3e-14 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)
AarI CACCTGC 1 cut(s) 790
AasI GACNNNNNNGTC 1 cut(s) 333
Acc36I ACCTGC 1 cut(s) 790
AccBSI CCGCTC 1 cut(s) 510
AciI CCGC 1 cut(s) 510
AclWI GGATC 2 cut(s) 218, 231
AcsI RAATTY 2 cut(s) 16, 705
AcuI CTGAAG 1 cut(s) 852
AfaI GTAC 3 cut(s) 774, 806, 886
AfiI CCNNNNNNNGG 2 cut(s) 115, 159
AgsI TTSAA 4 cut(s) 87, 349, 589, 859
AjnI CCWGG 2 cut(s) 33, 312
AluBI AGCT 3 cut(s) 67, 727, 845
AluI AGCT 3 cut(s) 67, 727, 845
Alw21I GWGCWC 2 cut(s) 51, 69
Alw26I GTCTC 4 cut(s) 128, 140, 496, 872
AlwI GGATC 2 cut(s) 218, 231
Ama87I CYCGRG 1 cut(s) 62
AoxI GGCC 2 cut(s) 167, 737
ApeKI GCWGC 2 cut(s) 124, 842
ApoI RAATTY 2 cut(s) 16, 705
AseI ATTAAT 1 cut(s) 698
Asp700I GAANNNNTTC 2 cut(s) 20, 404
AspLEI GCGC 1 cut(s) 129
AspS9I GGNCC 1 cut(s) 326
AsuHPI GGTGA 2 cut(s) 97, 250
AvaI CYCGRG 1 cut(s) 62
AvaII GGWCC 1 cut(s) 326
BamHI GGATCC 1 cut(s) 223
BanII GRGCYC 1 cut(s) 69
BbsI GAAGAC 2 cut(s) 45, 276
Bbv12I GWGCWC 2 cut(s) 51, 69
BbvI GCAGC 2 cut(s) 136, 854
BccI CCATC 1 cut(s) 510
BciT130I CCWGG 2 cut(s) 35, 314
BcoDI GTCTC 4 cut(s) 128, 140, 496, 872
BfaI CTAG 1 cut(s) 323
BfuAI ACCTGC 1 cut(s) 790
BisI GCNGC 2 cut(s) 125, 843
BlsI GCNGC 2 cut(s) 126, 844
Bme1390I CCNGG 2 cut(s) 35, 314
Bme18I GGWCC 1 cut(s) 326
BmeT110I CYCGRG 1 cut(s) 62
BmgT120I GGNCC 1 cut(s) 326
BmiI GGNNCC 2 cut(s) 225, 816
BmrFI CCNGG 2 cut(s) 35, 314
BmsI GCATC 3 cut(s) 670, 754, 829
BpiI GAAGAC 2 cut(s) 45, 276
BpmI CTGGAG 1 cut(s) 29
BpuEI CTTGAG 1 cut(s) 211
BsaI GGTCTC 1 cut(s) 140
BsaJI CCNNGG 3 cut(s) 170, 376, 447
BsaWI WCCGGW 1 cut(s) 115
BsaXI ACNNNNNCTCC 2 cut(s) 73, 103
Bsc4I CCNNNNNNNGG 2 cut(s) 115, 159
Bse1I ACTGG 1 cut(s) 25
Bse3DI GCAATG 1 cut(s) 392
BseBI CCWGG 2 cut(s) 35, 314
BseDI CCNNGG 3 cut(s) 170, 376, 447
BseGI GGATG 3 cut(s) 112, 521, 724
BseLI CCNNNNNNNGG 2 cut(s) 115, 159
BseMI GCAATG 1 cut(s) 392
BseMII CTCAG 2 cut(s) 221, 497
BseNI ACTGG 1 cut(s) 25
BseRI GAGGAG 3 cut(s) 158, 477, 514
BseXI GCAGC 2 cut(s) 136, 854
BseYI CCCAGC 1 cut(s) 218
BshFI GGCC 2 cut(s) 169, 739
BsiHKAI GWGCWC 2 cut(s) 51, 69
BsiHKCI CYCGRG 1 cut(s) 62
BsiSI CCGG 1 cut(s) 116
BslFI GGGAC 4 cut(s) 59, 171, 321, 506
BslI CCNNNNNNNGG 2 cut(s) 115, 159
BsmAI GTCTC 4 cut(s) 128, 140, 496, 872
BsmFI GGGAC 4 cut(s) 59, 171, 321, 506
BsnI GGCC 2 cut(s) 169, 739
Bso31I GGTCTC 1 cut(s) 140
BsoBI CYCGRG 1 cut(s) 62
Bsp1286I GDGCHC 2 cut(s) 51, 69
Bsp1407I TGTACA 1 cut(s) 804
Bsp143I GATC 2 cut(s) 223, 255
Bsp19I CCATGG 1 cut(s) 376
BspACI CCGC 1 cut(s) 510
BspANI GGCC 2 cut(s) 169, 739
BspCNI CTCAG 2 cut(s) 222, 498
BspHI TCATGA 1 cut(s) 274
BspLI GGNNCC 2 cut(s) 225, 816
BspMI ACCTGC 1 cut(s) 790
BspPI GGATC 2 cut(s) 218, 231
BspQI GCTCTTC 2 cut(s) 39, 717
BspTNI GGTCTC 1 cut(s) 140
BsrBI CCGCTC 1 cut(s) 510
BsrDI GCAATG 1 cut(s) 392
BsrGI TGTACA 1 cut(s) 804
BsrI ACTGG 1 cut(s) 25
BssECI CCNNGG 3 cut(s) 170, 376, 447
BssMI GATC 2 cut(s) 223, 255
BssT1I CCWWGG 3 cut(s) 170, 376, 447
Bst2UI CCWGG 2 cut(s) 35, 314
Bst6I CTCTTC 2 cut(s) 39, 717
BstAUI TGTACA 1 cut(s) 804
BstDEI CTNAG 3 cut(s) 230, 506, 562
BstDSI CCRYGG 1 cut(s) 376
BstF5I GGATG 3 cut(s) 112, 521, 724
BstHHI GCGC 1 cut(s) 129
BstKTI GATC 2 cut(s) 226, 258
BstMAI GTCTC 4 cut(s) 128, 140, 496, 872
BstMBI GATC 2 cut(s) 223, 255
BstNI CCWGG 2 cut(s) 35, 314
BstSCI CCNGG 2 cut(s) 33, 312
BstV1I GCAGC 2 cut(s) 136, 854
BstV2I GAAGAC 2 cut(s) 45, 276
BstX2I RGATCY 1 cut(s) 223
BstYI RGATCY 1 cut(s) 223
BsuRI GGCC 2 cut(s) 169, 739
BtgI CCRYGG 1 cut(s) 376
BtsCI GGATG 3 cut(s) 112, 521, 724
BveI ACCTGC 1 cut(s) 790
CciI TCATGA 1 cut(s) 274
CfoI GCGC 1 cut(s) 129
Cfr13I GGNCC 1 cut(s) 326
Csp6I GTAC 3 cut(s) 773, 805, 885
CspCI CAANNNNNGTGG 4 cut(s) 682, 717, 862, 897
CviAII CATG 3 cut(s) 275, 377, 431
CviJI RGCY 8 cut(s) 67, 169, 218, 243, 381, 727, 739, 845
CviKI_1 RGCY 8 cut(s) 67, 169, 218, 243, 381, 727, 739, 845
CviQI GTAC 3 cut(s) 773, 805, 885
DdeI CTNAG 3 cut(s) 230, 506, 562
DpnI GATC 2 cut(s) 225, 257
DpnII GATC 2 cut(s) 223, 255
DrdI GACNNNNNNGTC 1 cut(s) 333
DseDI GACNNNNNNGTC 1 cut(s) 333
Eam1104I CTCTTC 2 cut(s) 39, 717
EarI CTCTTC 2 cut(s) 39, 717
Ecl136II GAGCTC 1 cut(s) 67
Eco130I CCWWGG 3 cut(s) 170, 376, 447
Eco147I AGGCCT 1 cut(s) 169
Eco24I GRGCYC 1 cut(s) 69
Eco31I GGTCTC 1 cut(s) 140
Eco47I GGWCC 1 cut(s) 326
Eco53kI GAGCTC 1 cut(s) 67
Eco57I CTGAAG 1 cut(s) 852
Eco88I CYCGRG 1 cut(s) 62
EcoICRI GAGCTC 1 cut(s) 67
EcoO109I RGGNCCY 1 cut(s) 326
EcoRII CCWGG 2 cut(s) 33, 312
EcoT14I CCWWGG 3 cut(s) 170, 376, 447
EcoT38I GRGCYC 1 cut(s) 69
ErhI CCWWGG 3 cut(s) 170, 376, 447
FaeI CATG 3 cut(s) 278, 380, 434
FalI AAGNNNNNCTT 2 cut(s) 587, 619
FaqI GGGAC 4 cut(s) 59, 171, 321, 506
FatI CATG 3 cut(s) 274, 376, 430
Fnu4HI GCNGC 2 cut(s) 125, 843
FokI GGATG 3 cut(s) 99, 528, 731
FriOI GRGCYC 1 cut(s) 69
Fsp4HI GCNGC 2 cut(s) 125, 843
FspBI CTAG 1 cut(s) 323
GlaI GCGC 1 cut(s) 128
GluI GCNGC 2 cut(s) 125, 843
GsaI CCCAGC 1 cut(s) 222
GsuI CTGGAG 1 cut(s) 29
HaeIII GGCC 2 cut(s) 169, 739
HapII CCGG 1 cut(s) 116
HhaI GCGC 1 cut(s) 129
Hin1II CATG 3 cut(s) 278, 380, 434
Hin6I GCGC 1 cut(s) 127
HinP1I GCGC 1 cut(s) 127
HinfI GANTC 4 cut(s) 4, 193, 758, 865
HpaII CCGG 1 cut(s) 116
HphI GGTGA 2 cut(s) 97, 250
Hpy166II GTNNAC 3 cut(s) 693, 775, 805
Hpy188I TCNGA 2 cut(s) 231, 293
Hpy188III TCNNGA 4 cut(s) 8, 275, 661, 856
Hpy8I GTNNAC 3 cut(s) 693, 775, 805
HpyAV CCTTC 4 cut(s) 67, 119, 349, 750
HpyCH4V TGCA 5 cut(s) 304, 536, 751, 799, 842
HpyF3I CTNAG 3 cut(s) 230, 506, 562
Hsp92II CATG 3 cut(s) 278, 380, 434
HspAI GCGC 1 cut(s) 127
Kzo9I GATC 2 cut(s) 223, 255
LguI GCTCTTC 2 cut(s) 39, 717
LmnI GCTCC 1 cut(s) 72
Lsp1109I GCAGC 2 cut(s) 136, 854
LweI GCATC 3 cut(s) 670, 754, 829
MaeI CTAG 1 cut(s) 323
MalI GATC 2 cut(s) 225, 257
MbiI CCGCTC 1 cut(s) 510
MboI GATC 2 cut(s) 223, 255
MboII GAAGA 6 cut(s) 13, 50, 56, 276, 464, 734
MflI RGATCY 1 cut(s) 223
MhlI GDGCHC 2 cut(s) 51, 69
MluCI AATT 8 cut(s) 16, 198, 404, 542, 674, 699, 705, 860
MlyI GAGTC 3 cut(s) 202, 752, 874
MmeI TCCRAC 1 cut(s) 291
MroXI GAANNNNTTC 2 cut(s) 20, 404
MseI TTAA 2 cut(s) 594, 698
MslI CAYNNNNRTG 1 cut(s) 366
MspI CCGG 1 cut(s) 116
MspR9I CCNGG 2 cut(s) 35, 314
MvaI CCWGG 2 cut(s) 35, 314
NcoI CCATGG 1 cut(s) 376
NdeII GATC 2 cut(s) 223, 255
NlaIII CATG 3 cut(s) 278, 380, 434
NlaIV GGNNCC 2 cut(s) 225, 816
PagI TCATGA 1 cut(s) 274
PaqCI CACCTGC 1 cut(s) 790
PceI AGGCCT 1 cut(s) 169
PciSI GCTCTTC 2 cut(s) 39, 717
PdmI GAANNNNTTC 2 cut(s) 20, 404
PfeI GAWTC 1 cut(s) 4
PflFI GACNNNGTC 1 cut(s) 688
PfoI TCCNGGA 1 cut(s) 33
PkrI GCNGC 2 cut(s) 126, 844
PleI GAGTC 3 cut(s) 201, 752, 873
PpsI GAGTC 3 cut(s) 201, 752, 873
PpuMI RGGWCCY 1 cut(s) 326
PshBI ATTAAT 1 cut(s) 698
Psp124BI GAGCTC 1 cut(s) 69
Psp5II RGGWCCY 1 cut(s) 326
Psp6I CCWGG 2 cut(s) 33, 312
PspFI CCCAGC 1 cut(s) 218
PspGI CCWGG 2 cut(s) 33, 312
PspN4I GGNNCC 2 cut(s) 225, 816
PspPI GGNCC 1 cut(s) 326
PspPPI RGGWCCY 1 cut(s) 326
PsuI RGATCY 1 cut(s) 223
PsyI GACNNNGTC 1 cut(s) 688
RsaI GTAC 3 cut(s) 774, 806, 886
RsaNI GTAC 3 cut(s) 773, 805, 885
RseI CAYNNNNRTG 1 cut(s) 366
SacI GAGCTC 1 cut(s) 69
SapI GCTCTTC 2 cut(s) 39, 717
SaqAI TTAA 2 cut(s) 594, 698
SatI GCNGC 2 cut(s) 125, 843
Sau3AI GATC 2 cut(s) 223, 255
Sau96I GGNCC 1 cut(s) 326
SchI GAGTC 3 cut(s) 202, 752, 874
ScrFI CCNGG 2 cut(s) 35, 314
SduI GDGCHC 2 cut(s) 51, 69
SfaNI GCATC 3 cut(s) 670, 754, 829
SinI GGWCC 1 cut(s) 326
SmiMI CAYNNNNRTG 1 cut(s) 366
SmlI CTYRAG 1 cut(s) 190
SmoI CTYRAG 1 cut(s) 190
Sse9I AATT 8 cut(s) 16, 198, 404, 542, 674, 699, 705, 860
SseBI AGGCCT 1 cut(s) 169
SsiI CCGC 1 cut(s) 510
SspI AATATT 2 cut(s) 483, 795
SspMI CTAG 1 cut(s) 323
SstI GAGCTC 1 cut(s) 69
StuI AGGCCT 1 cut(s) 169
StyD4I CCNGG 2 cut(s) 33, 312
StyI CCWWGG 3 cut(s) 170, 376, 447
TasI AATT 8 cut(s) 16, 198, 404, 542, 674, 699, 705, 860
TatI WGTACW 2 cut(s) 772, 804
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 2 cut(s) 594, 698
Tru9I TTAA 2 cut(s) 594, 698
TseI GCWGC 2 cut(s) 124, 842
TspDTI ATGAA 5 cut(s) 17, 101, 291, 471, 735
Tth111I GACNNNGTC 1 cut(s) 688
VpaK11BI GGWCC 1 cut(s) 326
VspI ATTAAT 1 cut(s) 698
XapI RAATTY 2 cut(s) 16, 705
XmnI GAANNNNTTC 2 cut(s) 20, 404
XspI CTAG 1 cut(s) 323
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.