Rroxscaffold_7G00208100

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000561
Physical Location & Seq
Forward (+)
58120615 .. 58122993
2379 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00208100.1

Sequence Viewer

Length: 1278 bp
ATGTGGGAGACTAGTGCTTGTTCAGAAAAGGAAAAACCAGTGCTCAACATGAATGTGGAGGACCAATGCTTCGAGCATTTCTCAGACCAAGACGAAGAAGACGACGATTTTACCATTTCGCAAATTTCTTCTCTCCGTAGACCACAATTTCACCCTTCATTCTCTCCATCGGTAGAGCAGAGGAAGCTATTGGAGACCCAGAAAAAGGGGTTCAAGACTCGGACAAGTCCTTTCAGTCCAACCCATGACACCCAACGAGTGAGTCACAACGCTTTTCATAACACCCTTGTTCACTTAATTAGTCCTTCTAGTCTTCGTTTTTGCTCTACTTGGATCATGTGGGAAAGTGGGAAACCCAGAAATTGTTCAAGCCAAAGAAATTTTGATGATAATATTATGTTCAATCAAACTGTGTATTCTGCTGCATTGCCTAAGCAATTCTGCCATTTGCATTTGCCATCCCATGATGCAACAATAATTTTACAAGATGAAAGCGGGGAGAAATACAGAACAAAGTTTATTGTGCAAAAGGACAAGAGCATACTGAGTAGTGGATGGAGAAGGTTTTGCTTTGCTAACAAGTTAGTTGTTGGTGATGTTTTAGCATTCCACTTGGTCAGGCCTTTAAAGTTCAAGGTGTACATAATGGGAATACATAGTTTAGCTGAAGTGGAAGCGGCTTTCAGCCTCTTGAAGTTCGGTTCCTGCACCAAACAAACAGCTTTTGAGGAAATACGTCCAATGCCTCTTCCAAAAGATGTCTGTCAAGTTCATATTGGTGAGAAGACAAGTTTGACATTAGATTCTAATGCTGCACTGATAGATGAGGTGTACAATGAAGAATTTGGCTTCAACATTTTAGAAGATGTTGGACTTCCAATACCAGCTACTGATTTTGGTGATGTTGAAAATACCGAGGATTTTACCATTATCGTGAATGGTAGCTTGCAGGCTTTCCACCCCCATGGTGCTTATGTATTGTGGGAGAAGACTTTAGATGCCTTTGAGATTTTGGGTATGAATGTTGGATTCTTACGTGCCCGGCTGAAGCGGCTTCTGAGCCTTTCTTTCAGGACCAAACAGGCTCTGATAAGGAAATCAAAGGAGGCTAAACTTGAGCAAGCTCGTGCAAAGGACAAGGTGATAACTCTTGAATCCAAGTATTGGAAATGGAAAGAGAGGATGGTAAGTGCTGATGCTAAGATAGAGGCTCTAAAGGAAGTTGCAGAGAGGCGTGAACTTTTCTTCCAGGAAGAGGCTGTTGCTCCATGGGGATGA
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

425

Amino Acids

48.81

Weight (kDa)

6.41

Isoelectric Point (pI)

45.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 142 - 215 7.5e-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
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) 1164
AccI GTMKAC 1 cut(s) 139
AciI CCGC 3 cut(s) 495, 677, 1051
AclWI GGATC 1 cut(s) 341
AcsI RAATTY 3 cut(s) 123, 379, 842
AcuI CTGAAG 2 cut(s) 687, 1067
AfaI GTAC 2 cut(s) 641, 833
AfiI CCNNNNNNNGG 3 cut(s) 205, 1164, 1255
AgsI TTSAA 8 cut(s) 214, 369, 403, 634, 694, 853, 908, 1154
AhlI ACTAGT 1 cut(s) 11
AjnI CCWGG 1 cut(s) 1248
AloI GAACNNNNNNTCC 2 cut(s) 1230, 1262
AluBI AGCT 6 cut(s) 187, 665, 722, 887, 945, 1124
AluI AGCT 6 cut(s) 187, 665, 722, 887, 945, 1124
Alw21I GWGCWC 1 cut(s) 45
Alw26I GTCTC 2 cut(s) 2, 188
AlwI GGATC 1 cut(s) 341
AlwNI CAGNNNCTG 2 cut(s) 890, 1087
AoxI GGCC 1 cut(s) 620
ApeKI GCWGC 2 cut(s) 422, 812
ApoI RAATTY 3 cut(s) 123, 379, 842
ArsI GACNNNNNNTTYG 2 cut(s) 53, 85
Asp700I GAANNNNTTC 1 cut(s) 364
AspS9I GGNCC 2 cut(s) 61, 1074
AsuC2I CCSGG 1 cut(s) 1042
AsuHPI GGTGA 5 cut(s) 143, 605, 791, 911, 1153
AvaII GGWCC 2 cut(s) 61, 1074
BaeGI GKGCMC 1 cut(s) 1042
BauI CACGAG 1 cut(s) 1125
BbsI GAAGAC 4 cut(s) 105, 305, 791, 995
Bbv12I GWGCWC 1 cut(s) 45
BbvI GCAGC 2 cut(s) 409, 799
BccI CCATC 4 cut(s) 175, 466, 549, 1177
BciT130I CCWGG 1 cut(s) 1250
BcnI CCSGG 1 cut(s) 1042
BcoDI GTCTC 2 cut(s) 2, 188
BcuI ACTAGT 1 cut(s) 11
BfaI CTAG 2 cut(s) 12, 309
BisI GCNGC 4 cut(s) 423, 678, 813, 1052
BlsI GCNGC 4 cut(s) 424, 679, 814, 1053
Bme1390I CCNGG 2 cut(s) 1042, 1250
Bme18I GGWCC 2 cut(s) 61, 1074
BmgT120I GGNCC 2 cut(s) 61, 1074
BmiI GGNNCC 1 cut(s) 703
BmrFI CCNGG 2 cut(s) 1042, 1250
BmsI GCATC 3 cut(s) 457, 988, 1186
BpiI GAAGAC 4 cut(s) 105, 305, 791, 995
BplI GAGNNNNNCTC 2 cut(s) 65, 97
Bpu10I CCTNAGC 1 cut(s) 432
BpuEI CTTGAG 1 cut(s) 1136
BpuMI CCSGG 1 cut(s) 1042
BsaAI YACGTR 1 cut(s) 1037
BsaI GGTCTC 1 cut(s) 188
BsaJI CCNNGG 3 cut(s) 915, 964, 1268
Bsc4I CCNNNNNNNGG 3 cut(s) 205, 1164, 1255
Bse1I ACTGG 1 cut(s) 38
Bse3DI GCAATG 1 cut(s) 425
BseBI CCWGG 1 cut(s) 1250
BseDI CCNNGG 3 cut(s) 915, 964, 1268
BseGI GGATG 3 cut(s) 458, 560, 1188
BseLI CCNNNNNNNGG 3 cut(s) 205, 1164, 1255
BseMI GCAATG 1 cut(s) 425
BseMII CTCAG 3 cut(s) 96, 536, 1049
BseNI ACTGG 1 cut(s) 38
BseSI GKGCMC 1 cut(s) 1042
BseXI GCAGC 2 cut(s) 409, 799
BsgI GTGCAG 2 cut(s) 691, 798
BshFI GGCC 1 cut(s) 622
BsiHKAI GWGCWC 1 cut(s) 45
BsiSI CCGG 1 cut(s) 1042
BslI CCNNNNNNNGG 3 cut(s) 205, 1164, 1255
BsmAI GTCTC 2 cut(s) 2, 188
BsmI GAATGC 1 cut(s) 605
BsnI GGCC 1 cut(s) 622
Bso31I GGTCTC 1 cut(s) 188
Bsp1286I GDGCHC 2 cut(s) 45, 1042
Bsp1407I TGTACA 2 cut(s) 639, 831
Bsp143I GATC 1 cut(s) 333
Bsp19I CCATGG 2 cut(s) 964, 1268
BspACI CCGC 3 cut(s) 495, 677, 1051
BspANI GGCC 1 cut(s) 622
BspCNI CTCAG 3 cut(s) 95, 537, 1050
BspLI GGNNCC 1 cut(s) 703
BspPI GGATC 1 cut(s) 341
BspTNI GGTCTC 1 cut(s) 188
BsrDI GCAATG 1 cut(s) 425
BsrGI TGTACA 2 cut(s) 639, 831
BsrI ACTGG 1 cut(s) 38
BssECI CCNNGG 3 cut(s) 915, 964, 1268
BssMI GATC 1 cut(s) 333
BssSI CACGAG 1 cut(s) 1125
BssT1I CCWWGG 2 cut(s) 964, 1268
Bst2BI CACGAG 1 cut(s) 1125
Bst2UI CCWGG 1 cut(s) 1250
Bst4CI ACNGT 1 cut(s) 412
Bst6I CTCTTC 2 cut(s) 753, 1248
BstAUI TGTACA 2 cut(s) 639, 831
BstBAI YACGTR 1 cut(s) 1037
BstC8I GCNNGC 3 cut(s) 947, 951, 1122
BstDEI CTNAG 5 cut(s) 82, 432, 545, 1058, 1200
BstDSI CCRYGG 2 cut(s) 964, 1268
BstF5I GGATG 3 cut(s) 458, 560, 1188
BstKTI GATC 1 cut(s) 336
BstMAI GTCTC 2 cut(s) 2, 188
BstMBI GATC 1 cut(s) 333
BstMWI GCNNNNNNNGC 2 cut(s) 184, 1051
BstNI CCWGG 1 cut(s) 1250
BstSCI CCNGG 2 cut(s) 1040, 1248
BstSLI GKGCMC 1 cut(s) 1042
BstV1I GCAGC 2 cut(s) 409, 799
BstV2I GAAGAC 4 cut(s) 105, 305, 791, 995
BstXI CCANNNNNNTGG 1 cut(s) 965
BsuRI GGCC 1 cut(s) 622
BtgI CCRYGG 2 cut(s) 964, 1268
BtsCI GGATG 3 cut(s) 458, 560, 1188
BtsIMutI CAGTG 2 cut(s) 45, 815
Cac8I GCNNGC 3 cut(s) 947, 951, 1122
CaiI CAGNNNCTG 2 cut(s) 890, 1087
Cfr13I GGNCC 2 cut(s) 61, 1074
Csp6I GTAC 2 cut(s) 640, 832
CviAII CATG 6 cut(s) 49, 245, 337, 464, 965, 1269
CviQI GTAC 2 cut(s) 640, 832
DdeI CTNAG 5 cut(s) 82, 432, 545, 1058, 1200
DpnI GATC 1 cut(s) 335
DpnII GATC 1 cut(s) 333
DraI TTTAAA 1 cut(s) 627
Eam1104I CTCTTC 2 cut(s) 753, 1248
EarI CTCTTC 2 cut(s) 753, 1248
Eco130I CCWWGG 2 cut(s) 964, 1268
Eco147I AGGCCT 1 cut(s) 622
Eco31I GGTCTC 1 cut(s) 188
Eco47I GGWCC 2 cut(s) 61, 1074
Eco57I CTGAAG 2 cut(s) 687, 1067
EcoRII CCWGG 1 cut(s) 1248
EcoT14I CCWWGG 2 cut(s) 964, 1268
ErhI CCWWGG 2 cut(s) 964, 1268
FaeI CATG 6 cut(s) 52, 248, 340, 467, 968, 1272
FatI CATG 6 cut(s) 48, 244, 336, 463, 964, 1268
FauI CCCGC 1 cut(s) 488
FblI GTMKAC 1 cut(s) 139
Fnu4HI GCNGC 4 cut(s) 423, 678, 813, 1052
FokI GGATG 3 cut(s) 445, 567, 1195
Fsp4HI GCNGC 4 cut(s) 423, 678, 813, 1052
FspBI CTAG 2 cut(s) 12, 309
GluI GCNGC 4 cut(s) 423, 678, 813, 1052
HaeIII GGCC 1 cut(s) 622
HapII CCGG 1 cut(s) 1042
Hin1II CATG 6 cut(s) 52, 248, 340, 467, 968, 1272
HinfI GANTC 5 cut(s) 217, 262, 803, 1029, 1154
HpaII CCGG 1 cut(s) 1042
HphI GGTGA 5 cut(s) 143, 605, 791, 911, 1153
Hpy166II GTNNAC 5 cut(s) 140, 292, 640, 832, 1238
Hpy188I TCNGA 5 cut(s) 25, 85, 222, 1059, 1089
Hpy188III TCNNGA 5 cut(s) 214, 691, 934, 1072, 1151
Hpy8I GTNNAC 5 cut(s) 140, 292, 640, 832, 1238
Hpy99I CGWCG 1 cut(s) 107
HpyAV CCTTC 3 cut(s) 165, 315, 555
HpyCH4III ACNGT 1 cut(s) 412
HpyCH4IV ACGT 2 cut(s) 736, 1036
HpyCH4V TGCA 9 cut(s) 425, 451, 470, 526, 708, 815, 949, 1130, 1226
HpyF10VI GCNNNNNNNGC 2 cut(s) 184, 1051
HpyF3I CTNAG 5 cut(s) 82, 432, 545, 1058, 1200
HpySE526I ACGT 2 cut(s) 736, 1036
Hsp92II CATG 6 cut(s) 52, 248, 340, 467, 968, 1272
Kzo9I GATC 1 cut(s) 333
LmnI GCTCC 1 cut(s) 1270
Lsp1109I GCAGC 2 cut(s) 409, 799
LweI GCATC 3 cut(s) 457, 988, 1186
MaeI CTAG 2 cut(s) 12, 309
MaeII ACGT 2 cut(s) 736, 1036
MaeIII GTNAC 1 cut(s) 263
MalI GATC 1 cut(s) 335
MboI GATC 1 cut(s) 333
MhlI GDGCHC 2 cut(s) 45, 1042
MluCI AATT 8 cut(s) 123, 146, 297, 361, 379, 437, 477, 842
MlyI GAGTC 2 cut(s) 211, 271
MmeI TCCRAC 3 cut(s) 263, 850, 1006
MroXI GAANNNNTTC 1 cut(s) 364
MseI TTAA 2 cut(s) 296, 626
MslI CAYNNNNRTG 5 cut(s) 53, 777, 932, 963, 1273
MspI CCGG 1 cut(s) 1042
MspR9I CCNGG 2 cut(s) 1042, 1250
Mva1269I GAATGC 1 cut(s) 605
MvaI CCWGG 1 cut(s) 1250
MwoI GCNNNNNNNGC 2 cut(s) 184, 1051
NciI CCSGG 1 cut(s) 1042
NcoI CCATGG 2 cut(s) 964, 1268
NdeII GATC 1 cut(s) 333
NlaIII CATG 6 cut(s) 52, 248, 340, 467, 968, 1272
NlaIV GGNNCC 1 cut(s) 703
NmuCI GTSAC 1 cut(s) 263
PceI AGGCCT 1 cut(s) 622
PcsI WCGNNNNNNNCGW 1 cut(s) 99
PctI GAATGC 1 cut(s) 605
PdmI GAANNNNTTC 1 cut(s) 364
PfeI GAWTC 3 cut(s) 803, 1029, 1154
PflMI CCANNNNNTGG 1 cut(s) 1164
PfoI TCCNGGA 1 cut(s) 1248
PkrI GCNGC 4 cut(s) 424, 679, 814, 1053
PleI GAGTC 2 cut(s) 211, 270
PpsI GAGTC 2 cut(s) 211, 270
Ppu21I YACGTR 1 cut(s) 1037
Psp6I CCWGG 1 cut(s) 1248
PspGI CCWGG 1 cut(s) 1248
PspN4I GGNNCC 1 cut(s) 703
PspPI GGNCC 2 cut(s) 61, 1074
PstNI CAGNNNCTG 2 cut(s) 890, 1087
RsaI GTAC 2 cut(s) 641, 833
RsaNI GTAC 2 cut(s) 640, 832
RseI CAYNNNNRTG 5 cut(s) 53, 777, 932, 963, 1273
SaqAI TTAA 2 cut(s) 296, 626
SatI GCNGC 4 cut(s) 423, 678, 813, 1052
Sau3AI GATC 1 cut(s) 333
Sau96I GGNCC 2 cut(s) 61, 1074
SchI GAGTC 2 cut(s) 211, 271
ScrFI CCNGG 2 cut(s) 1042, 1250
SduI GDGCHC 2 cut(s) 45, 1042
SfaNI GCATC 3 cut(s) 457, 988, 1186
SinI GGWCC 2 cut(s) 61, 1074
SmiMI CAYNNNNRTG 5 cut(s) 53, 777, 932, 963, 1273
SmlI CTYRAG 1 cut(s) 1115
SmoI CTYRAG 1 cut(s) 1115
SpeI ACTAGT 1 cut(s) 11
Sse9I AATT 8 cut(s) 123, 146, 297, 361, 379, 437, 477, 842
SseBI AGGCCT 1 cut(s) 622
SsiI CCGC 3 cut(s) 495, 677, 1051
SspI AATATT 1 cut(s) 394
SspMI CTAG 2 cut(s) 12, 309
StuI AGGCCT 1 cut(s) 622
StyD4I CCNGG 2 cut(s) 1040, 1248
StyI CCWWGG 2 cut(s) 964, 1268
TaaI ACNGT 1 cut(s) 412
TaiI ACGT 2 cut(s) 739, 1039
TaqI TCGA 1 cut(s) 72
TasI AATT 8 cut(s) 123, 146, 297, 361, 379, 437, 477, 842
TatI WGTACW 2 cut(s) 639, 831
TauI GCSGC 2 cut(s) 680, 1054
TfiI GAWTC 3 cut(s) 803, 1029, 1154
Tru1I TTAA 2 cut(s) 296, 626
Tru9I TTAA 2 cut(s) 296, 626
TscAI CASTG 2 cut(s) 45, 822
TseFI GTSAC 1 cut(s) 263
TseI GCWGC 2 cut(s) 422, 812
Tsp45I GTSAC 1 cut(s) 263
TspDTI ATGAA 7 cut(s) 65, 147, 266, 504, 761, 852, 1034
TspGWI ACGGA 1 cut(s) 125
TspRI CASTG 2 cut(s) 45, 822
Van91I CCANNNNNTGG 1 cut(s) 1164
VpaK11BI GGWCC 2 cut(s) 61, 1074
XapI RAATTY 3 cut(s) 123, 379, 842
XmiI GTMKAC 1 cut(s) 139
XmnI GAANNNNTTC 1 cut(s) 364
XspI CTAG 2 cut(s) 12, 309
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.