Rh6BG087600

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000561
Physical Location & Seq
Reverse (-)
13636646 .. 13638980
2335 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG087600.1

Sequence Viewer

Length: 1464 bp
ATGGGGGAGACTAGTGCTTGTTCAGAAAAGGAAAAACCAGTGCTCAACATGAATGTGGAGGACCAATGCTTCGAGCATTTCTCAGACCAAGACGAAGAAGACGACGATTTTACCATTTCGCAAATTTCTTCTCTCCGTAGACCAAAATTTCACCCTTCATTCTCTCCATCGGTAGAGCAGAGGAAGCTATTGGAGACCCAGAAAAAGGGGTTCAAGACTCGGACAAGTCCTTTCAGTCCAACCCATGACACCCAACGAAAAGTTTCTGGTGACCATCAGAAGCCTCAAGGCTGTAAACGGAAGAGAACCATGTTCGAGACTGTTGACAATCCTGAAGACTCTTCAGTCAAAAGCCAAGTTGAAGAGATCAAAGCAAAAATAGGAGTGGAAGCCCCCATCTTTGTGAAGGCTATGCAGCCATCAAATGTTGCCAGTGGCTTTTTGTTGGCATTGCCTAAGCAATTCTGCCATTCGCATTTGCCATCCCATGATGCAACAATAATTTTACAAGATGAAAGCGGGGAGAAATACAGAACAAAGTTTATTGTGCAAAAGGACAAGAGCATACTGAGTAGTGGATGGAGAAGGTTTTGCTTTGCTAACAAGTTAGTTGTTGGTGATGTTTTAGTATTCCATTTGGTCAGGCCTTTAAAGTTCAAGGTGTACATAATGGGAACACATAGTTTAGCTGAAGTGGAAGCGGCTTTCAGCCTCTTGAAGTTCGGTTCCTGCACCAAACAAACAGCTTTTGAGGAGATAAGTCCAATGCCTCTTCCAAAAGATGTCTGTCAAGTTCATATTGATGAGAAGACAAGTTTGACATTAGATTCTAATGCTGCACTGATAGATGAGGAGTACAATGAAGAATTTGGCTTCAACATTTTAGAAGATGTTGGACTTCCAATACCAGCTACTGATTTTGGTGATGTTGAAAATACCAAGGATTTTACCATTCTCGTGAGTGGAGTGAGTATAAATTCTTGTCTCTCCGAAGAGATCAGAAATAGGTATTATGATCTATGCTGCTCGCAAAGGTCATTTCTGCACAACCATCTCCTCGAAAGTATTAATGGTAAGTTAGCTGCTGAAATAATAACCGAAACTATTAACATCGCTAATGCCATTAGAGCTTGCAGGCTTTCCACCCCCCATGGTGCTTATGTATTGTGGGAGAAGACTTTAGATGCCTTTGAGATTTTGGGTATGAATGTTGGATTCTTACGTGCCCGGCTGAAGCGGCTTTTGAGCCTTTCTTTCAGGACCAAACAGGCTCTGATAAGGAAATCAAAGGAGGCTAAACTTGAGCAAGCTCGTGCAAAGGACAAGGTGATAACTCTTCAATCCAAGTATTGGAAATGGAAAGAGAGGATGGTAAGTGCTGATGCTAAGATAGAGGCTCTAAAGGAAGTTGCAGAGAGGCGTGAACTTTTCTTCCAGGAAGAGGCTGTTGCTCCATGGGGATGA
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

487

Amino Acids

55.28

Weight (kDa)

6.69

Isoelectric Point (pI)

50.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 134 - 223 3e-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)
AasI GACNNNNNNGTC 1 cut(s) 344
AccB7I CCANNNNNTGG 1 cut(s) 1350
AccI GTMKAC 1 cut(s) 139
AciI CCGC 3 cut(s) 519, 701, 1237
AcsI RAATTY 4 cut(s) 123, 146, 866, 976
AcuI CTGAAG 4 cut(s) 327, 354, 711, 1253
AfaI GTAC 2 cut(s) 665, 857
AfiI CCNNNNNNNGG 3 cut(s) 205, 1350, 1441
AgsI TTSAA 7 cut(s) 214, 362, 658, 718, 877, 932, 1340
AhlI ACTAGT 1 cut(s) 11
AjnI CCWGG 1 cut(s) 1434
AloI GAACNNNNNNTCC 2 cut(s) 1416, 1448
AluBI AGCT 7 cut(s) 187, 689, 746, 911, 1082, 1130, 1310
AluI AGCT 7 cut(s) 187, 689, 746, 911, 1082, 1130, 1310
Alw21I GWGCWC 1 cut(s) 45
Alw26I GTCTC 4 cut(s) 2, 188, 311, 989
AlwNI CAGNNNCTG 2 cut(s) 914, 1273
AoxI GGCC 1 cut(s) 644
ApeKI GCWGC 4 cut(s) 415, 836, 1023, 1082
ApoI RAATTY 4 cut(s) 123, 146, 866, 976
ArsI GACNNNNNNTTYG 2 cut(s) 53, 85
AseI ATTAAT 1 cut(s) 1068
Asp700I GAANNNNTTC 1 cut(s) 262
AspS9I GGNCC 2 cut(s) 61, 1260
AsuC2I CCSGG 1 cut(s) 1228
AsuHPI GGTGA 5 cut(s) 143, 281, 629, 935, 1339
AvaII GGWCC 2 cut(s) 61, 1260
BaeGI GKGCMC 1 cut(s) 1228
BauI CACGAG 2 cut(s) 956, 1311
BbsI GAAGAC 4 cut(s) 105, 342, 815, 1181
Bbv12I GWGCWC 1 cut(s) 45
BbvI GCAGC 4 cut(s) 427, 823, 1010, 1069
BccI CCATC 8 cut(s) 175, 282, 404, 427, 490, 573, 1059, 1363
BciT130I CCWGG 1 cut(s) 1436
BcnI CCSGG 1 cut(s) 1228
BcoDI GTCTC 4 cut(s) 2, 188, 311, 989
BcuI ACTAGT 1 cut(s) 11
BfaI CTAG 1 cut(s) 12
BisI GCNGC 6 cut(s) 416, 702, 837, 1024, 1083, 1238
BlsI GCNGC 6 cut(s) 417, 703, 838, 1025, 1084, 1239
Bme1390I CCNGG 2 cut(s) 1228, 1436
Bme18I GGWCC 2 cut(s) 61, 1260
BmgT120I GGNCC 2 cut(s) 61, 1260
BmiI GGNNCC 1 cut(s) 727
BmrFI CCNGG 2 cut(s) 1228, 1436
BmsI GCATC 3 cut(s) 481, 1174, 1372
BpiI GAAGAC 4 cut(s) 105, 342, 815, 1181
BplI GAGNNNNNCTC 2 cut(s) 65, 97
Bpu10I CCTNAGC 1 cut(s) 456
BpuEI CTTGAG 2 cut(s) 270, 1322
BpuMI CCSGG 1 cut(s) 1228
BsaAI YACGTR 1 cut(s) 1223
BsaI GGTCTC 1 cut(s) 188
BsaJI CCNNGG 3 cut(s) 939, 1150, 1454
Bsc4I CCNNNNNNNGG 3 cut(s) 205, 1350, 1441
Bse1I ACTGG 2 cut(s) 38, 432
Bse3DI GCAATG 1 cut(s) 449
BseBI CCWGG 1 cut(s) 1436
BseDI CCNNGG 3 cut(s) 939, 1150, 1454
BseGI GGATG 3 cut(s) 482, 584, 1374
BseLI CCNNNNNNNGG 3 cut(s) 205, 1350, 1441
BseMI GCAATG 1 cut(s) 449
BseMII CTCAG 2 cut(s) 96, 560
BseNI ACTGG 2 cut(s) 38, 432
BseRI GAGGAG 3 cut(s) 767, 866, 1046
BseSI GKGCMC 1 cut(s) 1228
BseXI GCAGC 4 cut(s) 427, 823, 1010, 1069
BsgI GTGCAG 3 cut(s) 715, 822, 1028
BshFI GGCC 1 cut(s) 646
BsiHKAI GWGCWC 1 cut(s) 45
BsiSI CCGG 1 cut(s) 1228
BslI CCNNNNNNNGG 3 cut(s) 205, 1350, 1441
BsmAI GTCTC 4 cut(s) 2, 188, 311, 989
BsnI GGCC 1 cut(s) 646
Bso31I GGTCTC 1 cut(s) 188
Bsp1286I GDGCHC 2 cut(s) 45, 1228
Bsp1407I TGTACA 1 cut(s) 663
Bsp143I GATC 3 cut(s) 366, 996, 1015
Bsp19I CCATGG 2 cut(s) 1150, 1454
BspACI CCGC 3 cut(s) 519, 701, 1237
BspANI GGCC 1 cut(s) 646
BspCNI CTCAG 2 cut(s) 95, 561
BspLI GGNNCC 1 cut(s) 727
BspTNI GGTCTC 1 cut(s) 188
BsrDI GCAATG 1 cut(s) 449
BsrGI TGTACA 1 cut(s) 663
BsrI ACTGG 2 cut(s) 38, 432
BssECI CCNNGG 3 cut(s) 939, 1150, 1454
BssMI GATC 3 cut(s) 366, 996, 1015
BssSI CACGAG 2 cut(s) 956, 1311
BssT1I CCWWGG 3 cut(s) 939, 1150, 1454
Bst2BI CACGAG 2 cut(s) 956, 1311
Bst2UI CCWGG 1 cut(s) 1436
Bst4CI ACNGT 1 cut(s) 322
Bst6I CTCTTC 7 cut(s) 296, 346, 357, 777, 987, 1341, 1434
BstAUI TGTACA 1 cut(s) 663
BstBAI YACGTR 1 cut(s) 1223
BstC8I GCNNGC 4 cut(s) 1028, 1132, 1136, 1308
BstDEI CTNAG 4 cut(s) 82, 456, 569, 1386
BstDSI CCRYGG 2 cut(s) 1150, 1454
BstEII GGTNACC 1 cut(s) 269
BstF5I GGATG 3 cut(s) 482, 584, 1374
BstKTI GATC 3 cut(s) 369, 999, 1018
BstMAI GTCTC 4 cut(s) 2, 188, 311, 989
BstMBI GATC 3 cut(s) 366, 996, 1015
BstMWI GCNNNNNNNGC 3 cut(s) 184, 1127, 1237
BstNI CCWGG 1 cut(s) 1436
BstPI GGTNACC 1 cut(s) 269
BstSCI CCNGG 2 cut(s) 1226, 1434
BstSLI GKGCMC 1 cut(s) 1228
BstV1I GCAGC 4 cut(s) 427, 823, 1010, 1069
BstV2I GAAGAC 4 cut(s) 105, 342, 815, 1181
BsuRI GGCC 1 cut(s) 646
BtgI CCRYGG 2 cut(s) 1150, 1454
BtgZI GCGATG 1 cut(s) 1096
BtsCI GGATG 3 cut(s) 482, 584, 1374
BtsIMutI CAGTG 3 cut(s) 45, 439, 839
Cac8I GCNNGC 4 cut(s) 1028, 1132, 1136, 1308
CaiI CAGNNNCTG 2 cut(s) 914, 1273
Cfr13I GGNCC 2 cut(s) 61, 1260
Csp6I GTAC 2 cut(s) 664, 856
CviAII CATG 6 cut(s) 49, 245, 310, 488, 1151, 1455
CviQI GTAC 2 cut(s) 664, 856
DdeI CTNAG 4 cut(s) 82, 456, 569, 1386
DpnI GATC 3 cut(s) 368, 998, 1017
DpnII GATC 3 cut(s) 366, 996, 1015
DraI TTTAAA 1 cut(s) 651
DrdI GACNNNNNNGTC 1 cut(s) 344
DseDI GACNNNNNNGTC 1 cut(s) 344
Eam1104I CTCTTC 7 cut(s) 296, 346, 357, 777, 987, 1341, 1434
EarI CTCTTC 7 cut(s) 296, 346, 357, 777, 987, 1341, 1434
Eco130I CCWWGG 3 cut(s) 939, 1150, 1454
Eco147I AGGCCT 1 cut(s) 646
Eco31I GGTCTC 1 cut(s) 188
Eco47I GGWCC 2 cut(s) 61, 1260
Eco57I CTGAAG 4 cut(s) 327, 354, 711, 1253
Eco91I GGTNACC 1 cut(s) 269
EcoO65I GGTNACC 1 cut(s) 269
EcoRII CCWGG 1 cut(s) 1434
EcoT14I CCWWGG 3 cut(s) 939, 1150, 1454
ErhI CCWWGG 3 cut(s) 939, 1150, 1454
FaeI CATG 6 cut(s) 52, 248, 313, 491, 1154, 1458
FatI CATG 6 cut(s) 48, 244, 309, 487, 1150, 1454
FauI CCCGC 1 cut(s) 512
FblI GTMKAC 1 cut(s) 139
Fnu4HI GCNGC 6 cut(s) 416, 702, 837, 1024, 1083, 1238
FokI GGATG 3 cut(s) 469, 591, 1381
Fsp4HI GCNGC 6 cut(s) 416, 702, 837, 1024, 1083, 1238
FspBI CTAG 1 cut(s) 12
GluI GCNGC 6 cut(s) 416, 702, 837, 1024, 1083, 1238
HaeIII GGCC 1 cut(s) 646
HapII CCGG 1 cut(s) 1228
Hin1II CATG 6 cut(s) 52, 248, 313, 491, 1154, 1458
HincII GTYRAC 1 cut(s) 325
HindII GTYRAC 1 cut(s) 325
HinfI GANTC 4 cut(s) 217, 338, 827, 1215
HpaII CCGG 1 cut(s) 1228
HphI GGTGA 5 cut(s) 143, 281, 629, 935, 1339
Hpy166II GTNNAC 5 cut(s) 140, 296, 325, 664, 1424
Hpy188I TCNGA 7 cut(s) 25, 85, 222, 279, 991, 1001, 1275
Hpy188III TCNNGA 6 cut(s) 214, 316, 332, 715, 958, 1258
Hpy8I GTNNAC 5 cut(s) 140, 296, 325, 664, 1424
Hpy99I CGWCG 1 cut(s) 107
HpyAV CCTTC 3 cut(s) 165, 400, 579
HpyCH4III ACNGT 1 cut(s) 322
HpyCH4IV ACGT 1 cut(s) 1222
HpyCH4V TGCA 9 cut(s) 415, 494, 550, 732, 839, 1045, 1134, 1316, 1412
HpyF10VI GCNNNNNNNGC 3 cut(s) 184, 1127, 1237
HpyF3I CTNAG 4 cut(s) 82, 456, 569, 1386
HpySE526I ACGT 1 cut(s) 1222
Hsp92II CATG 6 cut(s) 52, 248, 313, 491, 1154, 1458
Kzo9I GATC 3 cut(s) 366, 996, 1015
LmnI GCTCC 1 cut(s) 1456
Lsp1109I GCAGC 4 cut(s) 427, 823, 1010, 1069
LweI GCATC 3 cut(s) 481, 1174, 1372
MaeI CTAG 1 cut(s) 12
MaeII ACGT 1 cut(s) 1222
MaeIII GTNAC 1 cut(s) 269
MalI GATC 3 cut(s) 368, 998, 1017
MboI GATC 3 cut(s) 366, 996, 1015
MhlI GDGCHC 2 cut(s) 45, 1228
MluCI AATT 6 cut(s) 123, 146, 461, 501, 866, 976
MlyI GAGTC 2 cut(s) 211, 332
MmeI TCCRAC 3 cut(s) 263, 874, 1192
MroXI GAANNNNTTC 1 cut(s) 262
MseI TTAA 3 cut(s) 650, 1068, 1107
MslI CAYNNNNRTG 5 cut(s) 53, 401, 801, 956, 1459
MspI CCGG 1 cut(s) 1228
MspR9I CCNGG 2 cut(s) 1228, 1436
MvaI CCWGG 1 cut(s) 1436
MwoI GCNNNNNNNGC 3 cut(s) 184, 1127, 1237
NciI CCSGG 1 cut(s) 1228
NcoI CCATGG 2 cut(s) 1150, 1454
NdeII GATC 3 cut(s) 366, 996, 1015
NlaIII CATG 6 cut(s) 52, 248, 313, 491, 1154, 1458
NlaIV GGNNCC 1 cut(s) 727
NmuCI GTSAC 1 cut(s) 269
PceI AGGCCT 1 cut(s) 646
PcsI WCGNNNNNNNCGW 1 cut(s) 99
PdmI GAANNNNTTC 1 cut(s) 262
PfeI GAWTC 2 cut(s) 827, 1215
PflMI CCANNNNNTGG 1 cut(s) 1350
PfoI TCCNGGA 1 cut(s) 1434
PkrI GCNGC 6 cut(s) 417, 703, 838, 1025, 1084, 1239
PleI GAGTC 2 cut(s) 211, 332
PpsI GAGTC 2 cut(s) 211, 332
Ppu21I YACGTR 1 cut(s) 1223
PshBI ATTAAT 1 cut(s) 1068
Psp6I CCWGG 1 cut(s) 1434
PspEI GGTNACC 1 cut(s) 269
PspGI CCWGG 1 cut(s) 1434
PspN4I GGNNCC 1 cut(s) 727
PspPI GGNCC 2 cut(s) 61, 1260
PstNI CAGNNNCTG 2 cut(s) 914, 1273
RsaI GTAC 2 cut(s) 665, 857
RsaNI GTAC 2 cut(s) 664, 856
RseI CAYNNNNRTG 5 cut(s) 53, 401, 801, 956, 1459
SaqAI TTAA 3 cut(s) 650, 1068, 1107
SatI GCNGC 6 cut(s) 416, 702, 837, 1024, 1083, 1238
Sau3AI GATC 3 cut(s) 366, 996, 1015
Sau96I GGNCC 2 cut(s) 61, 1260
SchI GAGTC 2 cut(s) 211, 332
ScrFI CCNGG 2 cut(s) 1228, 1436
SduI GDGCHC 2 cut(s) 45, 1228
SfaNI GCATC 3 cut(s) 481, 1174, 1372
SinI GGWCC 2 cut(s) 61, 1260
SmiMI CAYNNNNRTG 5 cut(s) 53, 401, 801, 956, 1459
SmlI CTYRAG 2 cut(s) 285, 1301
SmoI CTYRAG 2 cut(s) 285, 1301
SpeI ACTAGT 1 cut(s) 11
Sse9I AATT 6 cut(s) 123, 146, 461, 501, 866, 976
SseBI AGGCCT 1 cut(s) 646
SsiI CCGC 3 cut(s) 519, 701, 1237
SspMI CTAG 1 cut(s) 12
StuI AGGCCT 1 cut(s) 646
StyD4I CCNGG 2 cut(s) 1226, 1434
StyI CCWWGG 3 cut(s) 939, 1150, 1454
TaaI ACNGT 1 cut(s) 322
TaiI ACGT 1 cut(s) 1225
TaqI TCGA 3 cut(s) 72, 315, 1059
TasI AATT 6 cut(s) 123, 146, 461, 501, 866, 976
TatI WGTACW 2 cut(s) 663, 855
TauI GCSGC 2 cut(s) 704, 1240
TfiI GAWTC 2 cut(s) 827, 1215
Tru1I TTAA 3 cut(s) 650, 1068, 1107
Tru9I TTAA 3 cut(s) 650, 1068, 1107
TscAI CASTG 3 cut(s) 45, 439, 846
TseFI GTSAC 1 cut(s) 269
TseI GCWGC 4 cut(s) 415, 836, 1023, 1082
Tsp45I GTSAC 1 cut(s) 269
TspDTI ATGAA 6 cut(s) 65, 147, 528, 785, 876, 1220
TspGWI ACGGA 2 cut(s) 125, 313
TspRI CASTG 3 cut(s) 45, 439, 846
Van91I CCANNNNNTGG 1 cut(s) 1350
VpaK11BI GGWCC 2 cut(s) 61, 1260
VspI ATTAAT 1 cut(s) 1068
XapI RAATTY 4 cut(s) 123, 146, 866, 976
XmiI GTMKAC 1 cut(s) 139
XmnI GAANNNNTTC 1 cut(s) 262
XspI CTAG 1 cut(s) 12
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.