MD10G1092700.v1.1

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0000561
Physical Location & Seq
Forward (+)
14158051 .. 14160612
2562 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1092700.v1.1.491

Sequence Viewer

Length: 1245 bp
ATGTGCTCAGCACTTGGAGACGTCCTACACGACCGACCCATATCACCAAGCGAAAAGTTCCTGGTCATCCTCAGAAGCATGGAGATGGAGGGTAGGTGTAAGCGGAAGAGAACCATTTTCGACTCTTTTAAGGATCATGAAATATCTTTTGTGAGAAACCAAGTTCAGGACATCCAGGCAAATCTTGGAGCTGACCCCGTCTTTGTCAAGTCTATGATACGTTCAAATGTTTCCTCTTGCTTTTGTTTGACACTGCCTAAGCAATTCTGCCAGTTGTATTTGCCATTGCATGATGCAACATTAACCCTCGAAGTTGAAGGTGGGGAAAAATACAGAGTGACGTTTCTTGGGGAAAGGAGGATAGTCAGTGCAGGATGGCAAAAGTTTTCTACTGCAAACAAGTTACTTGTCGGCAACCTTTTAGTTTTCCGTTTGGTCAGGCCTTTGAAGTTCAAGGTGTACATAATGGGAAGACATAGTCTAGCTGAAGTAGATGCAGCTTTTAGCCTCTTGAAAATGAAATCCTGCGCAAACAAAGCAGTGTTTGAGAAAAAACATCTAATGACTCCTCCACGAGATGTTTCCCAAGGCAACATTCAAAAGAAAAGTTCGAAATTAGGTACTAATCCGGAGCTTGTTGCCAACCAATCTGAGGATGACAATGAGGACTTTGCCTCCAACTTAGCGGCAGATATTACATTTCGAGGACCAGCTGCTGATTTTGAAGATGTTAGAATGATTGATAATTTCACCATTCTTGTGAATGGTGTGACTATAGATACTCAACTCTCCGCACAGGTCAGGACTATCTATTATGATCTATGCTGCTCACAAGGCTCATTTTTGCATGACAATCTCCTCAAAAGTATTGACAGTAAGTTGGCTGCTGAAATAATAACTGAAACCACCAACATCGCTAATGCCATTAGAGCTTGCAAGCTGCCCCCCTCTCGTGCTGATTATGTAATGCAGGAGAAGACTTTACACGCCTTTGAGCTGTTGGGTATGGATGTTGGATTTCTGCGCGCGAGACTGAAGCAGTGTCTGAGCATTGCCTCCAAATACGAAGTGGCCGCAGAATCAAAGAGGTATTTAGAAGGTAAAGTTGAGCAAGTTTGTACGAGGGAGAAGATTAGAGATCTTGATTCAAAGCTTTCGGAGTTGAAAGAGACCATGGAAAGTTTTGATGCTAGGATAAAGGCTTTAAAAAAAAATTCGAGGAAGCGCGAACTTATCTTTCCATGA
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

415

Amino Acids

46.8

Weight (kDa)

8.9

Isoelectric Point (pI)

37.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 68 - 155 1.9e-13 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)
AatII GACGTC 1 cut(s) 24
Acc16I TGCGCA 1 cut(s) 529
AccII CGCG 3 cut(s) 1026, 1028, 1227
AccIII TCCGGA 1 cut(s) 628
AciI CCGC 4 cut(s) 103, 686, 792, 1074
AclWI GGATC 1 cut(s) 141
AcoI YGGCCR 1 cut(s) 1071
AcsI RAATTY 1 cut(s) 1213
AcuI CTGAAG 2 cut(s) 507, 1055
AcyI GRCGYC 1 cut(s) 21
AfaI GTAC 3 cut(s) 461, 622, 1120
AfiI CCNNNNNNNGG 2 cut(s) 166, 652
AgsI TTSAA 9 cut(s) 225, 317, 448, 454, 514, 599, 725, 1149, 1165
AjnI CCWGG 2 cut(s) 60, 174
AjuI GAANNNNNNNTTGG 2 cut(s) 579, 611
AluBI AGCT 9 cut(s) 191, 485, 500, 634, 713, 932, 940, 997, 1153
AluI AGCT 9 cut(s) 191, 485, 500, 634, 713, 932, 940, 997, 1153
Alw21I GWGCWC 1 cut(s) 8
Alw26I GTCTC 3 cut(s) 12, 1024, 1163
AlwI GGATC 1 cut(s) 141
AlwNI CAGNNNCTG 2 cut(s) 716, 1045
Aor13HI TCCGGA 1 cut(s) 628
AoxI GGCC 2 cut(s) 440, 1071
ApeKI GCWGC 5 cut(s) 497, 713, 825, 884, 940
ApoI RAATTY 1 cut(s) 1213
ArsI GACNNNNNNTTYG 2 cut(s) 185, 217
AspLEI GCGC 4 cut(s) 530, 1026, 1028, 1227
AspS9I GGNCC 1 cut(s) 707
AsuHPI GGTGA 2 cut(s) 36, 742
AsuII TTCGAA 1 cut(s) 611
AvaII GGWCC 1 cut(s) 707
BauI CACGAG 2 cut(s) 573, 951
BbsI GAAGAC 2 cut(s) 478, 983
Bbv12I GWGCWC 1 cut(s) 8
BbvI GCAGC 5 cut(s) 509, 700, 812, 871, 927
BccI CCATC 2 cut(s) 79, 369
BciT130I CCWGG 2 cut(s) 62, 176
BcoDI GTCTC 3 cut(s) 12, 1024, 1163
BfaI CTAG 2 cut(s) 482, 1191
BfmI CTRYAG 1 cut(s) 774
BglII AGATCT 1 cut(s) 1138
BisI GCNGC 7 cut(s) 498, 687, 714, 826, 885, 941, 1074
BlpI GCTNAGC 1 cut(s) 7
BlsI GCNGC 7 cut(s) 499, 688, 715, 827, 886, 942, 1075
Bme1390I CCNGG 2 cut(s) 62, 176
Bme18I GGWCC 1 cut(s) 707
BmgT120I GGNCC 1 cut(s) 707
BmrFI CCNGG 2 cut(s) 62, 176
BmsI GCATC 3 cut(s) 283, 484, 1177
BpiI GAAGAC 2 cut(s) 478, 983
Bpu10I CCTNAGC 1 cut(s) 258
Bpu1102I GCTNAGC 1 cut(s) 7
Bpu14I TTCGAA 1 cut(s) 611
BsaHI GRCGYC 1 cut(s) 21
BsaI GGTCTC 1 cut(s) 1163
BsaJI CCNNGG 2 cut(s) 586, 1173
BsaWI WCCGGW 1 cut(s) 628
BsaXI ACNNNNNCTCC 4 cut(s) 80, 110, 659, 689
Bsc4I CCNNNNNNNGG 2 cut(s) 166, 652
Bse1I ACTGG 1 cut(s) 271
Bse3DI GCAATG 2 cut(s) 284, 1050
BseAI TCCGGA 1 cut(s) 628
BseBI CCWGG 2 cut(s) 62, 176
BseDI CCNNGG 2 cut(s) 586, 1173
BseGI GGATG 5 cut(s) 66, 171, 380, 661, 1015
BseLI CCNNNNNNNGG 2 cut(s) 166, 652
BseMI GCAATG 2 cut(s) 284, 1050
BseMII CTCAG 4 cut(s) 21, 85, 642, 1037
BseNI ACTGG 1 cut(s) 271
BsePI GCGCGC 1 cut(s) 1024
BseRI GAGGAG 2 cut(s) 558, 848
BseXI GCAGC 5 cut(s) 509, 700, 812, 871, 927
BsgI GTGCAG 1 cut(s) 390
Bsh1236I CGCG 3 cut(s) 1026, 1028, 1227
Bsh1285I CGRYCG 1 cut(s) 34
BshFI GGCC 2 cut(s) 442, 1073
BsiEI CGRYCG 1 cut(s) 34
BsiHKAI GWGCWC 1 cut(s) 8
BsiSI CCGG 1 cut(s) 629
BslI CCNNNNNNNGG 2 cut(s) 166, 652
BsmAI GTCTC 3 cut(s) 12, 1024, 1163
BsmBI CGTCTC 1 cut(s) 12
BsnI GGCC 2 cut(s) 442, 1073
Bso31I GGTCTC 1 cut(s) 1163
Bsp119I TTCGAA 1 cut(s) 611
Bsp1286I GDGCHC 1 cut(s) 8
Bsp13I TCCGGA 1 cut(s) 628
Bsp1407I TGTACA 1 cut(s) 459
Bsp143I GATC 3 cut(s) 133, 817, 1138
Bsp1720I GCTNAGC 1 cut(s) 7
Bsp19I CCATGG 1 cut(s) 1173
BspACI CCGC 4 cut(s) 103, 686, 792, 1074
BspANI GGCC 2 cut(s) 442, 1073
BspCNI CTCAG 4 cut(s) 20, 84, 643, 1038
BspEI TCCGGA 1 cut(s) 628
BspFNI CGCG 3 cut(s) 1026, 1028, 1227
BspHI TCATGA 1 cut(s) 136
BspPI GGATC 1 cut(s) 141
BspT104I TTCGAA 1 cut(s) 611
BspTNI GGTCTC 1 cut(s) 1163
BsrDI GCAATG 2 cut(s) 284, 1050
BsrGI TGTACA 1 cut(s) 459
BsrI ACTGG 1 cut(s) 271
BssECI CCNNGG 2 cut(s) 586, 1173
BssHII GCGCGC 1 cut(s) 1024
BssMI GATC 3 cut(s) 133, 817, 1138
BssNI GRCGYC 1 cut(s) 21
BssSI CACGAG 2 cut(s) 573, 951
BssT1I CCWWGG 2 cut(s) 586, 1173
Bst2BI CACGAG 2 cut(s) 573, 951
Bst2UI CCWGG 2 cut(s) 62, 176
Bst4CI ACNGT 1 cut(s) 875
Bst6I CTCTTC 1 cut(s) 101
BstACI GRCGYC 1 cut(s) 21
BstAUI TGTACA 1 cut(s) 459
BstBI TTCGAA 1 cut(s) 611
BstC8I GCNNGC 3 cut(s) 934, 938, 1026
BstDEI CTNAG 6 cut(s) 7, 71, 258, 651, 682, 1046
BstDSI CCRYGG 1 cut(s) 1173
BstF5I GGATG 5 cut(s) 66, 171, 380, 661, 1015
BstFNI CGCG 3 cut(s) 1026, 1028, 1227
BstHHI GCGC 4 cut(s) 530, 1026, 1028, 1227
BstKTI GATC 3 cut(s) 136, 820, 1141
BstMAI GTCTC 3 cut(s) 12, 1024, 1163
BstMBI GATC 3 cut(s) 133, 817, 1138
BstMCI CGRYCG 1 cut(s) 34
BstMWI GCNNNNNNNGC 3 cut(s) 536, 834, 929
BstNI CCWGG 2 cut(s) 62, 176
BstSCI CCNGG 2 cut(s) 60, 174
BstSFI CTRYAG 1 cut(s) 774
BstUI CGCG 3 cut(s) 1026, 1028, 1227
BstV1I GCAGC 5 cut(s) 509, 700, 812, 871, 927
BstV2I GAAGAC 2 cut(s) 478, 983
BstX2I RGATCY 1 cut(s) 1138
BstYI RGATCY 1 cut(s) 1138
BsuRI GGCC 2 cut(s) 442, 1073
BtgI CCRYGG 1 cut(s) 1173
BtgZI GCGATG 1 cut(s) 898
BtsCI GGATG 5 cut(s) 66, 171, 380, 661, 1015
BtsI GCAGTG 3 cut(s) 251, 546, 1046
BtsIMutI CAGTG 4 cut(s) 251, 373, 546, 1046
Cac8I GCNNGC 3 cut(s) 934, 938, 1026
CaiI CAGNNNCTG 2 cut(s) 716, 1045
CciI TCATGA 1 cut(s) 136
CfoI GCGC 4 cut(s) 530, 1026, 1028, 1227
Cfr13I GGNCC 1 cut(s) 707
Csp6I GTAC 3 cut(s) 460, 621, 1119
CviAII CATG 6 cut(s) 79, 137, 290, 848, 1174, 1242
CviQI GTAC 3 cut(s) 460, 621, 1119
DdeI CTNAG 6 cut(s) 7, 71, 258, 651, 682, 1046
DpnI GATC 3 cut(s) 135, 819, 1140
DpnII GATC 3 cut(s) 133, 817, 1138
DraI TTTAAA 1 cut(s) 1206
EaeI YGGCCR 1 cut(s) 1071
Eam1104I CTCTTC 1 cut(s) 101
EarI CTCTTC 1 cut(s) 101
Eco130I CCWWGG 2 cut(s) 586, 1173
Eco147I AGGCCT 1 cut(s) 442
Eco31I GGTCTC 1 cut(s) 1163
Eco47I GGWCC 1 cut(s) 707
Eco57I CTGAAG 2 cut(s) 507, 1055
EcoRII CCWGG 2 cut(s) 60, 174
EcoT14I CCWWGG 2 cut(s) 586, 1173
ErhI CCWWGG 2 cut(s) 586, 1173
Esp3I CGTCTC 1 cut(s) 12
FaeI CATG 6 cut(s) 82, 140, 293, 851, 1177, 1245
FatI CATG 6 cut(s) 78, 136, 289, 847, 1173, 1241
Fnu4HI GCNGC 7 cut(s) 498, 687, 714, 826, 885, 941, 1074
FokI GGATG 5 cut(s) 53, 158, 387, 668, 1022
Fsp4HI GCNGC 7 cut(s) 498, 687, 714, 826, 885, 941, 1074
FspBI CTAG 2 cut(s) 482, 1191
FspI TGCGCA 1 cut(s) 529
GlaI GCGC 4 cut(s) 529, 1025, 1027, 1226
GluI GCNGC 7 cut(s) 498, 687, 714, 826, 885, 941, 1074
HaeIII GGCC 2 cut(s) 442, 1073
HapII CCGG 1 cut(s) 629
HhaI GCGC 4 cut(s) 530, 1026, 1028, 1227
Hin1I GRCGYC 1 cut(s) 21
Hin1II CATG 6 cut(s) 82, 140, 293, 851, 1177, 1245
Hin6I GCGC 4 cut(s) 528, 1024, 1026, 1225
HinP1I GCGC 4 cut(s) 528, 1024, 1026, 1225
HindIII AAGCTT 1 cut(s) 1151
HinfI GANTC 4 cut(s) 122, 565, 1079, 1145
HpaII CCGG 1 cut(s) 629
HphI GGTGA 2 cut(s) 36, 742
Hpy166II GTNNAC 1 cut(s) 460
Hpy188I TCNGA 4 cut(s) 74, 652, 1047, 1159
Hpy188III TCNNGA 6 cut(s) 137, 167, 511, 629, 802, 1142
Hpy8I GTNNAC 1 cut(s) 460
HpyAV CCTTC 2 cut(s) 311, 1091
HpyCH4III ACNGT 1 cut(s) 875
HpyCH4IV ACGT 3 cut(s) 21, 220, 341
HpyCH4V TGCA 8 cut(s) 289, 296, 371, 395, 497, 847, 936, 970
HpyF10VI GCNNNNNNNGC 3 cut(s) 536, 834, 929
HpyF3I CTNAG 6 cut(s) 7, 71, 258, 651, 682, 1046
HpySE526I ACGT 3 cut(s) 21, 220, 341
Hsp92I GRCGYC 1 cut(s) 21
Hsp92II CATG 6 cut(s) 82, 140, 293, 851, 1177, 1245
HspAI GCGC 4 cut(s) 528, 1024, 1026, 1225
Kpn2I TCCGGA 1 cut(s) 628
Kzo9I GATC 3 cut(s) 133, 817, 1138
LmnI GCTCC 2 cut(s) 188, 631
Lsp1109I GCAGC 5 cut(s) 509, 700, 812, 871, 927
LweI GCATC 3 cut(s) 283, 484, 1177
MaeI CTAG 2 cut(s) 482, 1191
MaeII ACGT 3 cut(s) 21, 220, 341
MaeIII GTNAC 3 cut(s) 337, 402, 769
MalI GATC 3 cut(s) 135, 819, 1140
MboI GATC 3 cut(s) 133, 817, 1138
MboII GAAGA 5 cut(s) 118, 483, 737, 988, 1141
MflI RGATCY 1 cut(s) 1138
MhlI GDGCHC 1 cut(s) 8
MluCI AATT 4 cut(s) 263, 614, 745, 1213
MlyI GAGTC 2 cut(s) 116, 559
MmeI TCCRAC 2 cut(s) 702, 994
MroI TCCGGA 1 cut(s) 628
MseI TTAA 3 cut(s) 129, 302, 1205
MslI CAYNNNNRTG 2 cut(s) 83, 758
MspA1I CMGCKG 1 cut(s) 713
MspI CCGG 1 cut(s) 629
MspR9I CCNGG 2 cut(s) 62, 176
MvaI CCWGG 2 cut(s) 62, 176
MvnI CGCG 3 cut(s) 1026, 1028, 1227
MwoI GCNNNNNNNGC 3 cut(s) 536, 834, 929
NcoI CCATGG 1 cut(s) 1173
NdeII GATC 3 cut(s) 133, 817, 1138
NlaIII CATG 6 cut(s) 82, 140, 293, 851, 1177, 1245
NmuCI GTSAC 2 cut(s) 337, 769
NsbI TGCGCA 1 cut(s) 529
NspV TTCGAA 1 cut(s) 611
PagI TCATGA 1 cut(s) 136
PauI GCGCGC 1 cut(s) 1024
PceI AGGCCT 1 cut(s) 442
PcsI WCGNNNNNNNCGW 1 cut(s) 27
PfeI GAWTC 2 cut(s) 1079, 1145
PflFI GACNNNGTC 2 cut(s) 197, 477
PkrI GCNGC 7 cut(s) 499, 688, 715, 827, 886, 942, 1075
PleI GAGTC 2 cut(s) 116, 559
PpsI GAGTC 2 cut(s) 116, 559
Psp6I CCWGG 2 cut(s) 60, 174
PspGI CCWGG 2 cut(s) 60, 174
PspPI GGNCC 1 cut(s) 707
PstNI CAGNNNCTG 2 cut(s) 716, 1045
PsuI RGATCY 1 cut(s) 1138
PsyI GACNNNGTC 2 cut(s) 197, 477
PteI GCGCGC 1 cut(s) 1024
PvuII CAGCTG 1 cut(s) 713
RsaI GTAC 3 cut(s) 461, 622, 1120
RsaNI GTAC 3 cut(s) 460, 621, 1119
RseI CAYNNNNRTG 2 cut(s) 83, 758
SaqAI TTAA 3 cut(s) 129, 302, 1205
SatI GCNGC 7 cut(s) 498, 687, 714, 826, 885, 941, 1074
Sau3AI GATC 3 cut(s) 133, 817, 1138
Sau96I GGNCC 1 cut(s) 707
SchI GAGTC 2 cut(s) 116, 559
ScrFI CCNGG 2 cut(s) 62, 176
SduI GDGCHC 1 cut(s) 8
SfaNI GCATC 3 cut(s) 283, 484, 1177
SfcI CTRYAG 1 cut(s) 774
SfuI TTCGAA 1 cut(s) 611
SinI GGWCC 1 cut(s) 707
SmiMI CAYNNNNRTG 2 cut(s) 83, 758
Sse9I AATT 4 cut(s) 263, 614, 745, 1213
SseBI AGGCCT 1 cut(s) 442
SsiI CCGC 4 cut(s) 103, 686, 792, 1074
SspMI CTAG 2 cut(s) 482, 1191
StuI AGGCCT 1 cut(s) 442
StyD4I CCNGG 2 cut(s) 60, 174
StyI CCWWGG 2 cut(s) 586, 1173
TaaI ACNGT 1 cut(s) 875
TaiI ACGT 3 cut(s) 24, 223, 344
TaqI TCGA 5 cut(s) 120, 309, 611, 703, 1217
TaqII GACCGA 1 cut(s) 48
TasI AATT 4 cut(s) 263, 614, 745, 1213
TatI WGTACW 1 cut(s) 459
TauI GCSGC 2 cut(s) 689, 1076
TfiI GAWTC 2 cut(s) 1079, 1145
Tru1I TTAA 3 cut(s) 129, 302, 1205
Tru9I TTAA 3 cut(s) 129, 302, 1205
TscAI CASTG 4 cut(s) 258, 373, 546, 1046
TseFI GTSAC 2 cut(s) 337, 769
TseI GCWGC 5 cut(s) 497, 713, 825, 884, 940
Tsp45I GTSAC 2 cut(s) 337, 769
TspDTI ATGAA 2 cut(s) 153, 533
TspGWI ACGGA 1 cut(s) 419
TspRI CASTG 4 cut(s) 258, 373, 546, 1046
Tth111I GACNNNGTC 2 cut(s) 197, 477
VpaK11BI GGWCC 1 cut(s) 707
XapI RAATTY 1 cut(s) 1213
XcmI CCANNNNNNNNNTGG 2 cut(s) 182, 1066
XspI CTAG 2 cut(s) 482, 1191
ZraI GACGTC 1 cut(s) 22
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.