RLG00000003438

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0017669
Physical Location & Seq
Forward (+)
48495361 .. 48496293
933 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000003438

Sequence Viewer

Length: 933 bp
ATGGATGTCAGTTCTGACTCAACAATAGAGATGGTGGTGCAAGATCAAAACTTGCCTCCGACCTCTCCATCTCATCAGAATAGATGTACGAGCAGCAGTCAACAAGGTTCTTCCTCCTCTAAACTCAAAGGAGTGATACCACTGAAAGGTGGTATGTGGGGGGCAAGGATCACCTATAACTACAAGAGATACAGCCTTGGGACATATGAAACAGAGATCGAGGCAGCTAAAGCATATGATAGAGCTGCAGTCAAGATGCCGCGAGCTCATTCCCTAAACTTCCACCGGAGTAATTACAGTGTAGAAGAGAGTGCTTTCCAAAGTCAGTGCTCAATTGAGGAAGTTCTGAGGATGTTGCAGAATAAAACGTACTCATCGATGCTTCAGAATTTTATTTTGAATCATTCAACTTGTGTTGGATTTCATGCAGAAGCCTTCATGAAGGAACAGGGGATTTCATATGACTTTCTCTTTAAGAAGGAACTGAGTCATATGGATGTCACTCACAAGTGCTTCCTGGTTCAAGGGGATTATGCATCACTACATTCCCCCCCAATAGGAGATGAAGGCTGGCATAGCTTTGCCACTTTGCATGACATACATCGCCGTTCATGGACATTTGGATGTTCATATTGGCAGAGTACGGAAAGCTTTATTTTTACTAGTGGCTGGGGAGACTTTCTCGAGATGTATAACCTGCAAGAGAAAGACACAATAATAATTTACAGATGCCGGTACCAAGGGGATGATGCTGTTGGGAGAAAATTTCACTTGATAAATGTGCTGAGAAGTACTGCAAAAAATTCTGTTGGTATGACTACAGAGCAAGATGTAGGTTTGAGAGGAAGCTTGAACAAGGAGTTGGAAGCTGATTGCACAAGTGAGGTGAAAAAGAGAGGGTTTAAGCTCTTTGGTGTTGAGATTAGTGGTTAA
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
AP2 B3

Protein Analysis

311

Amino Acids

35.17

Weight (kDa)

6.63

Isoelectric Point (pI)

53.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 158 - 244 2.3e-09 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: OG0017669)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g19881 FvH4_6g29430
prunus_persica Prupe.5G061400_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0204681
rosa_laevigata RLG00000003438
rosa_multiflora Rmu_sc0007104.1_g000008
rosa_rugosa Rorug07G0085600
rosa_samantha Rh7AG215500 Rh7BG212700 Rh7CG228600 Rh7DG223200
rosa_wichuraiana Rw7G018680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 705
Acc65I GGTACC 1 cut(s) 735
AccB1I GGYRCC 1 cut(s) 735
AccII CGCG 1 cut(s) 262
AciI CCGC 1 cut(s) 260
AclWI GGATC 1 cut(s) 176
AcsI RAATTY 3 cut(s) 388, 764, 802
AcuI CTGAAG 1 cut(s) 368
AfaI GTAC 5 cut(s) 88, 371, 643, 737, 793
AfiI CCNNNNNNNGG 2 cut(s) 146, 557
AgsI TTSAA 4 cut(s) 400, 408, 524, 853
AhlI ACTAGT 1 cut(s) 662
AjnI CCWGG 1 cut(s) 516
AjuI GAANNNNNNNTTGG 2 cut(s) 845, 877
AluBI AGCT 8 cut(s) 227, 245, 266, 579, 651, 849, 869, 907
AluI AGCT 8 cut(s) 227, 245, 266, 579, 651, 849, 869, 907
Alw21I GWGCWC 2 cut(s) 268, 332
Alw26I GTCTC 1 cut(s) 669
AlwI GGATC 1 cut(s) 176
Ama87I CYCGRG 1 cut(s) 683
ApeKI GCWGC 3 cut(s) 93, 224, 245
ApoI RAATTY 3 cut(s) 388, 764, 802
Asp718I GGTACC 1 cut(s) 735
AsuHPI GGTGA 2 cut(s) 163, 898
AvaI CYCGRG 1 cut(s) 683
BanI GGYRCC 1 cut(s) 735
BanII GRGCYC 1 cut(s) 268
Bbv12I GWGCWC 2 cut(s) 268, 332
BbvI GCAGC 3 cut(s) 105, 232, 236
BccI CCATC 2 cut(s) 25, 76
BceAI ACGGC 1 cut(s) 591
BciT130I CCWGG 1 cut(s) 518
BcoDI GTCTC 1 cut(s) 669
BcuI ACTAGT 1 cut(s) 662
BfaI CTAG 1 cut(s) 663
BfmI CTRYAG 2 cut(s) 246, 819
BfuAI ACCTGC 1 cut(s) 705
BisI GCNGC 4 cut(s) 94, 225, 246, 260
BlsI GCNGC 4 cut(s) 95, 226, 247, 261
BmcAI AGTACT 1 cut(s) 793
Bme1390I CCNGG 1 cut(s) 518
BmeT110I CYCGRG 1 cut(s) 683
BmiI GGNNCC 1 cut(s) 737
BmrFI CCNGG 1 cut(s) 518
BmsI GCATC 5 cut(s) 246, 369, 545, 719, 739
BplI GAGNNNNNCTC 2 cut(s) 666, 698
Bsa29I ATCGAT 1 cut(s) 377
BsaJI CCNNGG 2 cut(s) 196, 739
BsaWI WCCGGW 1 cut(s) 285
Bsc4I CCNNNNNNNGG 2 cut(s) 146, 557
Bse118I RCCGGY 1 cut(s) 732
BseBI CCWGG 1 cut(s) 518
BseCI ATCGAT 1 cut(s) 377
BseDI CCNNGG 2 cut(s) 196, 739
BseGI GGATG 5 cut(s) 10, 357, 502, 629, 751
BseLI CCNNNNNNNGG 2 cut(s) 146, 557
BseMII CTCAG 3 cut(s) 338, 476, 776
BseRI GAGGAG 1 cut(s) 106
BseXI GCAGC 3 cut(s) 105, 232, 236
BseYI CCCAGC 1 cut(s) 669
Bsh1236I CGCG 1 cut(s) 262
BshNI GGYRCC 1 cut(s) 735
BshVI ATCGAT 1 cut(s) 377
BsiHKAI GWGCWC 2 cut(s) 268, 332
BsiHKCI CYCGRG 1 cut(s) 683
BsiSI CCGG 2 cut(s) 286, 733
BslFI GGGAC 1 cut(s) 214
BslI CCNNNNNNNGG 2 cut(s) 146, 557
BsmAI GTCTC 1 cut(s) 669
BsmFI GGGAC 1 cut(s) 214
BsoBI CYCGRG 1 cut(s) 683
Bsp1286I GDGCHC 2 cut(s) 268, 332
Bsp143I GATC 3 cut(s) 43, 168, 216
BspACI CCGC 1 cut(s) 260
BspCNI CTCAG 3 cut(s) 339, 477, 777
BspDI ATCGAT 1 cut(s) 377
BspFNI CGCG 1 cut(s) 262
BspHI TCATGA 1 cut(s) 438
BspLI GGNNCC 1 cut(s) 737
BspMAI CTGCAG 1 cut(s) 250
BspMI ACCTGC 1 cut(s) 705
BspPI GGATC 1 cut(s) 176
BspT107I GGYRCC 1 cut(s) 735
BsrFI RCCGGY 1 cut(s) 732
BssAI RCCGGY 1 cut(s) 732
BssECI CCNNGG 2 cut(s) 196, 739
BssMI GATC 3 cut(s) 43, 168, 216
BssT1I CCWWGG 2 cut(s) 196, 739
Bst2UI CCWGG 1 cut(s) 518
Bst4CI ACNGT 1 cut(s) 299
Bst6I CTCTTC 1 cut(s) 300
BstC8I GCNNGC 2 cut(s) 264, 572
BstDEI CTNAG 3 cut(s) 347, 485, 785
BstF5I GGATG 5 cut(s) 10, 357, 502, 629, 751
BstFNI CGCG 1 cut(s) 262
BstKTI GATC 3 cut(s) 46, 171, 219
BstMAI GTCTC 1 cut(s) 669
BstMBI GATC 3 cut(s) 43, 168, 216
BstMWI GCNNNNNNNGC 2 cut(s) 230, 576
BstNI CCWGG 1 cut(s) 518
BstSCI CCNGG 1 cut(s) 516
BstSFI CTRYAG 2 cut(s) 246, 819
BstUI CGCG 1 cut(s) 262
BstV1I GCAGC 3 cut(s) 105, 232, 236
Bsu15I ATCGAT 1 cut(s) 377
BsuTUI ATCGAT 1 cut(s) 377
BtgZI GCGATG 1 cut(s) 587
BtsCI GGATG 5 cut(s) 10, 357, 502, 629, 751
BtsIMutI CAGTG 3 cut(s) 140, 304, 332
BveI ACCTGC 1 cut(s) 705
Cac8I GCNNGC 2 cut(s) 264, 572
CciI TCATGA 1 cut(s) 438
Cfr10I RCCGGY 1 cut(s) 732
ClaI ATCGAT 1 cut(s) 377
Csp6I GTAC 5 cut(s) 87, 370, 642, 736, 792
CviAII CATG 4 cut(s) 425, 439, 593, 612
CviQI GTAC 5 cut(s) 87, 370, 642, 736, 792
DdeI CTNAG 3 cut(s) 347, 485, 785
DpnI GATC 3 cut(s) 45, 170, 218
DpnII GATC 3 cut(s) 43, 168, 216
Eam1104I CTCTTC 1 cut(s) 300
EarI CTCTTC 1 cut(s) 300
Ecl136II GAGCTC 1 cut(s) 266
Eco130I CCWWGG 2 cut(s) 196, 739
Eco24I GRGCYC 1 cut(s) 268
Eco53kI GAGCTC 1 cut(s) 266
Eco57I CTGAAG 1 cut(s) 368
Eco88I CYCGRG 1 cut(s) 683
EcoICRI GAGCTC 1 cut(s) 266
EcoRII CCWGG 1 cut(s) 516
EcoT14I CCWWGG 2 cut(s) 196, 739
EcoT22I ATGCAT 1 cut(s) 538
EcoT38I GRGCYC 1 cut(s) 268
ErhI CCWWGG 2 cut(s) 196, 739
FaeI CATG 4 cut(s) 428, 442, 596, 615
FaqI GGGAC 1 cut(s) 214
FatI CATG 4 cut(s) 424, 438, 592, 611
FauNDI CATATG 4 cut(s) 205, 235, 460, 492
Fnu4HI GCNGC 4 cut(s) 94, 225, 246, 260
FokI GGATG 5 cut(s) 17, 364, 509, 636, 758
FriOI GRGCYC 1 cut(s) 268
Fsp4HI GCNGC 4 cut(s) 94, 225, 246, 260
FspBI CTAG 1 cut(s) 663
GluI GCNGC 4 cut(s) 94, 225, 246, 260
GsaI CCCAGC 1 cut(s) 673
HapII CCGG 2 cut(s) 286, 733
Hin1II CATG 4 cut(s) 428, 442, 596, 615
HincII GTYRAC 1 cut(s) 101
HindII GTYRAC 1 cut(s) 101
HindIII AAGCTT 2 cut(s) 649, 847
HinfI GANTC 3 cut(s) 17, 400, 487
HpaII CCGG 2 cut(s) 286, 733
HphI GGTGA 2 cut(s) 163, 898
Hpy166II GTNNAC 1 cut(s) 101
Hpy188I TCNGA 5 cut(s) 16, 60, 78, 348, 387
Hpy188III TCNNGA 4 cut(s) 253, 439, 683, 685
Hpy8I GTNNAC 1 cut(s) 101
HpyAV CCTTC 4 cut(s) 436, 445, 472, 560
HpyCH4III ACNGT 1 cut(s) 299
HpyCH4IV ACGT 1 cut(s) 368
HpyCH4V TGCA 9 cut(s) 40, 248, 358, 428, 536, 592, 700, 797, 876
HpyF10VI GCNNNNNNNGC 2 cut(s) 230, 576
HpyF3I CTNAG 3 cut(s) 347, 485, 785
HpySE526I ACGT 1 cut(s) 368
Hsp92II CATG 4 cut(s) 428, 442, 596, 615
KpnI GGTACC 1 cut(s) 739
Kzo9I GATC 3 cut(s) 43, 168, 216
LpnPI CCDG 8 cut(s) 299, 434, 503, 530, 556, 655, 710, 746
Lsp1109I GCAGC 3 cut(s) 105, 232, 236
LweI GCATC 5 cut(s) 246, 369, 545, 719, 739
MaeI CTAG 1 cut(s) 663
MaeII ACGT 1 cut(s) 368
MaeIII GTNAC 1 cut(s) 499
MalI GATC 3 cut(s) 45, 170, 218
MboI GATC 3 cut(s) 43, 168, 216
MboII GAAGA 2 cut(s) 102, 317
MfeI CAATTG 1 cut(s) 333
MhlI GDGCHC 2 cut(s) 268, 332
MluCI AATT 6 cut(s) 292, 333, 388, 720, 764, 802
MlyI GAGTC 2 cut(s) 11, 496
MmeI TCCRAC 3 cut(s) 83, 397, 843
Mph1103I ATGCAT 1 cut(s) 538
MseI TTAA 3 cut(s) 474, 903, 931
MslI CAYNNNNRTG 2 cut(s) 495, 622
MspI CCGG 2 cut(s) 286, 733
MspR9I CCNGG 1 cut(s) 518
MunI CAATTG 1 cut(s) 333
MvaI CCWGG 1 cut(s) 518
MvnI CGCG 1 cut(s) 262
MwoI GCNNNNNNNGC 2 cut(s) 230, 576
NdeI CATATG 4 cut(s) 205, 235, 460, 492
NdeII GATC 3 cut(s) 43, 168, 216
NlaIII CATG 4 cut(s) 428, 442, 596, 615
NlaIV GGNNCC 1 cut(s) 737
NmuCI GTSAC 1 cut(s) 499
NsiI ATGCAT 1 cut(s) 538
PaeR7I CTCGAG 1 cut(s) 683
PagI TCATGA 1 cut(s) 438
PcsI WCGNNNNNNNCGW 1 cut(s) 374
PfeI GAWTC 1 cut(s) 400
PkrI GCNGC 4 cut(s) 95, 226, 247, 261
PleI GAGTC 2 cut(s) 11, 495
PpsI GAGTC 2 cut(s) 11, 495
Psp124BI GAGCTC 1 cut(s) 268
Psp6I CCWGG 1 cut(s) 516
PspFI CCCAGC 1 cut(s) 669
PspGI CCWGG 1 cut(s) 516
PspN4I GGNNCC 1 cut(s) 737
PstI CTGCAG 1 cut(s) 250
RsaI GTAC 5 cut(s) 88, 371, 643, 737, 793
RsaNI GTAC 5 cut(s) 87, 370, 642, 736, 792
RseI CAYNNNNRTG 2 cut(s) 495, 622
SacI GAGCTC 1 cut(s) 268
SaqAI TTAA 3 cut(s) 474, 903, 931
SatI GCNGC 4 cut(s) 94, 225, 246, 260
Sau3AI GATC 3 cut(s) 43, 168, 216
ScaI AGTACT 1 cut(s) 793
SchI GAGTC 2 cut(s) 11, 496
ScrFI CCNGG 1 cut(s) 518
SduI GDGCHC 2 cut(s) 268, 332
SfaNI GCATC 5 cut(s) 246, 369, 545, 719, 739
SfcI CTRYAG 2 cut(s) 246, 819
Sfr274I CTCGAG 1 cut(s) 683
SlaI CTCGAG 1 cut(s) 683
SmiMI CAYNNNNRTG 2 cut(s) 495, 622
SmlI CTYRAG 1 cut(s) 683
SmoI CTYRAG 1 cut(s) 683
SpeI ACTAGT 1 cut(s) 662
Sse9I AATT 6 cut(s) 292, 333, 388, 720, 764, 802
SsiI CCGC 1 cut(s) 260
SspMI CTAG 1 cut(s) 663
SstI GAGCTC 1 cut(s) 268
StyD4I CCNGG 1 cut(s) 516
StyI CCWWGG 2 cut(s) 196, 739
TaaI ACNGT 1 cut(s) 299
TaiI ACGT 1 cut(s) 371
TaqI TCGA 3 cut(s) 219, 377, 684
TasI AATT 6 cut(s) 292, 333, 388, 720, 764, 802
TatI WGTACW 1 cut(s) 791
TauI GCSGC 1 cut(s) 262
TfiI GAWTC 1 cut(s) 400
Tru1I TTAA 3 cut(s) 474, 903, 931
Tru9I TTAA 3 cut(s) 474, 903, 931
TscAI CASTG 3 cut(s) 147, 304, 332
TseFI GTSAC 1 cut(s) 499
TseI GCWGC 3 cut(s) 93, 224, 245
Tsp45I GTSAC 1 cut(s) 499
TspDTI ATGAA 8 cut(s) 222, 413, 427, 447, 455, 579, 600, 618
TspGWI ACGGA 1 cut(s) 659
TspRI CASTG 3 cut(s) 147, 304, 332
XapI RAATTY 3 cut(s) 388, 764, 802
XhoI CTCGAG 1 cut(s) 683
XspI CTAG 1 cut(s) 663
ZrmI AGTACT 1 cut(s) 793
Zsp2I ATGCAT 1 cut(s) 538
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.