RLG00000014540

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000235
Physical Location & Seq
Forward (+)
54495747 .. 54497223
1477 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000014540

Sequence Viewer

Length: 762 bp
ATGGCAACAAGAACATTTGAGAATGGTGTTGAGGAGAAGACGGGGCCAACCTTCTGCACATTTTTATCTCCTGGAATCAGCAACGAGATTTTGAAATTCCCACAAAATTTCCAGAAGCATATATTGAATGAGCTCTCAGAGTTGGCTCTTTTGAAGATAAAAGATTCCTTACATTGTTCATGGAACATTAGAGTACATCAAACTGGAAGCTGTATTTATCTGAAGGAAGGCTGGAGAGAGTTTTTAGAAGATCATTCAATTGGTGACGGTGAGTTTTTGATAGTCAGATATGATGGACGTATGCAATTCAGTATACAGATATTTGACAAGAATCATGTTGAGAGGGTCAACTTTCCTGATACCGAAACACATGATAAAAATCGGACTTTTCCTAACAATTCAGAGCTCAATGGAGGGGAAGAAGATTACCAACACTATAGAGCTCGGGAAAATGCTAAGCAGTTCAAATCCAAGTTCCCAGCAGTGGCAATCACTATCGGAAACAGTATTTATTATGCGGGATTTCCCACAGAATGGTGTAGGAAGTATTTACCAGCAAACAACTACAAATTTTTGCTGAGAAATGCAGAAGATTTAGAGGGAAGAACATGGGAAGTGAATGGTGTTCCTACCAATGATAGGGTCATGTTATCTGCAGGGTGGGCTGCTTTTCTACGGGCTAACCAAGTCAAGAAAGGAGATGTTTGCTGGCTTGAGCTCGAGAGTAAAAGCAAGATGGTGGCTCACATAATTCGGAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0007275 GO:0008150 GO:0009553 GO:0009566 GO:0009567 GO:0019953 GO:0022414 GO:0032501 GO:0032502 GO:0044703 GO:0048229 GO:0048856 GO:0051704
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
B3

Protein Analysis

254

Amino Acids

29.35

Weight (kDa)

7.09

Isoelectric Point (pI)

38.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 18 - 111 4.4e-12 B3 DNA binding domain
B3 PF02362 175 - 252 3.5e-10 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: OG0000235)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g22700 FvH4_2g06920 FvH4_2g06920 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06970 FvH4_2g06970 FvH4_2g07230 FvH4_2g07231 FvH4_2g07231 FvH4_2g07240 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_4g19990 FvH4_4g19990 FvH4_4g19990 FvH4_4g20070
malus_domestica MD05G1072700.v1.1
prunus_persica Prupe.8G113100_v2.0.a1
pyrus_communis pycom05g06500 pycom10g06950
rosa_chinensis RchiOBHm_Chr4g0425711 RchiOBHm_Chr6g0259241 RchiOBHm_Chr6g0259251 RchiOBHm_Chr6g0259321 RchiOBHm_Chr6g0259331 RchiOBHm_Chr6g0259781 RchiOBHm_Chr6g0259791 RchiOBHm_Chr6g0259811 RchiOBHm_Chr6g0259881 RchiOBHm_Chr6g0259931
rosa_laevigata RLG00000007345 RLG00000014500 RLG00000014501 RLG00000014505 RLG00000014506 RLG00000014507 RLG00000014539 RLG00000014540 RLG00000014545 RLG00000014546
rosa_multiflora Rmu_co8137334.1_g000001 Rmu_co8454279.1_g000001 Rmu_co8476373.1_g000001 Rmu_sc0001078.1_g000001 Rmu_sc0003958.1_g000011 Rmu_sc0009049.1_g000001 Rmu_sc0009049.1_g000009 Rmu_sc0010546.1_g000001 Rmu_sc0011974.1_g000002 Rmu_sc0011974.1_g000003 Rmu_sc0033846.1_g000001 Rmu_sc0036999.1_g000001 Rmu_ssc0000052.1_g000015
rosa_roxburghii Rroxscaffold_5G00367690 Rroxscaffold_7G00206530 Rroxscaffold_7G00206540 Rroxscaffold_7G00206560 Rroxscaffold_7G00206570 Rroxscaffold_7G00207020 Rroxscaffold_7G00207030 Rroxscaffold_7G00207150 Rroxscaffold_7G00207160 Rroxscaffold_7G00207170 Rroxscaffold_7G00207270
rosa_rugosa Rorug04G0205300 Rorug05G0586300 Rorug05G0586400 Rorug05G0586500 Rorug05G0586600 Rorug05G0586700 Rorug05G0587300 Rorug05G0587400 Rorug05G0587500 Rorug05G0587600 Rorug05G0590500 Rorug05G0590600 Rorug05G0591200 Rorug05G0591300 Rorug05G0591400 Rorug05G0591500
rosa_samantha Rh4AG262200 Rh4BG268500 Rh4CG279700 Rh4DG264100 Rh6AG103100 Rh6AG103600 Rh6AG107100 Rh6AG107200 Rh6AG107700 Rh6BG095400 Rh6BG095500 Rh6BG095900 Rh6BG096000 Rh6BG096800 Rh6BG102600 Rh6BG102700 Rh6BG102800 Rh6BG103800 Rh6CG092300 Rh6CG092400 Rh6CG092800 Rh6CG092900 Rh6CG096200 Rh6CG096300 Rh6CG096800 Rh6CG097100 Rh6DG086300 Rh6DG086400 Rh6DG086700 Rh6DG086800 Rh6DG090000 Rh6DG090100 Rh6DG090500 Rh6DG090800
rosa_wichuraiana Rw4G022670 Rw6G008900 Rw6G008940 Rw6G009250 Rw6G009280 Rw6G009330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 534
AccI GTMKAC 1 cut(s) 313
AciI CCGC 1 cut(s) 518
AcsI RAATTY 3 cut(s) 95, 106, 569
AcuI CTGAAG 1 cut(s) 242
AfaI GTAC 1 cut(s) 195
AfiI CCNNNNNNNGG 3 cut(s) 484, 534, 639
AgsI TTSAA 5 cut(s) 94, 127, 154, 258, 466
AjnI CCWGG 1 cut(s) 70
AluBI AGCT 5 cut(s) 133, 210, 406, 443, 718
AluI AGCT 5 cut(s) 133, 210, 406, 443, 718
Alw21I GWGCWC 4 cut(s) 135, 408, 445, 720
Ama87I CYCGRG 2 cut(s) 444, 719
AoxI GGCC 1 cut(s) 44
ApeKI GCWGC 1 cut(s) 665
ApoI RAATTY 3 cut(s) 95, 106, 569
AspS9I GGNCC 1 cut(s) 44
AsuHPI GGTGA 2 cut(s) 275, 281
AvaI CYCGRG 2 cut(s) 444, 719
BanII GRGCYC 4 cut(s) 135, 408, 445, 720
BbsI GAAGAC 1 cut(s) 44
Bbv12I GWGCWC 4 cut(s) 135, 408, 445, 720
BbvI GCAGC 1 cut(s) 652
BccI CCATC 2 cut(s) 287, 730
BciT130I CCWGG 1 cut(s) 72
BfmI CTRYAG 2 cut(s) 436, 654
BisI GCNGC 1 cut(s) 666
BlpI GCTNAGC 1 cut(s) 456
BlsI GCNGC 1 cut(s) 667
Bme1390I CCNGG 1 cut(s) 72
BmeT110I CYCGRG 2 cut(s) 444, 719
BmgT120I GGNCC 1 cut(s) 44
BmiI GGNNCC 1 cut(s) 45
BmrFI CCNGG 1 cut(s) 72
BpiI GAAGAC 1 cut(s) 44
BpmI CTGGAG 1 cut(s) 253
Bpu1102I GCTNAGC 1 cut(s) 456
BpuEI CTTGAG 1 cut(s) 734
BsaBI GATNNNNATC 1 cut(s) 378
Bsc4I CCNNNNNNNGG 3 cut(s) 484, 534, 639
Bse1I ACTGG 1 cut(s) 208
Bse8I GATNNNNATC 1 cut(s) 378
BseBI CCWGG 1 cut(s) 72
BseJI GATNNNNATC 1 cut(s) 378
BseLI CCNNNNNNNGG 3 cut(s) 484, 534, 639
BseMII CTCAG 2 cut(s) 150, 569
BseNI ACTGG 1 cut(s) 208
BseRI GAGGAG 1 cut(s) 47
BseXI GCAGC 1 cut(s) 652
BseYI CCCAGC 1 cut(s) 478
BsgI GTGCAG 1 cut(s) 40
BshFI GGCC 1 cut(s) 46
BsiHKAI GWGCWC 4 cut(s) 135, 408, 445, 720
BsiHKCI CYCGRG 2 cut(s) 444, 719
BslI CCNNNNNNNGG 3 cut(s) 484, 534, 639
BsnI GGCC 1 cut(s) 46
BsoBI CYCGRG 2 cut(s) 444, 719
Bsp1286I GDGCHC 4 cut(s) 135, 408, 445, 720
Bsp143I GATC 1 cut(s) 250
Bsp1720I GCTNAGC 1 cut(s) 456
BspACI CCGC 1 cut(s) 518
BspANI GGCC 1 cut(s) 46
BspCNI CTCAG 2 cut(s) 149, 570
BspLI GGNNCC 1 cut(s) 45
BspMAI CTGCAG 1 cut(s) 658
BsrI ACTGG 1 cut(s) 208
BssMI GATC 1 cut(s) 250
BssNAI GTATAC 1 cut(s) 314
Bst1107I GTATAC 1 cut(s) 314
Bst2UI CCWGG 1 cut(s) 72
Bst4CI ACNGT 2 cut(s) 269, 506
BstC8I GCNNGC 1 cut(s) 710
BstDEI CTNAG 3 cut(s) 136, 456, 578
BstKTI GATC 1 cut(s) 253
BstMBI GATC 1 cut(s) 250
BstMWI GCNNNNNNNGC 1 cut(s) 662
BstNI CCWGG 1 cut(s) 72
BstSCI CCNGG 1 cut(s) 70
BstSFI CTRYAG 2 cut(s) 436, 654
BstV1I GCAGC 1 cut(s) 652
BstV2I GAAGAC 1 cut(s) 44
BstZ17I GTATAC 1 cut(s) 314
BsuRI GGCC 1 cut(s) 46
BtsI GCAGTG 1 cut(s) 489
BtsIMutI CAGTG 1 cut(s) 489
Cac8I GCNNGC 1 cut(s) 710
Cfr13I GGNCC 1 cut(s) 44
Csp6I GTAC 1 cut(s) 194
CviAII CATG 5 cut(s) 180, 335, 371, 609, 646
CviQI GTAC 1 cut(s) 194
DdeI CTNAG 3 cut(s) 136, 456, 578
DpnI GATC 1 cut(s) 252
DpnII GATC 1 cut(s) 250
Ecl136II GAGCTC 4 cut(s) 133, 406, 443, 718
Eco24I GRGCYC 4 cut(s) 135, 408, 445, 720
Eco53kI GAGCTC 4 cut(s) 133, 406, 443, 718
Eco57I CTGAAG 1 cut(s) 242
Eco88I CYCGRG 2 cut(s) 444, 719
EcoICRI GAGCTC 4 cut(s) 133, 406, 443, 718
EcoRII CCWGG 1 cut(s) 70
EcoT38I GRGCYC 4 cut(s) 135, 408, 445, 720
FaeI CATG 5 cut(s) 183, 338, 374, 612, 649
FatI CATG 5 cut(s) 179, 334, 370, 608, 645
FauI CCCGC 1 cut(s) 511
FblI GTMKAC 1 cut(s) 313
Fnu4HI GCNGC 1 cut(s) 666
FriOI GRGCYC 4 cut(s) 135, 408, 445, 720
Fsp4HI GCNGC 1 cut(s) 666
GluI GCNGC 1 cut(s) 666
GsaI CCCAGC 1 cut(s) 482
GsuI CTGGAG 1 cut(s) 253
HaeIII GGCC 1 cut(s) 46
Hin1II CATG 5 cut(s) 183, 338, 374, 612, 649
HincII GTYRAC 1 cut(s) 349
HindII GTYRAC 1 cut(s) 349
HinfI GANTC 3 cut(s) 75, 164, 331
HphI GGTGA 2 cut(s) 275, 281
Hpy166II GTNNAC 2 cut(s) 314, 349
Hpy188I TCNGA 7 cut(s) 139, 222, 287, 384, 403, 500, 756
Hpy188III TCNNGA 5 cut(s) 112, 356, 446, 691, 721
Hpy8I GTNNAC 2 cut(s) 314, 349
HpyAV CCTTC 3 cut(s) 61, 217, 221
HpyCH4III ACNGT 2 cut(s) 269, 506
HpyCH4IV ACGT 1 cut(s) 298
HpyCH4V TGCA 4 cut(s) 57, 304, 587, 656
HpyF10VI GCNNNNNNNGC 1 cut(s) 662
HpyF3I CTNAG 3 cut(s) 136, 456, 578
HpySE526I ACGT 1 cut(s) 298
Hsp92II CATG 5 cut(s) 183, 338, 374, 612, 649
Kzo9I GATC 1 cut(s) 250
Lsp1109I GCAGC 1 cut(s) 652
MaeII ACGT 1 cut(s) 298
MaeIII GTNAC 1 cut(s) 263
MalI GATC 1 cut(s) 252
MboI GATC 1 cut(s) 250
MboII GAAGA 7 cut(s) 49, 166, 260, 431, 434, 602, 615
MfeI CAATTG 1 cut(s) 258
MhlI GDGCHC 4 cut(s) 135, 408, 445, 720
MluCI AATT 7 cut(s) 95, 106, 258, 305, 397, 569, 750
MnlI CCTC 4 cut(s) 25, 336, 407, 592
MspR9I CCNGG 1 cut(s) 72
MunI CAATTG 1 cut(s) 258
MvaI CCWGG 1 cut(s) 72
MwoI GCNNNNNNNGC 1 cut(s) 662
NdeII GATC 1 cut(s) 250
NlaIII CATG 5 cut(s) 183, 338, 374, 612, 649
NlaIV GGNNCC 1 cut(s) 45
NmuCI GTSAC 1 cut(s) 263
PaeR7I CTCGAG 1 cut(s) 719
PfeI GAWTC 3 cut(s) 75, 164, 331
PflMI CCANNNNNTGG 1 cut(s) 534
PfoI TCCNGGA 1 cut(s) 70
PkrI GCNGC 1 cut(s) 667
Psp124BI GAGCTC 4 cut(s) 135, 408, 445, 720
Psp6I CCWGG 1 cut(s) 70
PspFI CCCAGC 1 cut(s) 478
PspGI CCWGG 1 cut(s) 70
PspN4I GGNNCC 1 cut(s) 45
PspPI GGNCC 1 cut(s) 44
PstI CTGCAG 1 cut(s) 658
RsaI GTAC 1 cut(s) 195
RsaNI GTAC 1 cut(s) 194
SacI GAGCTC 4 cut(s) 135, 408, 445, 720
SatI GCNGC 1 cut(s) 666
Sau3AI GATC 1 cut(s) 250
Sau96I GGNCC 1 cut(s) 44
ScrFI CCNGG 1 cut(s) 72
SduI GDGCHC 4 cut(s) 135, 408, 445, 720
SetI ASST 7 cut(s) 53, 135, 212, 301, 408, 445, 720
SfcI CTRYAG 2 cut(s) 436, 654
Sfr274I CTCGAG 1 cut(s) 719
SlaI CTCGAG 1 cut(s) 719
SmlI CTYRAG 2 cut(s) 713, 719
SmoI CTYRAG 2 cut(s) 713, 719
Sse9I AATT 7 cut(s) 95, 106, 258, 305, 397, 569, 750
SsiI CCGC 1 cut(s) 518
SstI GAGCTC 4 cut(s) 135, 408, 445, 720
StyD4I CCNGG 1 cut(s) 70
TaaI ACNGT 2 cut(s) 269, 506
TaiI ACGT 1 cut(s) 301
TaqI TCGA 1 cut(s) 720
TasI AATT 7 cut(s) 95, 106, 258, 305, 397, 569, 750
TatI WGTACW 1 cut(s) 193
TfiI GAWTC 3 cut(s) 75, 164, 331
TscAI CASTG 1 cut(s) 489
TseFI GTSAC 1 cut(s) 263
TseI GCWGC 1 cut(s) 665
Tsp45I GTSAC 1 cut(s) 263
TspDTI ATGAA 1 cut(s) 168
TspRI CASTG 1 cut(s) 489
Van91I CCANNNNNTGG 1 cut(s) 534
XapI RAATTY 3 cut(s) 95, 106, 569
XhoI CTCGAG 1 cut(s) 719
XmiI GTMKAC 1 cut(s) 313
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.