Rw2G012870

B3 domain-containing transcription factor VRN1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000156
Physical Location & Seq
Reverse (-)
13456360 .. 13459135
2776 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G012870.1

Sequence Viewer

Length: 1161 bp
ATGAGTTCTTTTCGCCGGGAAAACGACGGCCGCCGGCCAATATGTTGTTCTCCAACTCCCCGTTTTATCCAGGTTATCTTGGATGATACTTCTAGAGACGTCAAACTTGGCATTCCAAAGAAATTTGTGAATGAATATGGTCAGTGTCTATCAAATTCAGTATGTCTTAAGCTTCCAAGTTGCTCCGAATGGAAAGTAGAAGTGACAAGAAGCAATGGAAAGGTTTGGTTTGAGAAGTGTTGGCCAGAGTTCTCAAAGTTTTACTCTCTTAGCATCGGTGATTTTCTAGTTTTTGAATATGAAGGGGATTCTGAATTCCACGTTTTCATATTTGATAGAAGCACCACAGAGATTGACTATCCCATAAAAAGGCCCAAGATGGAAGAAGCTCCTGAAGATGAATTCTCTGTTGAAATCTTGGAGGACATTCCACCCAGCCCAAAAACAAGGGAGAAAACTCCATTACCGTGTCGTCAATCTTACAAGAAAATGAAGACAAGTTTGACTGGTAAAGCAGACCAGATGTTTGAAAATGAGAACACCGAACCTTTTGAGAATCCAAAGAAAAACAAAGATTCTCATTGCTCTGCATCAAAAATCAAAATGGTCTTTTATCCTGCCGCAGAAGCTGCAAATTGCCCCTTGTCACCAGGAGCAATTTATCAAGTCAAAAGTAAGGGAAGTCCAATAATAGAAGTAGAATCTGAATGCGGTGTGATATGTGGAATTGGTGTATCTGGCTCTCTTGAAACTGGCAAGAACAAAATGTCAAAGACTAGTGTGCAGGTTACTGAAAGGCCCTCTTCATCTTTGACGGCTCCATTGGATAATCATCATGAAGCTGCCAACAACTTCGTCTCAGAGAATCCCTTTTTCAAAGTCACTTTGGGTTCCTCCCATATGGAGAAGTCAGTTGTGCATGTACCAGCTAGTTTTGCTTGGAGTTTCATTAAGAGGAAGAAACAAAAAGTGATGCTTCAGGTCACAGATAGATTGTGGCCTGTGGATTTGATAGCATTTAAGCCATCTTTAGCTTCATTTTCTTCTGGCTGGGCCACATTTGTTGAGGAATATTCATTAAGAGTCGGAGATGTTTGCATATTTGAGCTTATGGAGATGAATGATGACATTATACTACAAGTTCATTTTTTCAGATGTTGA
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

386

Amino Acids

43.77

Weight (kDa)

6.23

Isoelectric Point (pI)

52.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 28 - 113 2.3e-14 B3 DNA binding domain
B3 PF02362 291 - 384 2.4e-11 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: OG0000156)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G49475 AT3G18960 AT3G18960 AT3G18960 AT4G01580
fragaria_vesca FvH4_1g14650 FvH4_1g14650 FvH4_1g14650 FvH4_1g14650 FvH4_1g14660 FvH4_1g14660 FvH4_1g14660 FvH4_1g14660 FvH4_1g14670 FvH4_1g14680 FvH4_1g14680 FvH4_1g14680 FvH4_1g14680 FvH4_1g14680 FvH4_1g14680 FvH4_1g14690 FvH4_1g14700 FvH4_1g29250 FvH4_6g29400 FvH4_6g38681 FvH4_6g38690 FvH4_6g38700 FvH4_6g38700 FvH4_6g38700 FvH4_6g38700 FvH4_6g38700 FvH4_6g38700 FvH4_6g38700 FvH4_7g02010
malus_domestica MD00G1020600.v1.1 MD00G1022000.v1.1 MD00G1022100.v1.1 MD02G1159700.v1.1 MD02G1159800.v1.1 MD02G1159900.v1.1 MD02G1160000.v1.1 MD02G1160300.v1.1 MD15G1274100.v1.1 MD15G1274200.v1.1 MD15G1274400.v1.1 MD15G1302000.v1.1
prunus_persica Prupe.1G579400_v2.0.a1 Prupe.1G579400_v2.0.a1 Prupe.1G579400_v2.0.a1 Prupe.1G579400_v2.0.a1 Prupe.3G083400_v2.0.a1 Prupe.6G229600_v2.0.a1 Prupe.7G039600_v2.0.a1 Prupe.7G044500_v2.0.a1 Prupe.7G044800_v2.0.a1 Prupe.7G143100_v2.0.a1 Prupe.7G143500_v2.0.a1 Prupe.7G143600_v2.0.a1 Prupe.7G143700_v2.0.a1 Prupe.7G143800_v2.0.a1 Prupe.7G143900_v2.0.a1 Prupe.7G143900_v2.0.a1 Prupe.7G143900_v2.0.a1 Prupe.7G143900_v2.0.a1 Prupe.8G072800_v2.0.a1 Prupe.8G072800_v2.0.a1
pyrus_communis pycom02g12620 pycom02g12630 pycom15g23750 pycom15g26490 pycom17g21160
rosa_chinensis RchiOBHm_Chr2g0103421 RchiOBHm_Chr2g0103431 RchiOBHm_Chr2g0103441 RchiOBHm_Chr2g0103491 RchiOBHm_Chr2g0103501 RchiOBHm_Chr2g0103521 RchiOBHm_Chr2g0103541 RchiOBHm_Chr2g0103551 RchiOBHm_Chr2g0103561 RchiOBHm_Chr2g0134821 RchiOBHm_Chr2g0152161 RchiOBHm_Chr2g0152181 RchiOBHm_Chr7g0227261 RchiOBHm_Chr7g0227351 RchiOBHm_Chr7g0227431
rosa_laevigata RLG00000001649 RLG00000001653 RLG00000001659 RLG00000017235 RLG00000017236 RLG00000017240 RLG00000017241 RLG00000017242 RLG00000017243 RLG00000017244 RLG00000017349 RLG00000019424 RLG00000020614 RLG00000020615
rosa_multiflora Rmu_co8247875.1_g000001 Rmu_co8429551.1_g000001 Rmu_sc0000173.1_g000009 Rmu_sc0000718.1_g000004 Rmu_sc0001530.1_g000001 Rmu_sc0001530.1_g000002 Rmu_sc0001530.1_g000004 Rmu_sc0001530.1_g000005 Rmu_sc0001852.1_g000023 Rmu_sc0001852.1_g000024 Rmu_sc0002434.1_g000001 Rmu_sc0002434.1_g000002 Rmu_sc0003043.1_g000016 Rmu_sc0003153.1_g000005 Rmu_sc0011039.1_g000001 Rmu_sc0031822.1_g000001
rosa_roxburghii Rroxscaffold_2G00095860 Rroxscaffold_2G00095870 Rroxscaffold_2G00109720 Rroxscaffold_2G00139530 Rroxscaffold_2G00139550 Rroxscaffold_2G00139570 Rroxscaffold_2G00139580 Rroxscaffold_2G00139630 Rroxscaffold_2G00139640 Rroxscaffold_4G00328430 Rroxscaffold_4G00328440 Rroxscaffold_4G00328450
rosa_rugosa Rorug02G0114900 Rorug02G0115000 Rorug02G0115000 Rorug02G0115200 Rorug02G0115300 Rorug02G0115400 Rorug02G0115500 Rorug02G0115600 Rorug02G0115600 Rorug02G0115600 Rorug02G0115700 Rorug02G0320300 Rorug02G0431300 Rorug02G0431300 Rorug06G0028200 Rorug07G0241300
rosa_samantha Rh2AG163200 Rh2AG163300 Rh2AG163700 Rh2AG163800 Rh2AG163900 Rh2AG164000 Rh2AG373400 Rh2AG492600 Rh2BG170300 Rh2BG170400 Rh2BG170800 Rh2BG170900 Rh2BG171000 Rh2BG171100 Rh2BG171200 Rh2BG377800 Rh2BG505000 Rh2BG505100 Rh2BG505200 Rh2CG170300 Rh2CG170700 Rh2CG479000 Rh2DG169100 Rh2DG169200 Rh2DG169300 Rh2DG516400 Rh7AG391200 Rh7BG376200 Rh7CG410200 Rh7CG411500 Rh7CG412000 Rh7CG412700 Rh7DG388800
rosa_wichuraiana Rw2G012830 Rw2G012840 Rw2G012870 Rw2G012880 Rw2G012890 Rw2G012900 Rw2G030310 Rw2G040470 Rw2G040480 Rw7G032720 Rw7G032730 Rw7G032750

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 102
Acc36I ACCTGC 1 cut(s) 775
AciI CCGC 3 cut(s) 31, 621, 711
AcoI YGGCCR 3 cut(s) 28, 35, 242
AcsI RAATTY 4 cut(s) 122, 154, 314, 401
AcuI CTGAAG 2 cut(s) 414, 962
AcyI GRCGYC 1 cut(s) 99
AfaI GTAC 1 cut(s) 924
AfiI CCNNNNNNNGG 1 cut(s) 369
AflII CTTAAG 1 cut(s) 167
AgsI TTSAA 5 cut(s) 296, 413, 530, 749, 877
AhlI ACTAGT 1 cut(s) 776
AjnI CCWGG 2 cut(s) 69, 649
AjuI GAANNNNNNNTTGG 2 cut(s) 31, 63
AluBI AGCT 7 cut(s) 172, 389, 629, 842, 929, 1034, 1108
AluI AGCT 7 cut(s) 172, 389, 629, 842, 929, 1034, 1108
Alw26I GTCTC 2 cut(s) 90, 862
AlwNI CAGNNNCTG 1 cut(s) 629
AoxI GGCC 7 cut(s) 28, 35, 242, 371, 797, 998, 1053
ApeKI GCWGC 2 cut(s) 629, 842
ApoI RAATTY 4 cut(s) 122, 154, 314, 401
ArsI GACNNNNNNTTYG 2 cut(s) 509, 541
AspS9I GGNCC 3 cut(s) 372, 798, 1053
AsuC2I CCSGG 1 cut(s) 17
AsuHPI GGTGA 2 cut(s) 290, 639
BalI TGGCCA 1 cut(s) 244
BbsI GAAGAC 1 cut(s) 500
BbvI GCAGC 2 cut(s) 616, 829
BccI CCATC 2 cut(s) 373, 1033
BceAI ACGGC 2 cut(s) 43, 831
BciT130I CCWGG 2 cut(s) 71, 651
BcnI CCSGG 1 cut(s) 17
BcoDI GTCTC 2 cut(s) 90, 862
BcuI ACTAGT 1 cut(s) 776
BfaI CTAG 4 cut(s) 93, 287, 777, 930
BfrI CTTAAG 1 cut(s) 167
BfuAI ACCTGC 1 cut(s) 775
BisI GCNGC 4 cut(s) 31, 621, 630, 843
BlsI GCNGC 4 cut(s) 32, 622, 631, 844
Bme1390I CCNGG 3 cut(s) 17, 71, 651
BmgT120I GGNCC 3 cut(s) 372, 798, 1053
BmiI GGNNCC 2 cut(s) 819, 892
BmrFI CCNGG 3 cut(s) 17, 71, 651
BmsI GCATC 3 cut(s) 282, 599, 963
BpiI GAAGAC 1 cut(s) 500
BpuMI CCSGG 1 cut(s) 17
BsaBI GATNNNNATC 1 cut(s) 831
BsaHI GRCGYC 1 cut(s) 99
Bsc4I CCNNNNNNNGG 1 cut(s) 369
Bse118I RCCGGY 1 cut(s) 33
Bse1I ACTGG 2 cut(s) 511, 757
Bse3DI GCAATG 2 cut(s) 220, 580
Bse8I GATNNNNATC 1 cut(s) 831
BseBI CCWGG 2 cut(s) 71, 651
BseGI GGATG 1 cut(s) 88
BseJI GATNNNNATC 1 cut(s) 831
BseLI CCNNNNNNNGG 1 cut(s) 369
BseMI GCAATG 2 cut(s) 220, 580
BseMII CTCAG 1 cut(s) 873
BseNI ACTGG 2 cut(s) 511, 757
BseX3I CGGCCG 1 cut(s) 28
BseXI GCAGC 2 cut(s) 616, 829
BseYI CCCAGC 2 cut(s) 434, 1050
BsgI GTGCAG 1 cut(s) 803
Bsh1285I CGRYCG 1 cut(s) 31
BshFI GGCC 7 cut(s) 30, 37, 244, 373, 799, 1000, 1055
BsiEI CGRYCG 1 cut(s) 31
BsiSI CCGG 2 cut(s) 16, 34
BslI CCNNNNNNNGG 1 cut(s) 369
BsmAI GTCTC 2 cut(s) 90, 862
BsmBI CGTCTC 2 cut(s) 90, 862
BsmI GAATGC 2 cut(s) 111, 713
BsnI GGCC 7 cut(s) 30, 37, 244, 373, 799, 1000, 1055
BspACI CCGC 3 cut(s) 31, 621, 711
BspANI GGCC 7 cut(s) 30, 37, 244, 373, 799, 1000, 1055
BspCNI CTCAG 1 cut(s) 872
BspHI TCATGA 1 cut(s) 835
BspLI GGNNCC 2 cut(s) 819, 892
BspMI ACCTGC 1 cut(s) 775
BspTI CTTAAG 1 cut(s) 167
BsrDI GCAATG 2 cut(s) 220, 580
BsrFI RCCGGY 1 cut(s) 33
BsrI ACTGG 2 cut(s) 511, 757
BssAI RCCGGY 1 cut(s) 33
BssNI GRCGYC 1 cut(s) 99
Bst2UI CCWGG 2 cut(s) 71, 651
Bst4CI ACNGT 1 cut(s) 468
Bst6I CTCTTC 1 cut(s) 808
BstACI GRCGYC 1 cut(s) 99
BstAFI CTTAAG 1 cut(s) 167
BstAPI GCANNNNNTGC 1 cut(s) 629
BstC8I GCNNGC 1 cut(s) 35
BstDEI CTNAG 2 cut(s) 269, 859
BstF5I GGATG 1 cut(s) 88
BstMAI GTCTC 2 cut(s) 90, 862
BstMCI CGRYCG 1 cut(s) 31
BstMWI GCNNNNNNNGC 3 cut(s) 626, 629, 935
BstNI CCWGG 2 cut(s) 71, 651
BstNSI RCATGY 1 cut(s) 923
BstSCI CCNGG 3 cut(s) 15, 69, 649
BstV1I GCAGC 2 cut(s) 616, 829
BstV2I GAAGAC 1 cut(s) 500
BstZI CGGCCG 1 cut(s) 28
BsuRI GGCC 7 cut(s) 30, 37, 244, 373, 799, 1000, 1055
BtsCI GGATG 1 cut(s) 88
BtsIMutI CAGTG 1 cut(s) 149
BveI ACCTGC 1 cut(s) 775
Cac8I GCNNGC 1 cut(s) 35
CaiI CAGNNNCTG 1 cut(s) 629
CciI TCATGA 1 cut(s) 835
Cfr10I RCCGGY 1 cut(s) 33
Cfr13I GGNCC 3 cut(s) 372, 798, 1053
Csp6I GTAC 1 cut(s) 923
CspCI CAANNNNNGTGG 4 cut(s) 334, 369, 1045, 1080
CviAII CATG 2 cut(s) 836, 920
CviQI GTAC 1 cut(s) 923
DdeI CTNAG 2 cut(s) 269, 859
EaeI YGGCCR 3 cut(s) 28, 35, 242
EagI CGGCCG 1 cut(s) 28
Eam1104I CTCTTC 1 cut(s) 808
EarI CTCTTC 1 cut(s) 808
EclXI CGGCCG 1 cut(s) 28
Eco52I CGGCCG 1 cut(s) 28
Eco57I CTGAAG 2 cut(s) 414, 962
EcoO109I RGGNCCY 1 cut(s) 798
EcoRI GAATTC 2 cut(s) 314, 401
EcoRII CCWGG 2 cut(s) 69, 649
Esp3I CGTCTC 2 cut(s) 90, 862
FaeI CATG 2 cut(s) 839, 923
FalI AAGNNNNNCTT 4 cut(s) 787, 819, 960, 992
FatI CATG 2 cut(s) 835, 919
FauNDI CATATG 1 cut(s) 900
Fnu4HI GCNGC 4 cut(s) 31, 621, 630, 843
FokI GGATG 1 cut(s) 95
Fsp4HI GCNGC 4 cut(s) 31, 621, 630, 843
FspBI CTAG 4 cut(s) 93, 287, 777, 930
GluI GCNGC 4 cut(s) 31, 621, 630, 843
GsaI CCCAGC 2 cut(s) 438, 1054
HaeIII GGCC 7 cut(s) 30, 37, 244, 373, 799, 1000, 1055
HapII CCGG 2 cut(s) 16, 34
Hin1I GRCGYC 1 cut(s) 99
Hin1II CATG 2 cut(s) 839, 923
HindIII AAGCTT 1 cut(s) 170
HinfI GANTC 6 cut(s) 308, 556, 575, 701, 865, 1083
HpaII CCGG 2 cut(s) 16, 34
HphI GGTGA 2 cut(s) 290, 639
Hpy188I TCNGA 6 cut(s) 187, 313, 706, 862, 1088, 1154
Hpy188III TCNNGA 4 cut(s) 93, 392, 746, 836
Hpy99I CGWCG 1 cut(s) 29
HpyAV CCTTC 1 cut(s) 296
HpyCH4III ACNGT 1 cut(s) 468
HpyCH4IV ACGT 2 cut(s) 99, 321
HpyCH4V TGCA 5 cut(s) 590, 632, 784, 919, 1098
HpyF10VI GCNNNNNNNGC 3 cut(s) 626, 629, 935
HpyF3I CTNAG 2 cut(s) 269, 859
HpySE526I ACGT 2 cut(s) 99, 321
Hsp92I GRCGYC 1 cut(s) 99
Hsp92II CATG 2 cut(s) 839, 923
KroI GCCGGC 1 cut(s) 33
KroNI GCCGGC 1 cut(s) 35
LmnI GCTCC 4 cut(s) 188, 394, 653, 823
Lsp1109I GCAGC 2 cut(s) 616, 829
LweI GCATC 3 cut(s) 282, 599, 963
MaeI CTAG 4 cut(s) 93, 287, 777, 930
MaeII ACGT 2 cut(s) 99, 321
MaeIII GTNAC 5 cut(s) 202, 645, 787, 880, 982
MboII GAAGA 6 cut(s) 395, 407, 505, 795, 970, 1035
MlsI TGGCCA 1 cut(s) 244
MluCI AATT 7 cut(s) 122, 154, 314, 401, 634, 657, 726
MluNI TGGCCA 1 cut(s) 244
MlyI GAGTC 1 cut(s) 1092
MmeI TCCRAC 2 cut(s) 77, 1066
MnlI CCTC 5 cut(s) 415, 811, 904, 948, 1060
Mox20I TGGCCA 1 cut(s) 244
MroNI GCCGGC 1 cut(s) 33
MscI TGGCCA 1 cut(s) 244
MseI TTAA 4 cut(s) 168, 951, 1020, 1079
MslI CAYNNNNRTG 1 cut(s) 466
Msp20I TGGCCA 1 cut(s) 244
MspCI CTTAAG 1 cut(s) 167
MspI CCGG 2 cut(s) 16, 34
MspR9I CCNGG 3 cut(s) 17, 71, 651
Mva1269I GAATGC 2 cut(s) 111, 713
MvaI CCWGG 2 cut(s) 71, 651
MwoI GCNNNNNNNGC 3 cut(s) 626, 629, 935
NaeI GCCGGC 1 cut(s) 35
NciI CCSGG 1 cut(s) 17
NdeI CATATG 1 cut(s) 900
NgoMIV GCCGGC 1 cut(s) 33
NlaIII CATG 2 cut(s) 839, 923
NlaIV GGNNCC 2 cut(s) 819, 892
NmuCI GTSAC 4 cut(s) 202, 645, 880, 982
NspI RCATGY 1 cut(s) 923
PagI TCATGA 1 cut(s) 835
PctI GAATGC 2 cut(s) 111, 713
PdiI GCCGGC 1 cut(s) 35
PfeI GAWTC 5 cut(s) 308, 556, 575, 701, 865
PkrI GCNGC 4 cut(s) 32, 622, 631, 844
PleI GAGTC 1 cut(s) 1091
PpsI GAGTC 1 cut(s) 1091
Psp6I CCWGG 2 cut(s) 69, 649
PspFI CCCAGC 2 cut(s) 434, 1050
PspGI CCWGG 2 cut(s) 69, 649
PspN4I GGNNCC 2 cut(s) 819, 892
PspPI GGNCC 3 cut(s) 372, 798, 1053
PstNI CAGNNNCTG 1 cut(s) 629
RsaI GTAC 1 cut(s) 924
RsaNI GTAC 1 cut(s) 923
RseI CAYNNNNRTG 1 cut(s) 466
SaqAI TTAA 4 cut(s) 168, 951, 1020, 1079
SatI GCNGC 4 cut(s) 31, 621, 630, 843
Sau96I GGNCC 3 cut(s) 372, 798, 1053
SchI GAGTC 1 cut(s) 1092
ScrFI CCNGG 3 cut(s) 17, 71, 651
SfaNI GCATC 3 cut(s) 282, 599, 963
SmiMI CAYNNNNRTG 1 cut(s) 466
SmlI CTYRAG 1 cut(s) 167
SmoI CTYRAG 1 cut(s) 167
SpeI ACTAGT 1 cut(s) 776
Sse9I AATT 7 cut(s) 122, 154, 314, 401, 634, 657, 726
SsiI CCGC 3 cut(s) 31, 621, 711
SspI AATATT 1 cut(s) 1073
SspMI CTAG 4 cut(s) 93, 287, 777, 930
StyD4I CCNGG 3 cut(s) 15, 69, 649
TaaI ACNGT 1 cut(s) 468
TaiI ACGT 2 cut(s) 102, 324
TasI AATT 7 cut(s) 122, 154, 314, 401, 634, 657, 726
TauI GCSGC 2 cut(s) 33, 623
TfiI GAWTC 5 cut(s) 308, 556, 575, 701, 865
Tru1I TTAA 4 cut(s) 168, 951, 1020, 1079
Tru9I TTAA 4 cut(s) 168, 951, 1020, 1079
TscAI CASTG 1 cut(s) 149
TseFI GTSAC 4 cut(s) 202, 645, 880, 982
TseI GCWGC 2 cut(s) 629, 842
Tsp45I GTSAC 4 cut(s) 202, 645, 880, 982
TspRI CASTG 1 cut(s) 149
Vha464I CTTAAG 1 cut(s) 167
XapI RAATTY 4 cut(s) 122, 154, 314, 401
XbaI TCTAGA 1 cut(s) 92
XceI RCATGY 1 cut(s) 923
XspI CTAG 4 cut(s) 93, 287, 777, 930
ZraI GACGTC 1 cut(s) 100
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.