Rw2G012830

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 (-)
13421159 .. 13423513
2355 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G012830.1

Sequence Viewer

Length: 954 bp
ATGACAATGGATCATCGCCGGGAATGTGATGGCCAGCCACCATTTTGTGCTCCAAATACAACTCCCCATTTTTTCAAGATCATTCTAAACGGCACTTCTAGAGACACCAAACTAAGACTTCCATACAAATTTGTGAAGAAATATGGAGGAGAGCTATCACATTCAGTATGTCTTAAGGTTCGGGGTGGTTCAAAATGGGAAGTGGATGTTACGAGACGGGATTGTAAGGTTTGGTTTGAAAAGGGTTGGCCAGAGTTCTCTAATTCTTGCTCCCTTGACCACGGCCACTTTCTGGTTTTCGGATATGAAGGGAATTCTAAATTCGATGTTTGCATATTTGACAAAACTGCCACAGAAATTGACTATCCGATAACTGTTGAAGATGATGATTCGTCTGGTGAAATTTTGGAGGACTGTCCAAGGGGTTCAAGGAATTCAGGGGATAAATCTCCACTCCCAGGTTCTCCTCCTTGCAAGAAAAACAGAAAAAGTTCAACTGGCAAACCAGAAATCAACCCCAAGATTGAAATGGATGATGATGATGATGATGAAAACGATGAAAGTGATGAGAGTAGTGAGGAGGGTGAGGATGAAGATAATCATGGTATTCAAAAGGAAACAGCTTTTCAGAGAGCTAAAGCTTATAAACCCGCAGACCCTCATTTTGTGGTTGCAATCAATCCCTCTTGTACCCGTGGAGGTTATCTGCATGTGCCATCTTTGTTTAGCAAGACATATCTCATTAAGCAGCCTACTCAAATCATGCTTCAAACGGTTTCAAACGAGAAACCTTGGTATATAGATATGCATTATTACAGATCATCAGGCAGATTACGGACTGGTTGGCCTGGATTTGTGAGAAGCAATAATTTATTAGTGGGTGATGCTTGTGTCTTTGTGTTGAAAGACAACAATGAATTTCTATTTGATGTTGTATTTTACCGGGCTACATAG
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

317

Amino Acids

36.07

Weight (kDa)

5.45

Isoelectric Point (pI)

46.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 25 - 115 7.4e-16 B3 DNA binding domain
B3 PF02362 223 - 312 1.6e-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: 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)
AanI TTATAA 1 cut(s) 645
AccB7I CCANNNNNTGG 1 cut(s) 292
AciI CCGC 1 cut(s) 651
AclWI GGATC 1 cut(s) 18
AcoI YGGCCR 3 cut(s) 31, 248, 283
AcsI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 917
AfaI GTAC 1 cut(s) 691
AfiI CCNNNNNNNGG 2 cut(s) 292, 458
AflII CTTAAG 1 cut(s) 173
AjnI CCWGG 2 cut(s) 457, 847
AluBI AGCT 4 cut(s) 154, 623, 635, 641
AluI AGCT 4 cut(s) 154, 623, 635, 641
Alw21I GWGCWC 1 cut(s) 52
Alw26I GTCTC 2 cut(s) 96, 208
AlwI GGATC 1 cut(s) 18
AoxI GGCC 4 cut(s) 31, 248, 283, 845
ApeKI GCWGC 1 cut(s) 748
ApoI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 917
ArsI GACNNNNNNTTYG 2 cut(s) 647, 679
Asp700I GAANNNNTTC 1 cut(s) 490
AsuC2I CCSGG 2 cut(s) 20, 944
AsuHPI GGTGA 3 cut(s) 410, 596, 893
BalI TGGCCA 2 cut(s) 33, 250
Bbv12I GWGCWC 1 cut(s) 52
BbvI GCAGC 1 cut(s) 760
BccI CCATC 2 cut(s) 23, 724
BceAI ACGGC 2 cut(s) 106, 298
BciT130I CCWGG 2 cut(s) 459, 849
BcnI CCSGG 2 cut(s) 20, 944
BcoDI GTCTC 2 cut(s) 96, 208
BfaI CTAG 1 cut(s) 99
BfrI CTTAAG 1 cut(s) 173
BisI GCNGC 1 cut(s) 749
BlsI GCNGC 1 cut(s) 750
Bme1390I CCNGG 4 cut(s) 20, 459, 849, 944
BmrFI CCNGG 4 cut(s) 20, 459, 849, 944
BmsI GCATC 1 cut(s) 874
BpuMI CCSGG 2 cut(s) 20, 944
BsaJI CCNNGG 5 cut(s) 280, 419, 457, 694, 791
Bsc4I CCNNNNNNNGG 2 cut(s) 292, 458
Bse1I ACTGG 2 cut(s) 502, 844
BseBI CCWGG 2 cut(s) 459, 849
BseDI CCNNGG 5 cut(s) 280, 419, 457, 694, 791
BseGI GGATG 3 cut(s) 211, 538, 595
BseLI CCNNNNNNNGG 2 cut(s) 292, 458
BseNI ACTGG 2 cut(s) 502, 844
BseRI GAGGAG 3 cut(s) 162, 456, 593
BseXI GCAGC 1 cut(s) 760
BshFI GGCC 4 cut(s) 33, 250, 285, 847
BsiHKAI GWGCWC 1 cut(s) 52
BsiSI CCGG 2 cut(s) 19, 943
BslI CCNNNNNNNGG 2 cut(s) 292, 458
BsmAI GTCTC 2 cut(s) 96, 208
BsmBI CGTCTC 1 cut(s) 208
BsnI GGCC 4 cut(s) 33, 250, 285, 847
Bsp1286I GDGCHC 1 cut(s) 52
Bsp143I GATC 3 cut(s) 10, 78, 818
BspACI CCGC 1 cut(s) 651
BspANI GGCC 4 cut(s) 33, 250, 285, 847
BspPI GGATC 1 cut(s) 18
BspTI CTTAAG 1 cut(s) 173
BsrI ACTGG 2 cut(s) 502, 844
BssECI CCNNGG 5 cut(s) 280, 419, 457, 694, 791
BssMI GATC 3 cut(s) 10, 78, 818
BssT1I CCWWGG 2 cut(s) 419, 791
Bst2UI CCWGG 2 cut(s) 459, 849
Bst4CI ACNGT 3 cut(s) 376, 416, 775
BstAFI CTTAAG 1 cut(s) 173
BstC8I GCNNGC 1 cut(s) 35
BstDEI CTNAG 1 cut(s) 113
BstDSI CCRYGG 2 cut(s) 280, 694
BstF5I GGATG 3 cut(s) 211, 538, 595
BstKTI GATC 3 cut(s) 13, 81, 821
BstMAI GTCTC 2 cut(s) 96, 208
BstMBI GATC 3 cut(s) 10, 78, 818
BstNI CCWGG 2 cut(s) 459, 849
BstNSI RCATGY 1 cut(s) 713
BstSCI CCNGG 4 cut(s) 18, 457, 847, 942
BstV1I GCAGC 1 cut(s) 760
BsuRI GGCC 4 cut(s) 33, 250, 285, 847
BtgI CCRYGG 2 cut(s) 280, 694
BtsCI GGATG 3 cut(s) 211, 538, 595
Cac8I GCNNGC 1 cut(s) 35
Csp6I GTAC 1 cut(s) 690
CspCI CAANNNNNGTGG 2 cut(s) 340, 375
CviAII CATG 3 cut(s) 602, 710, 763
CviQI GTAC 1 cut(s) 690
DdeI CTNAG 1 cut(s) 113
DpnI GATC 3 cut(s) 12, 80, 820
DpnII GATC 3 cut(s) 10, 78, 818
EaeI YGGCCR 3 cut(s) 31, 248, 283
Eco130I CCWWGG 2 cut(s) 419, 791
EcoRI GAATTC 2 cut(s) 313, 433
EcoRII CCWGG 2 cut(s) 457, 847
EcoT14I CCWWGG 2 cut(s) 419, 791
EcoT22I ATGCAT 1 cut(s) 810
ErhI CCWWGG 2 cut(s) 419, 791
Esp3I CGTCTC 1 cut(s) 208
FaeI CATG 3 cut(s) 605, 713, 766
FatI CATG 3 cut(s) 601, 709, 762
FauI CCCGC 1 cut(s) 658
Fnu4HI GCNGC 1 cut(s) 749
FokI GGATG 3 cut(s) 218, 545, 602
Fsp4HI GCNGC 1 cut(s) 749
FspBI CTAG 1 cut(s) 99
GluI GCNGC 1 cut(s) 749
HaeIII GGCC 4 cut(s) 33, 250, 285, 847
HapII CCGG 2 cut(s) 19, 943
Hin1II CATG 3 cut(s) 605, 713, 766
HindIII AAGCTT 1 cut(s) 639
HinfI GANTC 1 cut(s) 389
HpaII CCGG 2 cut(s) 19, 943
HphI GGTGA 3 cut(s) 410, 596, 893
Hpy188I TCNGA 3 cut(s) 302, 369, 630
Hpy188III TCNNGA 2 cut(s) 76, 99
HpyAV CCTTC 1 cut(s) 302
HpyCH4III ACNGT 3 cut(s) 376, 416, 775
HpyCH4V TGCA 5 cut(s) 333, 474, 674, 709, 808
HpyF3I CTNAG 1 cut(s) 113
Hsp92II CATG 3 cut(s) 605, 713, 766
Kzo9I GATC 3 cut(s) 10, 78, 818
LmnI GCTCC 2 cut(s) 55, 275
Lsp1109I GCAGC 1 cut(s) 760
LweI GCATC 1 cut(s) 874
MaeI CTAG 1 cut(s) 99
MaeIII GTNAC 1 cut(s) 208
MalI GATC 3 cut(s) 12, 80, 820
MboI GATC 3 cut(s) 10, 78, 818
MboII GAAGA 3 cut(s) 148, 392, 605
MhlI GDGCHC 1 cut(s) 52
MlsI TGGCCA 2 cut(s) 33, 250
MluCI AATT 9 cut(s) 128, 262, 313, 320, 357, 402, 433, 868, 917
MluNI TGGCCA 2 cut(s) 33, 250
MnlI CCTC 9 cut(s) 140, 403, 477, 571, 574, 580, 669, 692, 694
Mox20I TGGCCA 2 cut(s) 33, 250
Mph1103I ATGCAT 1 cut(s) 810
MroXI GAANNNNTTC 1 cut(s) 490
MscI TGGCCA 2 cut(s) 33, 250
MseI TTAA 2 cut(s) 174, 744
Msp20I TGGCCA 2 cut(s) 33, 250
MspCI CTTAAG 1 cut(s) 173
MspI CCGG 2 cut(s) 19, 943
MspR9I CCNGG 4 cut(s) 20, 459, 849, 944
MvaI CCWGG 2 cut(s) 459, 849
NciI CCSGG 2 cut(s) 20, 944
NdeII GATC 3 cut(s) 10, 78, 818
NlaIII CATG 3 cut(s) 605, 713, 766
NsiI ATGCAT 1 cut(s) 810
NspI RCATGY 1 cut(s) 713
PdmI GAANNNNTTC 1 cut(s) 490
PfeI GAWTC 1 cut(s) 389
PflMI CCANNNNNTGG 1 cut(s) 292
PkrI GCNGC 1 cut(s) 750
PsiI TTATAA 1 cut(s) 645
Psp6I CCWGG 2 cut(s) 457, 847
PspGI CCWGG 2 cut(s) 457, 847
RsaI GTAC 1 cut(s) 691
RsaNI GTAC 1 cut(s) 690
SaqAI TTAA 2 cut(s) 174, 744
SatI GCNGC 1 cut(s) 749
Sau3AI GATC 3 cut(s) 10, 78, 818
ScrFI CCNGG 4 cut(s) 20, 459, 849, 944
SduI GDGCHC 1 cut(s) 52
SetI ASST 9 cut(s) 156, 180, 231, 463, 625, 637, 643, 703, 793
SfaNI GCATC 1 cut(s) 874
SmlI CTYRAG 1 cut(s) 173
SmoI CTYRAG 1 cut(s) 173
Sse9I AATT 9 cut(s) 128, 262, 313, 320, 357, 402, 433, 868, 917
SsiI CCGC 1 cut(s) 651
SspMI CTAG 1 cut(s) 99
StyD4I CCNGG 4 cut(s) 18, 457, 847, 942
StyI CCWWGG 2 cut(s) 419, 791
TaaI ACNGT 3 cut(s) 376, 416, 775
TaqI TCGA 1 cut(s) 324
TasI AATT 9 cut(s) 128, 262, 313, 320, 357, 402, 433, 868, 917
TfiI GAWTC 1 cut(s) 389
Tru1I TTAA 2 cut(s) 174, 744
Tru9I TTAA 2 cut(s) 174, 744
TseI GCWGC 1 cut(s) 748
TspDTI ATGAA 5 cut(s) 321, 564, 573, 606, 930
TspGWI ACGGA 1 cut(s) 850
Van91I CCANNNNNTGG 1 cut(s) 292
Vha464I CTTAAG 1 cut(s) 173
XapI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 917
XbaI TCTAGA 1 cut(s) 98
XceI RCATGY 1 cut(s) 713
XcmI CCANNNNNNNNNTGG 1 cut(s) 526
XmnI GAANNNNTTC 1 cut(s) 490
XspI CTAG 1 cut(s) 99
Zsp2I ATGCAT 1 cut(s) 810
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.