RLG00000017235

B3 domain-containing transcription factor VRN1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0000156
Physical Location & Seq
Reverse (-)
14430716 .. 14433054
2339 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000017235

Sequence Viewer

Length: 897 bp
ATGACGATGGATCATCGCCGGGAATGTGATGGCCAGCCACCATTTTGTGCTCCAAATACAACTCCCCATTTTTTCAAGATCATTCTAAACGGCACTTCTAGAGACACCAAACTAAGACTCCCATACAAATTTGTGAAGAAATATGGAGGAGAGCTATCACATTCAGTATGTCTTAAGGTTCGGGGTGGTTCAAAATGGGAAGTGGATATCACGAGACAGGATTGTAAGGTTTGGTTTGAAAAGGGTTGGCCAGAGTTCTCTAATTCTTGCTCCCTTGACCACGGCCACTTTCTGGTTTTCGGATATGAAGGGAATTCTAAATTCGATGTTTGCATATTTGACACAACTGCCACAGAAATTAACTATCCGATAACTGTTGAAGATGATGATTCGTCTGGTGAAATTTTGGAGGACTGTCCAAGGGGTTCAAGGAATTCTGGGGATAAATCTCCACTCCCAGGTTCTCCTCCTTGCAAAAAAAACAGAAAAAGCTCAACTGGCAAACCAGAAATCAACCCCAAGATTCAAATGGATGATGATGATGATGATGATGAAAACGATGAAAGTGATGAGGGTAGTGAGGAGGGCGAGGATGAAGATAATCATGGTATTCGAAAGGAAATAGCTTTTCAGAGAGCTACAGCTTATAAACCCGCAGACCCTCATTTTGTGGTTGCAATCAATCCCTCTTGTACCCGTGGAGGTTATCTGCATGTGCCATCTTTGTTTAGCAAGACATATCTTGTTAAGCAGCCTACTCAAATCATGCTTCAAACGGTTTCAAACGAGGAACCTTGTGGTATGAATTTAGAAGTCCTCTCCCTGAATGGCAATGTGCCCTTGGTACAGAGGAAGACTCAAAAGGTGTCTGGTATCCAACTTGGATCCGGTTCTTAG
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

299

Amino Acids

33.23

Weight (kDa)

5.19

Isoelectric Point (pI)

37.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 25 - 115 1e-15 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) 648
AccB7I CCANNNNNTGG 1 cut(s) 292
AciI CCGC 1 cut(s) 654
AclWI GGATC 3 cut(s) 18, 879, 892
AcoI YGGCCR 3 cut(s) 31, 248, 283
AcsI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 805
AfaI GTAC 2 cut(s) 694, 846
AfiI CCNNNNNNNGG 2 cut(s) 292, 458
AflII CTTAAG 1 cut(s) 173
AgsI TTSAA 8 cut(s) 76, 192, 239, 380, 429, 527, 773, 783
AjnI CCWGG 1 cut(s) 457
AluBI AGCT 5 cut(s) 154, 492, 626, 638, 644
AluI AGCT 5 cut(s) 154, 492, 626, 638, 644
Alw21I GWGCWC 1 cut(s) 52
Alw26I GTCTC 2 cut(s) 96, 208
AlwI GGATC 3 cut(s) 18, 879, 892
AoxI GGCC 3 cut(s) 31, 248, 283
ApeKI GCWGC 1 cut(s) 751
ApoI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 805
ArsI GACNNNNNNTTYG 2 cut(s) 650, 682
AsuC2I CCSGG 1 cut(s) 20
AsuHPI GGTGA 1 cut(s) 410
AsuII TTCGAA 1 cut(s) 613
BaeGI GKGCMC 1 cut(s) 840
BalI TGGCCA 2 cut(s) 33, 250
BamHI GGATCC 1 cut(s) 884
BauI CACGAG 1 cut(s) 211
BbsI GAAGAC 1 cut(s) 860
Bbv12I GWGCWC 1 cut(s) 52
BbvI GCAGC 1 cut(s) 763
BccI CCATC 2 cut(s) 23, 727
BceAI ACGGC 2 cut(s) 106, 298
BciT130I CCWGG 1 cut(s) 459
BciVI GTATCC 1 cut(s) 884
BcnI CCSGG 1 cut(s) 20
BcoDI GTCTC 2 cut(s) 96, 208
BfaI CTAG 1 cut(s) 99
BfmI CTRYAG 1 cut(s) 639
BfrI CTTAAG 1 cut(s) 173
BfuI GTATCC 1 cut(s) 884
BisI GCNGC 1 cut(s) 752
BlsI GCNGC 1 cut(s) 753
Bme1390I CCNGG 2 cut(s) 20, 459
BmiI GGNNCC 2 cut(s) 792, 886
BmrFI CCNGG 2 cut(s) 20, 459
BpiI GAAGAC 1 cut(s) 860
BplI GAGNNNNNCTC 2 cut(s) 841, 873
Bpu14I TTCGAA 1 cut(s) 613
BpuMI CCSGG 1 cut(s) 20
BsaJI CCNNGG 5 cut(s) 280, 419, 457, 697, 840
BsaWI WCCGGW 1 cut(s) 887
BsaXI ACNNNNNCTCC 2 cut(s) 102, 132
Bsc4I CCNNNNNNNGG 2 cut(s) 292, 458
Bse1I ACTGG 1 cut(s) 502
Bse3DI GCAATG 1 cut(s) 838
BseBI CCWGG 1 cut(s) 459
BseDI CCNNGG 5 cut(s) 280, 419, 457, 697, 840
BseGI GGATG 2 cut(s) 538, 598
BseLI CCNNNNNNNGG 2 cut(s) 292, 458
BseMI GCAATG 1 cut(s) 838
BseNI ACTGG 1 cut(s) 502
BseRI GAGGAG 3 cut(s) 162, 456, 596
BseSI GKGCMC 1 cut(s) 840
BseXI GCAGC 1 cut(s) 763
BshFI GGCC 3 cut(s) 33, 250, 285
BsiHKAI GWGCWC 1 cut(s) 52
BsiSI CCGG 2 cut(s) 19, 888
BslI CCNNNNNNNGG 2 cut(s) 292, 458
BsmAI GTCTC 2 cut(s) 96, 208
BsnI GGCC 3 cut(s) 33, 250, 285
Bsp119I TTCGAA 1 cut(s) 613
Bsp1286I GDGCHC 2 cut(s) 52, 840
Bsp143I GATC 3 cut(s) 10, 78, 884
BspACI CCGC 1 cut(s) 654
BspANI GGCC 3 cut(s) 33, 250, 285
BspLI GGNNCC 2 cut(s) 792, 886
BspPI GGATC 3 cut(s) 18, 879, 892
BspT104I TTCGAA 1 cut(s) 613
BspTI CTTAAG 1 cut(s) 173
BsrDI GCAATG 1 cut(s) 838
BsrI ACTGG 1 cut(s) 502
BssECI CCNNGG 5 cut(s) 280, 419, 457, 697, 840
BssMI GATC 3 cut(s) 10, 78, 884
BssSI CACGAG 1 cut(s) 211
BssT1I CCWWGG 2 cut(s) 419, 840
Bst2BI CACGAG 1 cut(s) 211
Bst2UI CCWGG 1 cut(s) 459
Bst4CI ACNGT 3 cut(s) 376, 416, 778
BstAFI CTTAAG 1 cut(s) 173
BstBI TTCGAA 1 cut(s) 613
BstC8I GCNNGC 1 cut(s) 35
BstDEI CTNAG 2 cut(s) 113, 894
BstDSI CCRYGG 2 cut(s) 280, 697
BstF5I GGATG 2 cut(s) 538, 598
BstKTI GATC 3 cut(s) 13, 81, 887
BstMAI GTCTC 2 cut(s) 96, 208
BstMBI GATC 3 cut(s) 10, 78, 884
BstMWI GCNNNNNNNGC 1 cut(s) 498
BstNI CCWGG 1 cut(s) 459
BstNSI RCATGY 1 cut(s) 716
BstSCI CCNGG 2 cut(s) 18, 457
BstSFI CTRYAG 1 cut(s) 639
BstSLI GKGCMC 1 cut(s) 840
BstV1I GCAGC 1 cut(s) 763
BstV2I GAAGAC 1 cut(s) 860
BstX2I RGATCY 1 cut(s) 884
BstYI RGATCY 1 cut(s) 884
BsuI GTATCC 1 cut(s) 884
BsuRI GGCC 3 cut(s) 33, 250, 285
BtgI CCRYGG 2 cut(s) 280, 697
BtsCI GGATG 2 cut(s) 538, 598
Cac8I GCNNGC 1 cut(s) 35
Csp6I GTAC 2 cut(s) 693, 845
CviAII CATG 3 cut(s) 605, 713, 766
CviQI GTAC 2 cut(s) 693, 845
DdeI CTNAG 2 cut(s) 113, 894
DpnI GATC 3 cut(s) 12, 80, 886
DpnII GATC 3 cut(s) 10, 78, 884
EaeI YGGCCR 3 cut(s) 31, 248, 283
Eco130I CCWWGG 2 cut(s) 419, 840
Eco32I GATATC 1 cut(s) 208
EcoRI GAATTC 2 cut(s) 313, 433
EcoRII CCWGG 1 cut(s) 457
EcoRV GATATC 1 cut(s) 208
EcoT14I CCWWGG 2 cut(s) 419, 840
ErhI CCWWGG 2 cut(s) 419, 840
FaeI CATG 3 cut(s) 608, 716, 769
FatI CATG 3 cut(s) 604, 712, 765
FauI CCCGC 1 cut(s) 661
Fnu4HI GCNGC 1 cut(s) 752
FokI GGATG 2 cut(s) 545, 605
Fsp4HI GCNGC 1 cut(s) 752
FspBI CTAG 1 cut(s) 99
GluI GCNGC 1 cut(s) 752
HaeIII GGCC 3 cut(s) 33, 250, 285
HapII CCGG 2 cut(s) 19, 888
Hin1II CATG 3 cut(s) 608, 716, 769
HinfI GANTC 4 cut(s) 117, 389, 523, 856
HpaII CCGG 2 cut(s) 19, 888
HphI GGTGA 1 cut(s) 410
Hpy188I TCNGA 3 cut(s) 302, 369, 633
Hpy188III TCNNGA 3 cut(s) 76, 99, 211
HpyAV CCTTC 1 cut(s) 302
HpyCH4III ACNGT 3 cut(s) 376, 416, 778
HpyCH4V TGCA 4 cut(s) 333, 474, 677, 712
HpyF10VI GCNNNNNNNGC 1 cut(s) 498
HpyF3I CTNAG 2 cut(s) 113, 894
Hsp92II CATG 3 cut(s) 608, 716, 769
Kzo9I GATC 3 cut(s) 10, 78, 884
LmnI GCTCC 2 cut(s) 55, 275
Lsp1109I GCAGC 1 cut(s) 763
MaeI CTAG 1 cut(s) 99
MalI GATC 3 cut(s) 12, 80, 886
MboI GATC 3 cut(s) 10, 78, 884
MboII GAAGA 4 cut(s) 148, 392, 608, 865
MflI RGATCY 1 cut(s) 884
MhlI GDGCHC 2 cut(s) 52, 840
MlsI TGGCCA 2 cut(s) 33, 250
MluCI AATT 8 cut(s) 128, 262, 313, 320, 357, 402, 433, 805
MluNI TGGCCA 2 cut(s) 33, 250
MlyI GAGTC 2 cut(s) 111, 850
Mox20I TGGCCA 2 cut(s) 33, 250
MscI TGGCCA 2 cut(s) 33, 250
MseI TTAA 3 cut(s) 174, 360, 747
Msp20I TGGCCA 2 cut(s) 33, 250
MspCI CTTAAG 1 cut(s) 173
MspI CCGG 2 cut(s) 19, 888
MspR9I CCNGG 2 cut(s) 20, 459
MvaI CCWGG 1 cut(s) 459
MwoI GCNNNNNNNGC 1 cut(s) 498
NciI CCSGG 1 cut(s) 20
NdeII GATC 3 cut(s) 10, 78, 884
NlaIII CATG 3 cut(s) 608, 716, 769
NlaIV GGNNCC 2 cut(s) 792, 886
NspI RCATGY 1 cut(s) 716
NspV TTCGAA 1 cut(s) 613
PfeI GAWTC 2 cut(s) 389, 523
PflMI CCANNNNNTGG 1 cut(s) 292
PkrI GCNGC 1 cut(s) 753
PleI GAGTC 2 cut(s) 111, 850
PpsI GAGTC 2 cut(s) 111, 850
PsiI TTATAA 1 cut(s) 648
Psp6I CCWGG 1 cut(s) 457
PspGI CCWGG 1 cut(s) 457
PspN4I GGNNCC 2 cut(s) 792, 886
PsuI RGATCY 1 cut(s) 884
RsaI GTAC 2 cut(s) 694, 846
RsaNI GTAC 2 cut(s) 693, 845
SaqAI TTAA 3 cut(s) 174, 360, 747
SatI GCNGC 1 cut(s) 752
Sau3AI GATC 3 cut(s) 10, 78, 884
SchI GAGTC 2 cut(s) 111, 850
ScrFI CCNGG 2 cut(s) 20, 459
SduI GDGCHC 2 cut(s) 52, 840
SfcI CTRYAG 1 cut(s) 639
SfuI TTCGAA 1 cut(s) 613
SmlI CTYRAG 1 cut(s) 173
SmoI CTYRAG 1 cut(s) 173
Sse9I AATT 8 cut(s) 128, 262, 313, 320, 357, 402, 433, 805
SsiI CCGC 1 cut(s) 654
SspMI CTAG 1 cut(s) 99
StyD4I CCNGG 2 cut(s) 18, 457
StyI CCWWGG 2 cut(s) 419, 840
TaaI ACNGT 3 cut(s) 376, 416, 778
TaqI TCGA 2 cut(s) 324, 613
TasI AATT 8 cut(s) 128, 262, 313, 320, 357, 402, 433, 805
TfiI GAWTC 2 cut(s) 389, 523
Tru1I TTAA 3 cut(s) 174, 360, 747
Tru9I TTAA 3 cut(s) 174, 360, 747
TseI GCWGC 1 cut(s) 751
TspDTI ATGAA 5 cut(s) 321, 567, 576, 609, 818
Van91I CCANNNNNTGG 1 cut(s) 292
Vha464I CTTAAG 1 cut(s) 173
XapI RAATTY 6 cut(s) 128, 313, 320, 402, 433, 805
XbaI TCTAGA 1 cut(s) 98
XceI RCATGY 1 cut(s) 716
XcmI CCANNNNNNNNNTGG 1 cut(s) 526
XspI CTAG 1 cut(s) 99
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.