RchiOBHm_Chr7g0227431

B3 domain-containing transcription factor VRN1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0000156
Physical Location & Seq
Reverse (-)
50649206 .. 50650750
1545 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ20370

Sequence Viewer

Length: 564 bp
ATGTTGTCTGCAACTCTGCATTTCGTCTCTGGCTTATTTTTCTGTTCTTTTTTCGGGATTCCGGAGGACTTTGTGTCTAAATATGGAAAAGATCTATCAAGTTCAGTAACTTTTAGGCTTCCATGTGGTTCAGAATGGGAAGTAGAATTGACAAGGTACAATGGTGAGGTTAGGTTTGAGAAGGGTTGGCCAGACTTCTCGAAGTTTTACTCTCCTGGCTACAATGACCTGCTGGTTTTCGGATATGAAGGGAAGTCTAGATTTCAGGAAGATCAAATAGGGTACATAAAGGTGGTAGGGCCTTGGTCAGGGCAGAAGAACAGTATTCCAGTGTTAGATTTGGTAATGATAATGACTATGCTGTTAATCATCATAGCGGTCATGAGACTCATATGGTGGAGAAAGAAAAAGCATACTAGAGCAAGTGTAGATGTATGGAATTCATCTTCATCATCAGAGCTTGAGATATCCTCTATCCCGGGTTTGCCCATTAGATTTAATTATGAAGAGCTTGTCACCGCAACTGAAAGTTTTAAGACCCAAAATTGGCAGTGGTGGCTTTAG
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

187

Amino Acids

21.7

Weight (kDa)

6.14

Isoelectric Point (pI)

23.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 15 - 88 2.4e-08 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)
Acc36I ACCTGC 1 cut(s) 237
AccIII TCCGGA 1 cut(s) 61
AciI CCGC 2 cut(s) 377, 519
AcoI YGGCCR 1 cut(s) 188
AcsI RAATTY 1 cut(s) 439
AfaI GTAC 2 cut(s) 158, 284
AfiI CCNNNNNNNGG 2 cut(s) 308, 546
AhdI GACNNNNNGTC 1 cut(s) 73
AjnI CCWGG 1 cut(s) 214
AluBI AGCT 2 cut(s) 460, 511
AluI AGCT 2 cut(s) 460, 511
Alw26I GTCTC 2 cut(s) 31, 379
Ama87I CYCGRG 1 cut(s) 478
Aor13HI TCCGGA 1 cut(s) 61
AoxI GGCC 2 cut(s) 188, 299
ApoI RAATTY 1 cut(s) 439
AspS9I GGNCC 1 cut(s) 299
AsuC2I CCSGG 2 cut(s) 479, 480
AsuHPI GGTGA 2 cut(s) 176, 508
AvaI CYCGRG 1 cut(s) 478
BaeI ACNNNNGTAYC 2 cut(s) 148, 181
BalI TGGCCA 1 cut(s) 190
BciT130I CCWGG 1 cut(s) 216
BcnI CCSGG 2 cut(s) 479, 480
BcoDI GTCTC 2 cut(s) 31, 379
BfaI CTAG 2 cut(s) 258, 417
BfuAI ACCTGC 1 cut(s) 237
BglII AGATCT 1 cut(s) 91
Bme1390I CCNGG 3 cut(s) 216, 479, 480
BmeRI GACNNNNNGTC 1 cut(s) 73
BmeT110I CYCGRG 1 cut(s) 478
BmgT120I GGNCC 1 cut(s) 299
BmrFI CCNGG 3 cut(s) 216, 479, 480
BplI GAGNNNNNCTC 2 cut(s) 455, 487
BpuEI CTTGAG 1 cut(s) 482
BpuMI CCSGG 2 cut(s) 479, 480
BsaJI CCNNGG 2 cut(s) 302, 478
BsaWI WCCGGW 1 cut(s) 61
Bsc4I CCNNNNNNNGG 2 cut(s) 308, 546
Bse1I ACTGG 1 cut(s) 329
BseAI TCCGGA 1 cut(s) 61
BseBI CCWGG 1 cut(s) 216
BseDI CCNNGG 2 cut(s) 302, 478
BseLI CCNNNNNNNGG 2 cut(s) 308, 546
BseNI ACTGG 1 cut(s) 329
BshFI GGCC 2 cut(s) 190, 301
BsiHKCI CYCGRG 1 cut(s) 478
BsiSI CCGG 2 cut(s) 62, 479
BslI CCNNNNNNNGG 2 cut(s) 308, 546
BsmAI GTCTC 2 cut(s) 31, 379
BsmBI CGTCTC 1 cut(s) 31
BsnI GGCC 2 cut(s) 190, 301
BsoBI CYCGRG 1 cut(s) 478
Bsp13I TCCGGA 1 cut(s) 61
Bsp143I GATC 2 cut(s) 91, 271
BspACI CCGC 2 cut(s) 377, 519
BspANI GGCC 2 cut(s) 190, 301
BspEI TCCGGA 1 cut(s) 61
BspHI TCATGA 1 cut(s) 381
BspMI ACCTGC 1 cut(s) 237
BspQI GCTCTTC 1 cut(s) 501
BsrI ACTGG 1 cut(s) 329
BssECI CCNNGG 2 cut(s) 302, 478
BssMI GATC 2 cut(s) 91, 271
BssT1I CCWWGG 1 cut(s) 302
Bst2UI CCWGG 1 cut(s) 216
Bst4CI ACNGT 1 cut(s) 323
Bst6I CTCTTC 1 cut(s) 501
BstENI CCTNNNNNAGG 1 cut(s) 306
BstKTI GATC 2 cut(s) 94, 274
BstMAI GTCTC 2 cut(s) 31, 379
BstMBI GATC 2 cut(s) 91, 271
BstMWI GCNNNNNNNGC 1 cut(s) 556
BstNI CCWGG 1 cut(s) 216
BstSCI CCNGG 3 cut(s) 214, 477, 478
BstX2I RGATCY 1 cut(s) 91
BstYI RGATCY 1 cut(s) 91
BsuRI GGCC 2 cut(s) 190, 301
BtsI GCAGTG 1 cut(s) 557
BtsIMutI CAGTG 2 cut(s) 336, 557
BveI ACCTGC 1 cut(s) 237
CciI TCATGA 1 cut(s) 381
Cfr13I GGNCC 1 cut(s) 299
Cfr9I CCCGGG 1 cut(s) 478
Csp6I GTAC 2 cut(s) 157, 283
CviAII CATG 2 cut(s) 123, 382
CviJI RGCY 8 cut(s) 33, 118, 190, 219, 301, 460, 511, 559
CviKI_1 RGCY 8 cut(s) 33, 118, 190, 219, 301, 460, 511, 559
CviQI GTAC 2 cut(s) 157, 283
DpnI GATC 2 cut(s) 93, 273
DpnII GATC 2 cut(s) 91, 271
DriI GACNNNNNGTC 1 cut(s) 73
EaeI YGGCCR 1 cut(s) 188
Eam1104I CTCTTC 1 cut(s) 501
Eam1105I GACNNNNNGTC 1 cut(s) 73
EarI CTCTTC 1 cut(s) 501
Eco130I CCWWGG 1 cut(s) 302
Eco32I GATATC 1 cut(s) 468
Eco88I CYCGRG 1 cut(s) 478
EcoNI CCTNNNNNAGG 1 cut(s) 306
EcoO109I RGGNCCY 1 cut(s) 299
EcoRI GAATTC 1 cut(s) 439
EcoRII CCWGG 1 cut(s) 214
EcoRV GATATC 1 cut(s) 468
EcoT14I CCWWGG 1 cut(s) 302
ErhI CCWWGG 1 cut(s) 302
Esp3I CGTCTC 1 cut(s) 31
FaeI CATG 2 cut(s) 126, 385
FatI CATG 2 cut(s) 122, 381
FauNDI CATATG 1 cut(s) 392
FspBI CTAG 2 cut(s) 258, 417
HaeIII GGCC 2 cut(s) 190, 301
HapII CCGG 2 cut(s) 62, 479
Hin1II CATG 2 cut(s) 126, 385
HinfI GANTC 2 cut(s) 58, 387
HpaII CCGG 2 cut(s) 62, 479
HphI GGTGA 2 cut(s) 176, 508
Hpy188I TCNGA 3 cut(s) 133, 242, 457
Hpy188III TCNNGA 6 cut(s) 55, 62, 199, 258, 266, 382
HpyAV CCTTC 2 cut(s) 175, 242
HpyCH4III ACNGT 1 cut(s) 323
HpyCH4V TGCA 2 cut(s) 11, 19
HpyF10VI GCNNNNNNNGC 1 cut(s) 556
Hsp92II CATG 2 cut(s) 126, 385
Kpn2I TCCGGA 1 cut(s) 61
Kzo9I GATC 2 cut(s) 91, 271
LguI GCTCTTC 1 cut(s) 501
MaeI CTAG 2 cut(s) 258, 417
MaeIII GTNAC 2 cut(s) 106, 514
MalI GATC 2 cut(s) 93, 273
MboI GATC 2 cut(s) 91, 271
MboII GAAGA 4 cut(s) 281, 328, 438, 518
MflI RGATCY 1 cut(s) 91
MlsI TGGCCA 1 cut(s) 190
MluCI AATT 4 cut(s) 146, 439, 499, 544
MluNI TGGCCA 1 cut(s) 190
MlyI GAGTC 1 cut(s) 381
MnlI CCTC 3 cut(s) 58, 160, 481
Mox20I TGGCCA 1 cut(s) 190
MroI TCCGGA 1 cut(s) 61
MscI TGGCCA 1 cut(s) 190
MseI TTAA 3 cut(s) 365, 498, 534
MslI CAYNNNNRTG 1 cut(s) 290
Msp20I TGGCCA 1 cut(s) 190
MspI CCGG 2 cut(s) 62, 479
MspR9I CCNGG 3 cut(s) 216, 479, 480
MvaI CCWGG 1 cut(s) 216
MwoI GCNNNNNNNGC 1 cut(s) 556
NciI CCSGG 2 cut(s) 479, 480
NdeI CATATG 1 cut(s) 392
NdeII GATC 2 cut(s) 91, 271
NlaIII CATG 2 cut(s) 126, 385
NmuCI GTSAC 1 cut(s) 514
PagI TCATGA 1 cut(s) 381
PciSI GCTCTTC 1 cut(s) 501
PfeI GAWTC 1 cut(s) 58
PleI GAGTC 1 cut(s) 381
PpsI GAGTC 1 cut(s) 381
Psp6I CCWGG 1 cut(s) 214
PspGI CCWGG 1 cut(s) 214
PspPI GGNCC 1 cut(s) 299
PsuI RGATCY 1 cut(s) 91
RsaI GTAC 2 cut(s) 158, 284
RsaNI GTAC 2 cut(s) 157, 283
RseI CAYNNNNRTG 1 cut(s) 290
SapI GCTCTTC 1 cut(s) 501
SaqAI TTAA 3 cut(s) 365, 498, 534
Sau3AI GATC 2 cut(s) 91, 271
Sau96I GGNCC 1 cut(s) 299
SchI GAGTC 1 cut(s) 381
ScrFI CCNGG 3 cut(s) 216, 479, 480
SetI ASST 7 cut(s) 158, 171, 176, 231, 294, 462, 513
SmaI CCCGGG 1 cut(s) 480
SmiMI CAYNNNNRTG 1 cut(s) 290
SmlI CTYRAG 1 cut(s) 461
SmoI CTYRAG 1 cut(s) 461
Sse9I AATT 4 cut(s) 146, 439, 499, 544
SsiI CCGC 2 cut(s) 377, 519
SspMI CTAG 2 cut(s) 258, 417
StyD4I CCNGG 3 cut(s) 214, 477, 478
StyI CCWWGG 1 cut(s) 302
TaaI ACNGT 1 cut(s) 323
TaqI TCGA 1 cut(s) 200
TasI AATT 4 cut(s) 146, 439, 499, 544
TfiI GAWTC 1 cut(s) 58
Tru1I TTAA 3 cut(s) 365, 498, 534
Tru9I TTAA 3 cut(s) 365, 498, 534
TscAI CASTG 2 cut(s) 336, 557
TseFI GTSAC 1 cut(s) 514
Tsp45I GTSAC 1 cut(s) 514
TspDTI ATGAA 4 cut(s) 261, 432, 438, 519
TspMI CCCGGG 1 cut(s) 478
TspRI CASTG 2 cut(s) 336, 557
XagI CCTNNNNNAGG 1 cut(s) 306
XapI RAATTY 1 cut(s) 439
XbaI TCTAGA 1 cut(s) 257
XmaI CCCGGG 1 cut(s) 478
XspI CTAG 2 cut(s) 258, 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.