Rroxscaffold_2G00139630

B3 domain-containing transcription factor VRN1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000156
Physical Location & Seq
Forward (+)
77993637 .. 77996722
3086 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00139630.1

Sequence Viewer

Length: 1158 bp
ATGGCTTCTTCGTATCTTCGCCGGAAATGTGCTGATCAGCGGCCAAGATCGTCTTCCACCACTCCCCGGCGTTTTCTCAAGGTTATTTCAGACGACACTTCCAGAGACAGAAAGCTCGGGATTCCAAAGAGCTTTTTGGATAAATATGGAGAAGATCTATCAAATCTAGTATACTTTAAGCTCCCATGTGGTCCAGAATGGGAAATAGGACTCACAAGCTACAATAAAGAGGTTTGGTTTAGGAAAGGCTGGCCAGAGTTCTCTGAGTTTCACTCTCTTGAGAAAGGCTACTCGCTACTTTTCGGGTATGAAGGGGATTCTAGGTTTCAGGTTTCCATATTTGATGGAAGCAACAACATGGAGATTCACTATACCACAAGAATGCTCGAAAGTGAAGAAGGTGATCAAGATGATGATATATCTCTTGAGATCTCAGAGGATGTTCGACGAACTGCTCTGTCTCACAAGAAAAACAGAACAGTTTTGAGTCCTAAAGCAGAAATCAATGTCAATTTTGAGGAGCGTGTGAAGAAAGAGACACATTGGTCAAAATCAGAAATGAAAACAGGGAAACACGATTTTCCAGCGAAAAGAGATGGGGGAGGCACATCAAGCACTCAAAGATGCCGAAAACAGACACCAAGAGTTTTTGGGAGAGCTAAATCTTACAAGCGTTCTTTCAAAGTTCCCATGCATAGCTCTTATATCATTCAAAAATTTTTGTGGCTGCCTAAAACGTTTGTCCAGACACATCTTCTTAAGCAGCCTAGTAATGCTATACTTAAAGTTTCGGGTGGAAGGAAAACTTGGCCTGTTAAATTGACATATGAAGAAACAAAAGGAAGAGCCAAATTTCTGTCTGGTTGGACTGACTTTGTGAGAGACAAGAATTTAAAAGATGGAGATGTGTGTGAGTTTGTGTTGATTCACAGCAACAGACTTGTATTTGAAGTTAGGATAAATACTGCAAATCGCACCTTATCACCAGGTAACTTGTTTGTTAGCATAGGAATATTATTTGATCAAGTGCCAAACAGACTTAGTATAAATGCCATCACTTCCATTACCGTTGTCAAGGGCCTGCAGACATTGATGATGGTGATGATGAGGATGATGAAGATGAAGATGAAGAGGATAGTGATGATGAATCAATTGTAA
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

385

Amino Acids

44.61

Weight (kDa)

9.82

Isoelectric Point (pI)

40.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 25 - 116 4.2e-13 B3 DNA binding domain
B3 PF02362 228 - 320 1.2e-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
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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)
AasI GACNNNNNNGTC 1 cut(s) 544
AccI GTMKAC 1 cut(s) 171
AciI CCGC 1 cut(s) 40
AclI AACGTT 1 cut(s) 737
AcoI YGGCCR 2 cut(s) 41, 251
AcsI RAATTY 3 cut(s) 716, 851, 889
AfiI CCNNNNNNNGG 1 cut(s) 66
AflII CTTAAG 1 cut(s) 758
AgsI TTSAA 3 cut(s) 682, 713, 950
AjnI CCWGG 1 cut(s) 985
AjuI GAANNNNNNNTTGG 4 cut(s) 37, 69, 790, 822
AluBI AGCT 6 cut(s) 115, 132, 181, 219, 659, 699
AluI AGCT 6 cut(s) 115, 132, 181, 219, 659, 699
Alw26I GTCTC 4 cut(s) 99, 465, 530, 876
Ama87I CYCGRG 1 cut(s) 116
AoxI GGCC 4 cut(s) 41, 251, 809, 1078
ApeKI GCWGC 2 cut(s) 727, 763
ApoI RAATTY 3 cut(s) 716, 851, 889
AspS9I GGNCC 2 cut(s) 191, 1078
AsuC2I CCSGG 1 cut(s) 67
AsuHPI GGTGA 3 cut(s) 413, 975, 1111
AvaI CYCGRG 1 cut(s) 116
AvaII GGWCC 1 cut(s) 191
BalI TGGCCA 1 cut(s) 253
BbsI GAAGAC 1 cut(s) 45
BbvI GCAGC 2 cut(s) 714, 775
BccI CCATC 5 cut(s) 338, 590, 893, 1061, 1090
BciT130I CCWGG 1 cut(s) 987
BclI TGATCA 3 cut(s) 34, 403, 1021
BcnI CCSGG 1 cut(s) 67
BcoDI GTCTC 4 cut(s) 99, 465, 530, 876
BfaI CTAG 3 cut(s) 167, 321, 768
BfmI CTRYAG 1 cut(s) 1082
BfrI CTTAAG 1 cut(s) 758
BglII AGATCT 2 cut(s) 154, 429
BisI GCNGC 3 cut(s) 41, 728, 764
BlsI GCNGC 3 cut(s) 42, 729, 765
Bme1390I CCNGG 2 cut(s) 67, 987
Bme18I GGWCC 1 cut(s) 191
BmeT110I CYCGRG 1 cut(s) 116
BmgT120I GGNCC 2 cut(s) 191, 1078
BmrFI CCNGG 2 cut(s) 67, 987
BmsI GCATC 1 cut(s) 614
BpiI GAAGAC 1 cut(s) 45
BplI GAGNNNNNCTC 2 cut(s) 257, 289
BpuEI CTTGAG 3 cut(s) 62, 299, 446
BpuMI CCSGG 1 cut(s) 67
BsaJI CCNNGG 1 cut(s) 65
Bsc4I CCNNNNNNNGG 1 cut(s) 66
BseBI CCWGG 1 cut(s) 987
BseDI CCNNGG 1 cut(s) 65
BseGI GGATG 2 cut(s) 445, 1116
BseLI CCNNNNNNNGG 1 cut(s) 66
BseMII CTCAG 2 cut(s) 255, 447
BseRI GAGGAG 1 cut(s) 533
BseXI GCAGC 2 cut(s) 714, 775
BshFI GGCC 4 cut(s) 43, 253, 811, 1080
BsiHKCI CYCGRG 1 cut(s) 116
BsiSI CCGG 2 cut(s) 22, 67
BslI CCNNNNNNNGG 1 cut(s) 66
BsmAI GTCTC 4 cut(s) 99, 465, 530, 876
BsmI GAATGC 1 cut(s) 387
BsnI GGCC 4 cut(s) 43, 253, 811, 1080
BsoBI CYCGRG 1 cut(s) 116
Bsp143I GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
BspACI CCGC 1 cut(s) 40
BspANI GGCC 4 cut(s) 43, 253, 811, 1080
BspCNI CTCAG 2 cut(s) 256, 446
BspMAI CTGCAG 1 cut(s) 1086
BspQI GCTCTTC 1 cut(s) 838
BspTI CTTAAG 1 cut(s) 758
BssECI CCNNGG 1 cut(s) 65
BssMI GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
BssNAI GTATAC 1 cut(s) 172
Bst1107I GTATAC 1 cut(s) 172
Bst2UI CCWGG 1 cut(s) 987
Bst4CI ACNGT 2 cut(s) 481, 1069
Bst6I CTCTTC 2 cut(s) 838, 1124
BstAFI CTTAAG 1 cut(s) 758
BstC8I GCNNGC 2 cut(s) 251, 1082
BstDEI CTNAG 3 cut(s) 264, 433, 1040
BstF5I GGATG 2 cut(s) 445, 1116
BstKTI GATC 6 cut(s) 37, 50, 157, 406, 432, 1024
BstMAI GTCTC 4 cut(s) 99, 465, 530, 876
BstMBI GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
BstMWI GCNNNNNNNGC 1 cut(s) 612
BstNI CCWGG 1 cut(s) 987
BstSCI CCNGG 2 cut(s) 65, 985
BstSFI CTRYAG 1 cut(s) 1082
BstV1I GCAGC 2 cut(s) 714, 775
BstV2I GAAGAC 1 cut(s) 45
BstX2I RGATCY 2 cut(s) 154, 429
BstYI RGATCY 2 cut(s) 154, 429
BstZ17I GTATAC 1 cut(s) 172
BsuRI GGCC 4 cut(s) 43, 253, 811, 1080
BtsCI GGATG 2 cut(s) 445, 1116
Cac8I GCNNGC 2 cut(s) 251, 1082
Cfr13I GGNCC 2 cut(s) 191, 1078
CsiI ACCWGGT 1 cut(s) 985
CviAII CATG 3 cut(s) 186, 358, 691
DdeI CTNAG 3 cut(s) 264, 433, 1040
DpnI GATC 6 cut(s) 36, 49, 156, 405, 431, 1023
DpnII GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
DraI TTTAAA 1 cut(s) 894
DrdI GACNNNNNNGTC 1 cut(s) 544
DseDI GACNNNNNNGTC 1 cut(s) 544
EaeI YGGCCR 2 cut(s) 41, 251
Eam1104I CTCTTC 2 cut(s) 838, 1124
EarI CTCTTC 2 cut(s) 838, 1124
Eco47I GGWCC 1 cut(s) 191
Eco88I CYCGRG 1 cut(s) 116
EcoO109I RGGNCCY 1 cut(s) 1078
EcoRII CCWGG 1 cut(s) 985
EcoT22I ATGCAT 1 cut(s) 696
FaeI CATG 3 cut(s) 189, 361, 694
FalI AAGNNNNNCTT 4 cut(s) 37, 69, 790, 822
FatI CATG 3 cut(s) 185, 357, 690
FauNDI CATATG 1 cut(s) 826
FbaI TGATCA 3 cut(s) 34, 403, 1021
FblI GTMKAC 1 cut(s) 171
Fnu4HI GCNGC 3 cut(s) 41, 728, 764
FokI GGATG 2 cut(s) 452, 1123
Fsp4HI GCNGC 3 cut(s) 41, 728, 764
FspBI CTAG 3 cut(s) 167, 321, 768
GluI GCNGC 3 cut(s) 41, 728, 764
HaeIII GGCC 4 cut(s) 43, 253, 811, 1080
HapII CCGG 2 cut(s) 22, 67
Hin1II CATG 3 cut(s) 189, 361, 694
HinfI GANTC 7 cut(s) 121, 210, 317, 364, 487, 925, 1147
HpaII CCGG 2 cut(s) 22, 67
HphI GGTGA 3 cut(s) 413, 975, 1111
Hpy166II GTNNAC 1 cut(s) 172
Hpy188I TCNGA 4 cut(s) 91, 265, 436, 556
Hpy188III TCNNGA 7 cut(s) 102, 118, 194, 278, 407, 425, 745
Hpy8I GTNNAC 1 cut(s) 172
Hpy99I CGWCG 1 cut(s) 450
HpyAV CCTTC 3 cut(s) 305, 392, 792
HpyCH4III ACNGT 2 cut(s) 481, 1069
HpyCH4IV ACGT 1 cut(s) 737
HpyCH4V TGCA 3 cut(s) 694, 968, 1084
HpyF10VI GCNNNNNNNGC 1 cut(s) 612
HpyF3I CTNAG 3 cut(s) 264, 433, 1040
HpySE526I ACGT 1 cut(s) 737
Hsp92II CATG 3 cut(s) 189, 361, 694
Ksp22I TGATCA 3 cut(s) 34, 403, 1021
Kzo9I GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
LguI GCTCTTC 1 cut(s) 838
LmnI GCTCC 2 cut(s) 186, 520
Lsp1109I GCAGC 2 cut(s) 714, 775
LweI GCATC 1 cut(s) 614
MabI ACCWGGT 1 cut(s) 985
MaeI CTAG 3 cut(s) 167, 321, 768
MaeII ACGT 1 cut(s) 737
MaeIII GTNAC 1 cut(s) 989
MalI GATC 6 cut(s) 36, 49, 156, 405, 431, 1023
MboI GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
MfeI CAATTG 1 cut(s) 1151
MflI RGATCY 2 cut(s) 154, 429
MlsI TGGCCA 1 cut(s) 253
MluCI AATT 6 cut(s) 511, 716, 818, 851, 889, 1151
MluNI TGGCCA 1 cut(s) 253
MlyI GAGTC 2 cut(s) 204, 496
MmeI TCCRAC 1 cut(s) 845
MnlI CCTC 6 cut(s) 223, 430, 511, 596, 1101, 1125
Mox20I TGGCCA 1 cut(s) 253
Mph1103I ATGCAT 1 cut(s) 696
MscI TGGCCA 1 cut(s) 253
MseI TTAA 5 cut(s) 177, 759, 783, 816, 893
MslI CAYNNNNRTG 1 cut(s) 380
Msp20I TGGCCA 1 cut(s) 253
MspA1I CMGCKG 1 cut(s) 40
MspCI CTTAAG 1 cut(s) 758
MspI CCGG 2 cut(s) 22, 67
MspR9I CCNGG 2 cut(s) 67, 987
MunI CAATTG 1 cut(s) 1151
Mva1269I GAATGC 1 cut(s) 387
MvaI CCWGG 1 cut(s) 987
MwoI GCNNNNNNNGC 1 cut(s) 612
NciI CCSGG 1 cut(s) 67
NdeI CATATG 1 cut(s) 826
NdeII GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
NlaIII CATG 3 cut(s) 189, 361, 694
NsiI ATGCAT 1 cut(s) 696
PciSI GCTCTTC 1 cut(s) 838
PctI GAATGC 1 cut(s) 387
PfeI GAWTC 5 cut(s) 121, 317, 364, 925, 1147
PkrI GCNGC 3 cut(s) 42, 729, 765
PleI GAGTC 2 cut(s) 204, 495
PpsI GAGTC 2 cut(s) 204, 495
Psp1406I AACGTT 1 cut(s) 737
Psp6I CCWGG 1 cut(s) 985
PspGI CCWGG 1 cut(s) 985
PspPI GGNCC 2 cut(s) 191, 1078
PstI CTGCAG 1 cut(s) 1086
PsuI RGATCY 2 cut(s) 154, 429
RseI CAYNNNNRTG 1 cut(s) 380
SapI GCTCTTC 1 cut(s) 838
SaqAI TTAA 5 cut(s) 177, 759, 783, 816, 893
SatI GCNGC 3 cut(s) 41, 728, 764
Sau3AI GATC 6 cut(s) 34, 47, 154, 403, 429, 1021
Sau96I GGNCC 2 cut(s) 191, 1078
SchI GAGTC 2 cut(s) 204, 496
ScrFI CCNGG 2 cut(s) 67, 987
SexAI ACCWGGT 1 cut(s) 985
SfaNI GCATC 1 cut(s) 614
SfcI CTRYAG 1 cut(s) 1082
SinI GGWCC 1 cut(s) 191
SmiMI CAYNNNNRTG 1 cut(s) 380
SmlI CTYRAG 4 cut(s) 77, 278, 425, 758
SmoI CTYRAG 4 cut(s) 77, 278, 425, 758
Sse9I AATT 6 cut(s) 511, 716, 818, 851, 889, 1151
SsiI CCGC 1 cut(s) 40
SspI AATATT 1 cut(s) 1014
SspMI CTAG 3 cut(s) 167, 321, 768
StyD4I CCNGG 2 cut(s) 65, 985
TaaI ACNGT 2 cut(s) 481, 1069
TaiI ACGT 1 cut(s) 740
TaqI TCGA 2 cut(s) 387, 445
TasI AATT 6 cut(s) 511, 716, 818, 851, 889, 1151
TauI GCSGC 1 cut(s) 43
TfiI GAWTC 5 cut(s) 121, 317, 364, 925, 1147
Tru1I TTAA 5 cut(s) 177, 759, 783, 816, 893
Tru9I TTAA 5 cut(s) 177, 759, 783, 816, 893
TseI GCWGC 2 cut(s) 727, 763
TspDTI ATGAA 6 cut(s) 324, 575, 843, 1130, 1136, 1142
Vha464I CTTAAG 1 cut(s) 758
VpaK11BI GGWCC 1 cut(s) 191
XapI RAATTY 3 cut(s) 716, 851, 889
XmiI GTMKAC 1 cut(s) 171
XspI CTAG 3 cut(s) 167, 321, 768
Zsp2I ATGCAT 1 cut(s) 696
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.