Rh2BG377800

B3 domain-containing transcription factor VRN1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000156
Physical Location & Seq
Forward (+)
53433922 .. 53435735
1814 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG377800.1

Sequence Viewer

Length: 1422 bp
ATGAAATATGGAGAAGATGTATCAAATTCAGCTTTTCTTAAGCTTCCAAGCGGTTCTGAGTGGGAAGTGGAATTGACAAGGTGCAACGGTAAGGTTTGGTTTGAAAGGGGCTGGCCAGAGTTCTCTAAGTTCTGCTCTTTAGACTACGGTGACTTCCTAGTTTTTCGATATGAAGGGAATTCTATATTCCAAGTTTGCATATTCGATAGAACTGCCACAGAAATTGATTATCCCATAACAATGCCCGATATGGAAAAGACGGATCATGAAGATGAAGAAGATGATAATATATCTATTGAAATCTCGGAGGATTCTCCACCCCACCCGAAAACAAGGGAGAAATCTCCATTACCATGCCCTCCATCATTCAAAAAAATGAGAACAAGTTGGAGTGGTAAAGCAGCCGACACGATGTTTGGAAATGATGGCGGAGGCTCGTCTAGTGCACGAAGATACCAGAAGGGAACAGTTGAGGCTATTGGGGAGATGCATTCACTGAATAAAAGTGAAAAAGCTCAAGCTCTATGGAGAGTTGATGCTTTCATATCTGAAAACCCTCACTTCAAGGTCGTATTGCAGCCTTCATATGTGCAACAAAGTTATTTGGGTTTTCCAGTGAAGTTTTTCAAGAGAAATGTAATTAAAGACGCTGATAATGTCACCCTTCGGGTTTCAAATGGAAAAACTTGGTCCGTCAAGTTCAAATATGAAAAATCAAGGGCCAGACTCCAGCATGGTTGGCTTGCATTTGTAAAGGACAATTGTTTGAAAGTGGGTGATGTGTGTGTCTTTGCCTTGATTAAGGACATTAAGCTTTTATTTCAAGTCGAATTTTTTCGAGCTACAAGTTTCCCCTTGCTACCAGGGCATGGTAGAGGTGTAATTGAACAAGTTGAACATAGTAGAAGCTCAATAATTAAAGTGGAATCGGATTGCAGCATGAATTGTGATATGACCTCTATTAGTCCTTCTCCTCATGAAATTGGTAAGCCTACAGAATGCAAGAACAAAAGGTCAAAAACTAGTGGGAAGGTTGCTCAAAGGCGTTGCTCATCTTTAAGGGTTCCAAGGGTTAATCTTGAAGCTGCCAACAAGTTCATTCCAAACAATCCCTTCTTCAAAGTCTCTCTTGGGGCTTGTCATATGGAGAAGTCAAATGTGAGTGTACCAACTAGTTTTATCAGGCAGTTCATAAAGCGACTGGAGAAACAAACAGTGATGCTTCAGGTTAAAAATAGATTGTGGCCTGTGAATTTGATTCCTTATGCTTATAGTAATCAACGACTATCAACCAAACTTTGTGGCGGTTGGATTGCATTTGCCAGGGAACATGATTTGAAAGGAGGTGATGTTTGTGTATTTGAGCTTATGGAGATGAAAGCCAATATTGTACTGAAAGTTCACATTTTTAGATGTGATTAG
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

473

Amino Acids

53.91

Weight (kDa)

8.96

Isoelectric Point (pI)

44.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 10 - 70 2.1e-10 B3 DNA binding domain
B3 PF02362 188 - 281 9.1e-18 B3 DNA binding domain
B3 PF02362 372 - 469 9.2e-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
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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)
AccB7I CCANNNNNTGG 1 cut(s) 869
AciI CCGC 3 cut(s) 51, 429, 1305
AclWI GGATC 1 cut(s) 270
AcoI YGGCCR 1 cut(s) 113
AcsI RAATTY 4 cut(s) 25, 178, 830, 1252
AcuI CTGAAG 1 cut(s) 1208
AfaI GTAC 2 cut(s) 1167, 1392
AfiI CCNNNNNNNGG 1 cut(s) 869
AflII CTTAAG 1 cut(s) 38
AhlI ACTAGT 2 cut(s) 1022, 1172
AjnI CCWGG 2 cut(s) 862, 1322
AluBI AGCT 9 cut(s) 32, 43, 515, 521, 814, 842, 909, 1085, 1366
AluI AGCT 9 cut(s) 32, 43, 515, 521, 814, 842, 909, 1085, 1366
Alw21I GWGCWC 1 cut(s) 448
Alw26I GTCTC 1 cut(s) 1129
Alw44I GTGCAC 1 cut(s) 444
AlwI GGATC 1 cut(s) 270
AoxI GGCC 3 cut(s) 113, 720, 1244
ApaLI GTGCAC 1 cut(s) 444
ApeKI GCWGC 4 cut(s) 401, 577, 936, 1085
ApoI RAATTY 4 cut(s) 25, 178, 830, 1252
ArsI GACNNNNNNTTYG 2 cut(s) 398, 430
Asp700I GAANNNNTTC 2 cut(s) 623, 834
AspS9I GGNCC 2 cut(s) 690, 720
AsuHPI GGTGA 4 cut(s) 161, 652, 788, 1358
AvaII GGWCC 1 cut(s) 690
BaeGI GKGCMC 1 cut(s) 448
BalI TGGCCA 1 cut(s) 115
Bbv12I GWGCWC 1 cut(s) 448
BbvI GCAGC 4 cut(s) 413, 589, 948, 1072
BccI CCATC 2 cut(s) 370, 419
BcgI CGANNNNNNTGC 2 cut(s) 194, 228
BciT130I CCWGG 2 cut(s) 864, 1324
BcoDI GTCTC 1 cut(s) 1129
BcuI ACTAGT 2 cut(s) 1022, 1172
BfaI CTAG 4 cut(s) 158, 441, 1023, 1173
BfmI CTRYAG 1 cut(s) 993
BfrI CTTAAG 1 cut(s) 38
BisI GCNGC 4 cut(s) 402, 578, 937, 1086
BlsI GCNGC 4 cut(s) 403, 579, 938, 1087
Bme1390I CCNGG 2 cut(s) 864, 1324
Bme18I GGWCC 1 cut(s) 690
BmgT120I GGNCC 2 cut(s) 690, 720
BmiI GGNNCC 1 cut(s) 1065
BmrFI CCNGG 2 cut(s) 864, 1324
BmsI GCATC 3 cut(s) 477, 526, 1209
BpmI CTGGAG 2 cut(s) 713, 1223
BpuEI CTTGAG 1 cut(s) 501
BsaJI CCNNGG 3 cut(s) 863, 1067, 1323
BsaXI ACNNNNNCTCC 3 cut(s) 33, 1335, 1365
Bsc4I CCNNNNNNNGG 1 cut(s) 869
Bse1I ACTGG 2 cut(s) 614, 1206
BseBI CCWGG 2 cut(s) 864, 1324
BseDI CCNNGG 3 cut(s) 863, 1067, 1323
BseLI CCNNNNNNNGG 1 cut(s) 869
BseMII CTCAG 1 cut(s) 48
BseNI ACTGG 2 cut(s) 614, 1206
BseRI GAGGAG 1 cut(s) 963
BseSI GKGCMC 1 cut(s) 448
BseXI GCAGC 4 cut(s) 413, 589, 948, 1072
BshFI GGCC 3 cut(s) 115, 722, 1246
BsiHKAI GWGCWC 1 cut(s) 448
BslI CCNNNNNNNGG 1 cut(s) 869
BsmAI GTCTC 1 cut(s) 1129
BsmI GAATGC 2 cut(s) 490, 1004
BsnI GGCC 3 cut(s) 115, 722, 1246
Bsp1286I GDGCHC 1 cut(s) 448
Bsp143I GATC 1 cut(s) 262
BspACI CCGC 3 cut(s) 51, 429, 1305
BspANI GGCC 3 cut(s) 115, 722, 1246
BspCNI CTCAG 1 cut(s) 49
BspHI TCATGA 2 cut(s) 265, 976
BspLI GGNNCC 1 cut(s) 1065
BspPI GGATC 1 cut(s) 270
BspTI CTTAAG 1 cut(s) 38
BsrI ACTGG 2 cut(s) 614, 1206
BssECI CCNNGG 3 cut(s) 863, 1067, 1323
BssMI GATC 1 cut(s) 262
BssT1I CCWWGG 1 cut(s) 1067
Bst2UI CCWGG 2 cut(s) 864, 1324
Bst4CI ACNGT 4 cut(s) 89, 149, 469, 1216
BstAFI CTTAAG 1 cut(s) 38
BstC8I GCNNGC 2 cut(s) 113, 744
BstDEI CTNAG 2 cut(s) 57, 126
BstKTI GATC 1 cut(s) 265
BstMAI GTCTC 1 cut(s) 1129
BstMBI GATC 1 cut(s) 262
BstMWI GCNNNNNNNGC 2 cut(s) 739, 865
BstNI CCWGG 2 cut(s) 864, 1324
BstSCI CCNGG 2 cut(s) 862, 1322
BstSFI CTRYAG 1 cut(s) 993
BstSLI GKGCMC 1 cut(s) 448
BstV1I GCAGC 4 cut(s) 413, 589, 948, 1072
BsuRI GGCC 3 cut(s) 115, 722, 1246
BtsIMutI CAGTG 3 cut(s) 494, 621, 1221
Cac8I GCNNGC 2 cut(s) 113, 744
CciI TCATGA 2 cut(s) 265, 976
Cfr13I GGNCC 2 cut(s) 690, 720
CseI GACGC 1 cut(s) 656
Csp6I GTAC 2 cut(s) 1166, 1391
CspCI CAANNNNNGTGG 4 cut(s) 205, 240, 1282, 1317
CviAII CATG 7 cut(s) 266, 354, 734, 869, 940, 977, 1331
CviQI GTAC 2 cut(s) 1166, 1391
DdeI CTNAG 2 cut(s) 57, 126
DpnI GATC 1 cut(s) 264
DpnII GATC 1 cut(s) 262
EaeI YGGCCR 1 cut(s) 113
EciI GGCGGA 1 cut(s) 444
Eco130I CCWWGG 1 cut(s) 1067
Eco47I GGWCC 1 cut(s) 690
Eco57I CTGAAG 1 cut(s) 1208
EcoRI GAATTC 1 cut(s) 178
EcoRII CCWGG 2 cut(s) 862, 1322
EcoT14I CCWWGG 1 cut(s) 1067
EcoT22I ATGCAT 1 cut(s) 492
ErhI CCWWGG 1 cut(s) 1067
FaeI CATG 7 cut(s) 269, 357, 737, 872, 943, 980, 1334
FalI AAGNNNNNCTT 2 cut(s) 1113, 1145
FatI CATG 7 cut(s) 265, 353, 733, 868, 939, 976, 1330
FauNDI CATATG 2 cut(s) 586, 1143
Fnu4HI GCNGC 4 cut(s) 402, 578, 937, 1086
Fsp4HI GCNGC 4 cut(s) 402, 578, 937, 1086
FspBI CTAG 4 cut(s) 158, 441, 1023, 1173
GluI GCNGC 4 cut(s) 402, 578, 937, 1086
GsuI CTGGAG 2 cut(s) 713, 1223
HaeIII GGCC 3 cut(s) 115, 722, 1246
HgaI GACGC 1 cut(s) 656
Hin1II CATG 7 cut(s) 269, 357, 737, 872, 943, 980, 1334
HindIII AAGCTT 2 cut(s) 41, 812
HinfI GANTC 4 cut(s) 311, 726, 926, 1258
HphI GGTGA 4 cut(s) 161, 652, 788, 1358
Hpy166II GTNNAC 3 cut(s) 446, 1166, 1402
Hpy188I TCNGA 4 cut(s) 58, 307, 550, 931
Hpy188III TCNNGA 4 cut(s) 266, 628, 977, 1079
Hpy8I GTNNAC 3 cut(s) 446, 1166, 1402
HpyAV CCTTC 7 cut(s) 167, 454, 591, 674, 978, 1024, 1123
HpyCH4III ACNGT 4 cut(s) 89, 149, 469, 1216
HpyF10VI GCNNNNNNNGC 2 cut(s) 739, 865
HpyF3I CTNAG 2 cut(s) 57, 126
Hsp92II CATG 7 cut(s) 269, 357, 737, 872, 943, 980, 1334
Kzo9I GATC 1 cut(s) 262
Lsp1109I GCAGC 4 cut(s) 413, 589, 948, 1072
LweI GCATC 3 cut(s) 477, 526, 1209
MaeI CTAG 4 cut(s) 158, 441, 1023, 1173
MaeIII GTNAC 2 cut(s) 149, 658
MalI GATC 1 cut(s) 264
MboI GATC 1 cut(s) 262
MboII GAAGA 6 cut(s) 26, 281, 287, 290, 462, 1108
MfeI CAATTG 1 cut(s) 760
MhlI GDGCHC 1 cut(s) 448
MlsI TGGCCA 1 cut(s) 115
MluNI TGGCCA 1 cut(s) 115
MlyI GAGTC 1 cut(s) 720
MmeI TCCRAC 2 cut(s) 368, 1289
MnlI CCTC 9 cut(s) 301, 369, 425, 466, 567, 869, 967, 984, 1337
Mox20I TGGCCA 1 cut(s) 115
Mph1103I ATGCAT 1 cut(s) 492
MroXI GAANNNNTTC 2 cut(s) 623, 834
MscI TGGCCA 1 cut(s) 115
MseI TTAA 8 cut(s) 39, 642, 801, 810, 918, 1058, 1074, 1230
MslI CAYNNNNRTG 3 cut(s) 239, 270, 352
Msp20I TGGCCA 1 cut(s) 115
MspCI CTTAAG 1 cut(s) 38
MspR9I CCNGG 2 cut(s) 864, 1324
MunI CAATTG 1 cut(s) 760
Mva1269I GAATGC 2 cut(s) 490, 1004
MvaI CCWGG 2 cut(s) 864, 1324
MwoI GCNNNNNNNGC 2 cut(s) 739, 865
NdeI CATATG 2 cut(s) 586, 1143
NdeII GATC 1 cut(s) 262
NlaIII CATG 7 cut(s) 269, 357, 737, 872, 943, 980, 1334
NlaIV GGNNCC 1 cut(s) 1065
NmuCI GTSAC 2 cut(s) 149, 658
NsiI ATGCAT 1 cut(s) 492
PagI TCATGA 2 cut(s) 265, 976
PctI GAATGC 2 cut(s) 490, 1004
PdmI GAANNNNTTC 2 cut(s) 623, 834
PfeI GAWTC 3 cut(s) 311, 926, 1258
PflMI CCANNNNNTGG 1 cut(s) 869
PkrI GCNGC 4 cut(s) 403, 579, 938, 1087
PleI GAGTC 1 cut(s) 720
PpsI GAGTC 1 cut(s) 720
Psp6I CCWGG 2 cut(s) 862, 1322
PspGI CCWGG 2 cut(s) 862, 1322
PspN4I GGNNCC 1 cut(s) 1065
PspPI GGNCC 2 cut(s) 690, 720
PsrI GAACNNNNNNTAC 2 cut(s) 1383, 1415
RsaI GTAC 2 cut(s) 1167, 1392
RsaNI GTAC 2 cut(s) 1166, 1391
RseI CAYNNNNRTG 3 cut(s) 239, 270, 352
SaqAI TTAA 8 cut(s) 39, 642, 801, 810, 918, 1058, 1074, 1230
SatI GCNGC 4 cut(s) 402, 578, 937, 1086
Sau3AI GATC 1 cut(s) 262
Sau96I GGNCC 2 cut(s) 690, 720
SchI GAGTC 1 cut(s) 720
ScrFI CCNGG 2 cut(s) 864, 1324
SduI GDGCHC 1 cut(s) 448
SfaNI GCATC 3 cut(s) 477, 526, 1209
SfcI CTRYAG 1 cut(s) 993
SinI GGWCC 1 cut(s) 690
SmiMI CAYNNNNRTG 3 cut(s) 239, 270, 352
SmlI CTYRAG 2 cut(s) 38, 516
SmoI CTYRAG 2 cut(s) 38, 516
SpeI ACTAGT 2 cut(s) 1022, 1172
SsiI CCGC 3 cut(s) 51, 429, 1305
SspI AATATT 1 cut(s) 1387
SspMI CTAG 4 cut(s) 158, 441, 1023, 1173
StyD4I CCNGG 2 cut(s) 862, 1322
StyI CCWWGG 1 cut(s) 1067
TaaI ACNGT 4 cut(s) 89, 149, 469, 1216
TaqI TCGA 4 cut(s) 166, 204, 828, 838
TatI WGTACW 1 cut(s) 1390
TfiI GAWTC 3 cut(s) 311, 926, 1258
Tru1I TTAA 8 cut(s) 39, 642, 801, 810, 918, 1058, 1074, 1230
Tru9I TTAA 8 cut(s) 39, 642, 801, 810, 918, 1058, 1074, 1230
TscAI CASTG 3 cut(s) 501, 621, 1221
TseFI GTSAC 2 cut(s) 149, 658
TseI GCWGC 4 cut(s) 401, 577, 936, 1085
Tsp45I GTSAC 2 cut(s) 149, 658
TspGWI ACGGA 2 cut(s) 275, 682
TspRI CASTG 3 cut(s) 501, 621, 1221
Van91I CCANNNNNTGG 1 cut(s) 869
Vha464I CTTAAG 1 cut(s) 38
VneI GTGCAC 1 cut(s) 444
VpaK11BI GGWCC 1 cut(s) 690
XapI RAATTY 4 cut(s) 25, 178, 830, 1252
XmnI GAANNNNTTC 2 cut(s) 623, 834
XspI CTAG 4 cut(s) 158, 441, 1023, 1173
Zsp2I ATGCAT 1 cut(s) 492
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.