Rh6DG080400

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000561
Physical Location & Seq
Reverse (-)
9137417 .. 9140297
2881 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG080400.1

Sequence Viewer

Length: 666 bp
ATGCATGTATTTGTTCAATGGTGGCAGGAACAGAGGCAGCCATTGGCGGAAGCTAACAAATATGGGTTCAAAACTCCCAAAGGGAAAAGACATTTGAGTCCAGGCCTTAACACCAAGCGAGAAGTTTCTAGTGATCCTCAGAGGCATGGAGGCTGCAAACGGAGTCGAACCAACCCGTCCATGTCCTGGCATTTTGGCCATCCTGAAGAGTCTTCTGTCAAAAGCCAAGTTAGAGAAATCCCAGAGAATCTAGAAGCCGAATGTCCCTTCTTTATGAAGTCCATGATACGATCAAATATTTCCGTTTGCTTTATGTTGACACTGCCTAGGAGATTCTGCAACTTGCATTTACCGTTGCATGGTACAGCAACGATAACATTGGAAGATAAAGAGGGGAAAGAATATGAAACAAAATTTCTTGCAGACAAAAGAACGCTGAGTGGGGGATGGAAAGGATTTTGTCAGGCAAAGGACTTGCGCCTTGATGATGTTCTAGTTTTCCAGTTGGTTAGCCCTTTGAAGTTCAAGGTGTACAGATTGAGACCAGAATATGATCCAAGTGAAGATGATGTAGATGCAGCTTTTGTCCTCTTGAAAATGAGTGCCTCTGAACAAACACTGTCTGAGGAAAACCCTCCTATGCAGAGGAAAACCCTGCAAACCTGA
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

221

Amino Acids

25.54

Weight (kDa)

8.93

Isoelectric Point (pI)

62.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 91 - 176 7.5e-16 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: OG0000561)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06320 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330 FvH4_2g06330
malus_domestica MD05G1077500.v1.1 MD10G1092700.v1.1
prunus_persica Prupe.8G122500_v2.0.a1 Prupe.8G122500_v2.0.a1 Prupe.8G122500_v2.0.a1
pyrus_communis pycom10g07620
rosa_chinensis RchiOBHm_Chr2g0147541 RchiOBHm_Chr2g0168211 RchiOBHm_Chr6g0256791 RchiOBHm_Chr6g0258071 RchiOBHm_Chr6g0258081 RchiOBHm_Chr6g0258121 RchiOBHm_Chr6g0258181 RchiOBHm_Chr6g0258201 RchiOBHm_Chr6g0258211
rosa_laevigata RLG00000014639 RLG00000014642 RLG00000014647
rosa_multiflora Rmu_sc0006058.1_g000005 Rmu_sc0007933.1_g000012
rosa_roxburghii Rroxscaffold_7G00205330 Rroxscaffold_7G00205340 Rroxscaffold_7G00208080 Rroxscaffold_7G00208100 Rroxscaffold_7G00208160
rosa_rugosa Rorug05G0578100 Rorug05G0578200 Rorug05G0578300 Rorug05G0578400 Rorug05G0578400 Rorug05G0578500 Rorug05G0578600 Rorug05G0578700 Rorug05G0578800 Rorug05G0578900 Rorug05G0579000 Rorug05G0579300 Rorug05G0579300 Rorug05G0579400
rosa_samantha Rh2BG613900 Rh4BG034900 Rh6AG096700 Rh6AG097000 Rh6AG097100 Rh6AG097300 Rh6BG087600 Rh6BG088200 Rh6BG088300 Rh6CG083700 Rh6CG083900 Rh6CG084000 Rh6CG084200 Rh6DG079500 Rh6DG080000 Rh6DG080200 Rh6DG080400 Rh6DG164000 Rh7BG391100 Rh7CG434700 Rh7CG467700
rosa_wichuraiana Rw0G021370 Rw0G021380 Rw6G008220 Rw6G008240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 96
AccB7I CCANNNNNTGG 1 cut(s) 186
AciI CCGC 1 cut(s) 47
AclWI GGATC 2 cut(s) 128, 548
AcoI YGGCCR 1 cut(s) 196
AcsI RAATTY 1 cut(s) 413
AcuI CTGAAG 1 cut(s) 225
AfaI GTAC 2 cut(s) 364, 533
AfiI CCNNNNNNNGG 2 cut(s) 186, 359
AgsI TTSAA 5 cut(s) 17, 70, 520, 526, 595
AjnI CCWGG 2 cut(s) 100, 185
AluBI AGCT 2 cut(s) 53, 581
AluI AGCT 2 cut(s) 53, 581
Alw26I GTCTC 1 cut(s) 535
AlwI GGATC 2 cut(s) 128, 548
AoxI GGCC 2 cut(s) 103, 196
ApeKI GCWGC 3 cut(s) 37, 153, 578
ApoI RAATTY 1 cut(s) 413
AspA2I CCTAGG 1 cut(s) 326
AspLEI GCGC 1 cut(s) 480
AvrII CCTAGG 1 cut(s) 326
BalI TGGCCA 1 cut(s) 198
BbsI GAAGAC 1 cut(s) 204
BbvI GCAGC 3 cut(s) 49, 140, 590
BccI CCATC 2 cut(s) 207, 441
BciT130I CCWGG 2 cut(s) 102, 187
BcoDI GTCTC 1 cut(s) 535
BfaI CTAG 4 cut(s) 129, 251, 327, 494
BisI GCNGC 3 cut(s) 38, 154, 579
BlnI CCTAGG 1 cut(s) 326
BlsI GCNGC 3 cut(s) 39, 155, 580
Bme1390I CCNGG 2 cut(s) 102, 187
BmrFI CCNGG 2 cut(s) 102, 187
BmsI GCATC 1 cut(s) 565
BpiI GAAGAC 1 cut(s) 204
BsaI GGTCTC 1 cut(s) 535
BsaJI CCNNGG 1 cut(s) 326
Bsc4I CCNNNNNNNGG 2 cut(s) 186, 359
Bse1I ACTGG 1 cut(s) 502
BseBI CCWGG 2 cut(s) 102, 187
BseDI CCNNGG 1 cut(s) 326
BseGI GGATG 2 cut(s) 199, 452
BseLI CCNNNNNNNGG 2 cut(s) 186, 359
BseMII CTCAG 3 cut(s) 152, 428, 615
BseNI ACTGG 1 cut(s) 502
BseXI GCAGC 3 cut(s) 49, 140, 590
BshFI GGCC 2 cut(s) 105, 198
BslFI GGGAC 1 cut(s) 249
BslI CCNNNNNNNGG 2 cut(s) 186, 359
BsmAI GTCTC 1 cut(s) 535
BsmFI GGGAC 1 cut(s) 249
BsnI GGCC 2 cut(s) 105, 198
Bso31I GGTCTC 1 cut(s) 535
Bsp1407I TGTACA 1 cut(s) 531
Bsp143I GATC 3 cut(s) 133, 290, 553
BspACI CCGC 1 cut(s) 47
BspANI GGCC 2 cut(s) 105, 198
BspCNI CTCAG 3 cut(s) 151, 429, 616
BspPI GGATC 2 cut(s) 128, 548
BspTNI GGTCTC 1 cut(s) 535
BsrGI TGTACA 1 cut(s) 531
BsrI ACTGG 1 cut(s) 502
BssECI CCNNGG 1 cut(s) 326
BssMI GATC 3 cut(s) 133, 290, 553
BssT1I CCWWGG 1 cut(s) 326
Bst2UI CCWGG 2 cut(s) 102, 187
Bst4CI ACNGT 2 cut(s) 354, 621
Bst6I CTCTTC 1 cut(s) 201
BstAUI TGTACA 1 cut(s) 531
BstDEI CTNAG 3 cut(s) 138, 437, 624
BstF5I GGATG 2 cut(s) 199, 452
BstHHI GCGC 1 cut(s) 480
BstKTI GATC 3 cut(s) 136, 293, 556
BstMAI GTCTC 1 cut(s) 535
BstMBI GATC 3 cut(s) 133, 290, 553
BstNI CCWGG 2 cut(s) 102, 187
BstNSI RCATGY 1 cut(s) 8
BstSCI CCNGG 2 cut(s) 100, 185
BstV1I GCAGC 3 cut(s) 49, 140, 590
BstV2I GAAGAC 1 cut(s) 204
BsuRI GGCC 2 cut(s) 105, 198
BtsCI GGATG 2 cut(s) 199, 452
BtsI GCAGTG 1 cut(s) 320
BtsIMutI CAGTG 2 cut(s) 320, 617
CfoI GCGC 1 cut(s) 480
Csp6I GTAC 2 cut(s) 363, 532
CviAII CATG 5 cut(s) 5, 146, 181, 283, 359
CviJI RGCY 9 cut(s) 40, 53, 105, 153, 198, 225, 257, 513, 581
CviKI_1 RGCY 9 cut(s) 40, 53, 105, 153, 198, 225, 257, 513, 581
CviQI GTAC 2 cut(s) 363, 532
DdeI CTNAG 3 cut(s) 138, 437, 624
DpnI GATC 3 cut(s) 135, 292, 555
DpnII GATC 3 cut(s) 133, 290, 553
DrdI GACNNNNNNGTC 1 cut(s) 96
DseDI GACNNNNNNGTC 1 cut(s) 96
EaeI YGGCCR 1 cut(s) 196
Eam1104I CTCTTC 1 cut(s) 201
EarI CTCTTC 1 cut(s) 201
EciI GGCGGA 1 cut(s) 62
Eco130I CCWWGG 1 cut(s) 326
Eco147I AGGCCT 1 cut(s) 105
Eco31I GGTCTC 1 cut(s) 535
Eco57I CTGAAG 1 cut(s) 225
EcoRII CCWGG 2 cut(s) 100, 185
EcoT14I CCWWGG 1 cut(s) 326
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 326
FaeI CATG 5 cut(s) 8, 149, 184, 286, 362
FaqI GGGAC 1 cut(s) 249
FatI CATG 5 cut(s) 4, 145, 180, 282, 358
Fnu4HI GCNGC 3 cut(s) 38, 154, 579
FokI GGATG 2 cut(s) 186, 459
Fsp4HI GCNGC 3 cut(s) 38, 154, 579
FspBI CTAG 4 cut(s) 129, 251, 327, 494
GlaI GCGC 1 cut(s) 479
GluI GCNGC 3 cut(s) 38, 154, 579
HaeIII GGCC 2 cut(s) 105, 198
HhaI GCGC 1 cut(s) 480
Hin1II CATG 5 cut(s) 8, 149, 184, 286, 362
Hin6I GCGC 1 cut(s) 478
HinP1I GCGC 1 cut(s) 478
HincII GTYRAC 1 cut(s) 318
HindII GTYRAC 1 cut(s) 318
HinfI GANTC 5 cut(s) 97, 163, 209, 247, 333
Hpy166II GTNNAC 2 cut(s) 318, 532
Hpy188I TCNGA 3 cut(s) 141, 610, 625
Hpy188III TCNNGA 3 cut(s) 203, 251, 592
Hpy8I GTNNAC 2 cut(s) 318, 532
HpyAV CCTTC 1 cut(s) 277
HpyCH4III ACNGT 2 cut(s) 354, 621
HpyCH4V TGCA 9 cut(s) 4, 156, 339, 346, 358, 422, 578, 643, 658
HpyF3I CTNAG 3 cut(s) 138, 437, 624
Hsp92II CATG 5 cut(s) 8, 149, 184, 286, 362
HspAI GCGC 1 cut(s) 478
Kzo9I GATC 3 cut(s) 133, 290, 553
Lsp1109I GCAGC 3 cut(s) 49, 140, 590
LweI GCATC 1 cut(s) 565
MaeI CTAG 4 cut(s) 129, 251, 327, 494
MalI GATC 3 cut(s) 135, 292, 555
MboI GATC 3 cut(s) 133, 290, 553
MboII GAAGA 4 cut(s) 204, 218, 395, 575
MlsI TGGCCA 1 cut(s) 198
MluCI AATT 1 cut(s) 413
MluNI TGGCCA 1 cut(s) 198
MlyI GAGTC 3 cut(s) 106, 172, 218
Mox20I TGGCCA 1 cut(s) 198
Mph1103I ATGCAT 1 cut(s) 6
MscI TGGCCA 1 cut(s) 198
MseI TTAA 1 cut(s) 108
Msp20I TGGCCA 1 cut(s) 198
MspR9I CCNGG 2 cut(s) 102, 187
MvaI CCWGG 2 cut(s) 102, 187
NdeII GATC 3 cut(s) 133, 290, 553
NlaIII CATG 5 cut(s) 8, 149, 184, 286, 362
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 8
PceI AGGCCT 1 cut(s) 105
PfeI GAWTC 2 cut(s) 247, 333
PflMI CCANNNNNTGG 1 cut(s) 186
PkrI GCNGC 3 cut(s) 39, 155, 580
PleI GAGTC 3 cut(s) 105, 171, 217
PpsI GAGTC 3 cut(s) 105, 171, 217
Psp6I CCWGG 2 cut(s) 100, 185
PspGI CCWGG 2 cut(s) 100, 185
RsaI GTAC 2 cut(s) 364, 533
RsaNI GTAC 2 cut(s) 363, 532
SaqAI TTAA 1 cut(s) 108
SatI GCNGC 3 cut(s) 38, 154, 579
Sau3AI GATC 3 cut(s) 133, 290, 553
SchI GAGTC 3 cut(s) 106, 172, 218
ScrFI CCNGG 2 cut(s) 102, 187
SetI ASST 4 cut(s) 55, 531, 583, 665
SfaNI GCATC 1 cut(s) 565
Sse9I AATT 1 cut(s) 413
SseBI AGGCCT 1 cut(s) 105
SsiI CCGC 1 cut(s) 47
SspI AATATT 1 cut(s) 298
SspMI CTAG 4 cut(s) 129, 251, 327, 494
StuI AGGCCT 1 cut(s) 105
StyD4I CCNGG 2 cut(s) 100, 185
StyI CCWWGG 1 cut(s) 326
TaaI ACNGT 2 cut(s) 354, 621
TaqI TCGA 1 cut(s) 166
TasI AATT 1 cut(s) 413
TatI WGTACW 1 cut(s) 531
TfiI GAWTC 2 cut(s) 247, 333
Tru1I TTAA 1 cut(s) 108
Tru9I TTAA 1 cut(s) 108
TscAI CASTG 2 cut(s) 327, 624
TseI GCWGC 3 cut(s) 37, 153, 578
TspDTI ATGAA 2 cut(s) 290, 420
TspGWI ACGGA 2 cut(s) 175, 292
TspRI CASTG 2 cut(s) 327, 624
Van91I CCANNNNNTGG 1 cut(s) 186
XapI RAATTY 1 cut(s) 413
XbaI TCTAGA 1 cut(s) 250
XceI RCATGY 1 cut(s) 8
XmaJI CCTAGG 1 cut(s) 326
XspI CTAG 4 cut(s) 129, 251, 327, 494
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.