Rh6DG080000

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000561
Physical Location & Seq
Reverse (-)
9108760 .. 9109985
1226 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG080000.1

Sequence Viewer

Length: 537 bp
ATGCTCGACATGAATAAGAAGGAAAAATTCTTCAGGAGTCCCTCAAGTCCGATCCCTAACACCAAGCGAAAAGTTGCAGCTGGTGGTAGTTCCCAAGATCATGAAGGCTACAAATGTAAGAAAACGAAGCCTAATTATCATGAAAAGCCTTCCATAAGAAACAAAGTTCAAGATATCCTGGCAAATCTAGAAGCCAAAAGCCCATTCTTTTTGAAGTGTATGATACCTTCTGATGTTGTCAAGAGCAAATCTAGTTTGACGTTGCCCAAGCAATTCTGCATTGAACATTTGCCAAAACATGATAGAAAATTAATCTTGGAACATGAAAGTGGAAGAGAATATATAGTGAATTATCTTGGGAAATATAGACGACTTAGTGGTGGATGGAGAAGGTTTTGTACCGATAGCAGATTACTTGAAGGTGATCTCTTAGTTTTCCAGTGGGTGAGGCCCTTGAGGTTTAAGGTTTACAAAGTCGAACAAGAGACTCTGAATGAAGTTAATGCTGCCTTTACCCTGTTGGGGTTGAGTCTATAA
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

178

Amino Acids

20.64

Weight (kDa)

9.74

Isoelectric Point (pI)

53.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 70 - 154 1.3e-17 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)
AclWI GGATC 1 cut(s) 46
AcsI RAATTY 1 cut(s) 26
AcuI CTGAAG 1 cut(s) 16
AfaI GTAC 1 cut(s) 400
AfiI CCNNNNNNNGG 1 cut(s) 522
AgsI TTSAA 4 cut(s) 170, 214, 284, 419
AjnI CCWGG 1 cut(s) 177
AjuI GAANNNNNNNTTGG 2 cut(s) 188, 220
AluBI AGCT 1 cut(s) 80
AluI AGCT 1 cut(s) 80
Alw26I GTCTC 1 cut(s) 479
AlwI GGATC 1 cut(s) 46
AoxI GGCC 1 cut(s) 449
ApeKI GCWGC 2 cut(s) 77, 506
ApoI RAATTY 1 cut(s) 26
AseI ATTAAT 1 cut(s) 311
AspS9I GGNCC 1 cut(s) 450
AsuHPI GGTGA 2 cut(s) 434, 457
BarI GAAGNNNNNNTAC 4 cut(s) 211, 243, 382, 414
BbvI GCAGC 2 cut(s) 89, 493
BccI CCATC 1 cut(s) 378
BciT130I CCWGG 1 cut(s) 179
BcoDI GTCTC 1 cut(s) 479
BfaI CTAG 2 cut(s) 188, 252
BisI GCNGC 2 cut(s) 78, 507
BlsI GCNGC 2 cut(s) 79, 508
Bme1390I CCNGG 1 cut(s) 179
BmgT120I GGNCC 1 cut(s) 450
BmrFI CCNGG 1 cut(s) 179
BpuEI CTTGAG 2 cut(s) 28, 475
Bsc4I CCNNNNNNNGG 1 cut(s) 522
Bse1I ACTGG 1 cut(s) 439
BseBI CCWGG 1 cut(s) 179
BseGI GGATG 1 cut(s) 389
BseLI CCNNNNNNNGG 1 cut(s) 522
BseNI ACTGG 1 cut(s) 439
BseXI GCAGC 2 cut(s) 89, 493
BshFI GGCC 1 cut(s) 451
BslFI GGGAC 1 cut(s) 24
BslI CCNNNNNNNGG 1 cut(s) 522
BsmAI GTCTC 1 cut(s) 479
BsmFI GGGAC 1 cut(s) 24
BsnI GGCC 1 cut(s) 451
Bsp143I GATC 3 cut(s) 51, 97, 424
BspANI GGCC 1 cut(s) 451
BspHI TCATGA 2 cut(s) 100, 139
BspPI GGATC 1 cut(s) 46
BsrI ACTGG 1 cut(s) 439
BssMI GATC 3 cut(s) 51, 97, 424
Bst2UI CCWGG 1 cut(s) 179
Bst6I CTCTTC 1 cut(s) 328
BstDEI CTNAG 2 cut(s) 374, 430
BstF5I GGATG 1 cut(s) 389
BstKTI GATC 3 cut(s) 54, 100, 427
BstMAI GTCTC 1 cut(s) 479
BstMBI GATC 3 cut(s) 51, 97, 424
BstNI CCWGG 1 cut(s) 179
BstSCI CCNGG 1 cut(s) 177
BstV1I GCAGC 2 cut(s) 89, 493
BsuRI GGCC 1 cut(s) 451
BtsCI GGATG 1 cut(s) 389
BtsIMutI CAGTG 1 cut(s) 446
CciI TCATGA 2 cut(s) 100, 139
Cfr13I GGNCC 1 cut(s) 450
Csp6I GTAC 1 cut(s) 399
CviAII CATG 5 cut(s) 10, 101, 140, 299, 323
CviJI RGCY 7 cut(s) 80, 108, 130, 148, 194, 201, 451
CviKI_1 RGCY 7 cut(s) 80, 108, 130, 148, 194, 201, 451
CviQI GTAC 1 cut(s) 399
DdeI CTNAG 2 cut(s) 374, 430
DpnI GATC 3 cut(s) 53, 99, 426
DpnII GATC 3 cut(s) 51, 97, 424
Eam1104I CTCTTC 1 cut(s) 328
EarI CTCTTC 1 cut(s) 328
Eco32I GATATC 1 cut(s) 175
Eco57I CTGAAG 1 cut(s) 16
EcoO109I RGGNCCY 1 cut(s) 450
EcoRII CCWGG 1 cut(s) 177
EcoRV GATATC 1 cut(s) 175
FaeI CATG 5 cut(s) 13, 104, 143, 302, 326
FaqI GGGAC 1 cut(s) 24
FatI CATG 5 cut(s) 9, 100, 139, 298, 322
Fnu4HI GCNGC 2 cut(s) 78, 507
FokI GGATG 1 cut(s) 396
Fsp4HI GCNGC 2 cut(s) 78, 507
FspBI CTAG 2 cut(s) 188, 252
GluI GCNGC 2 cut(s) 78, 507
HaeIII GGCC 1 cut(s) 451
Hin1II CATG 5 cut(s) 13, 104, 143, 302, 326
HinfI GANTC 3 cut(s) 37, 487, 529
HphI GGTGA 2 cut(s) 434, 457
Hpy166II GTNNAC 1 cut(s) 469
Hpy188I TCNGA 3 cut(s) 51, 232, 492
Hpy188III TCNNGA 6 cut(s) 34, 101, 140, 170, 188, 241
Hpy8I GTNNAC 1 cut(s) 469
HpyAV CCTTC 6 cut(s) 13, 98, 159, 237, 384, 413
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 2 cut(s) 77, 279
HpyF3I CTNAG 2 cut(s) 374, 430
HpySE526I ACGT 1 cut(s) 260
Hsp92II CATG 5 cut(s) 13, 104, 143, 302, 326
Kzo9I GATC 3 cut(s) 51, 97, 424
LpnPI CCDG 6 cut(s) 19, 66, 164, 191, 452, 530
Lsp1109I GCAGC 2 cut(s) 89, 493
MaeI CTAG 2 cut(s) 188, 252
MaeII ACGT 1 cut(s) 260
MalI GATC 3 cut(s) 53, 99, 426
MboI GATC 3 cut(s) 51, 97, 424
MboII GAAGA 2 cut(s) 22, 345
MluCI AATT 5 cut(s) 26, 133, 272, 308, 349
MlyI GAGTC 2 cut(s) 46, 481
MnlI CCTC 3 cut(s) 52, 441, 450
MseI TTAA 3 cut(s) 311, 462, 501
MslI CAYNNNNRTG 1 cut(s) 327
MspA1I CMGCKG 1 cut(s) 80
MspR9I CCNGG 1 cut(s) 179
MvaI CCWGG 1 cut(s) 179
NdeII GATC 3 cut(s) 51, 97, 424
NlaIII CATG 5 cut(s) 13, 104, 143, 302, 326
PagI TCATGA 2 cut(s) 100, 139
PkrI GCNGC 2 cut(s) 79, 508
PleI GAGTC 2 cut(s) 45, 481
PpsI GAGTC 2 cut(s) 45, 481
PshBI ATTAAT 1 cut(s) 311
Psp6I CCWGG 1 cut(s) 177
PspGI CCWGG 1 cut(s) 177
PspPI GGNCC 1 cut(s) 450
PvuII CAGCTG 1 cut(s) 80
RsaI GTAC 1 cut(s) 400
RsaNI GTAC 1 cut(s) 399
RseI CAYNNNNRTG 1 cut(s) 327
SaqAI TTAA 3 cut(s) 311, 462, 501
SatI GCNGC 2 cut(s) 78, 507
Sau3AI GATC 3 cut(s) 51, 97, 424
Sau96I GGNCC 1 cut(s) 450
SchI GAGTC 2 cut(s) 46, 481
ScrFI CCNGG 1 cut(s) 179
SetI ASST 7 cut(s) 82, 229, 263, 395, 424, 461, 468
SmiMI CAYNNNNRTG 1 cut(s) 327
SmlI CTYRAG 2 cut(s) 43, 454
SmoI CTYRAG 2 cut(s) 43, 454
Sse9I AATT 5 cut(s) 26, 133, 272, 308, 349
SspMI CTAG 2 cut(s) 188, 252
StyD4I CCNGG 1 cut(s) 177
TaiI ACGT 1 cut(s) 263
TaqI TCGA 2 cut(s) 6, 477
TasI AATT 5 cut(s) 26, 133, 272, 308, 349
Tru1I TTAA 3 cut(s) 311, 462, 501
Tru9I TTAA 3 cut(s) 311, 462, 501
TscAI CASTG 1 cut(s) 446
TseI GCWGC 2 cut(s) 77, 506
TspDTI ATGAA 5 cut(s) 26, 117, 156, 339, 510
TspRI CASTG 1 cut(s) 446
VspI ATTAAT 1 cut(s) 311
XapI RAATTY 1 cut(s) 26
XbaI TCTAGA 1 cut(s) 187
XspI CTAG 2 cut(s) 188, 252
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.