Rh1DG032800

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000210
Physical Location & Seq
Forward (+)
4857290 .. 4861690
4401 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG032800.1

Sequence Viewer

Length: 741 bp
ATGGCTCGTTCAGCACCAGTGCCCGCCTTTTTCCAGGTCCTTGTTGGTGATTTCTCTGAGAAACTGAAAATGCCAACAGCTTTTGTCAACGACTTCAATGGGCCAGCACTATGCAAACTTCGAGGCCCTAATGGAAAATGCTGGGACGTAAAATTGGAAGATAAAAACAATGATCTATTCTTCCATAGAGGCTGGAAGAAATTTGTGAAGGATAACTATTTGGAGGAAGGAGACTTTCTGGTTTTCAATTATGATGGCAATTCATTGTTCAGTGTGACAATCTATGATGAAAGTGCATGTGAAATGGACATGGAAGAAGCCAAGAGAAAGAGAAGTACCGGCTGTTTTGTTGGTCAAATGAGGGATTATGTCATGCCTGGGGAGACAAGACTAAGAATCATTGAGTTCAAATCAGAGCATCTTTGCTTTAAGAGAACTATGGAGGCTCACAGACTGTATCAGCTGAACATTCCTATAATAATAGCCAGGGCTAAGGGTCTCATGAGCAAGCGGACTATAGAGCTTCGGGATCCAAGCAACAGATCATGGCCTGTTGCAGTGACCCCCATGGAAGATGGTCGTACACTTATGAACAAAGGCTGGTGTGATTGTTGCAAGGCGAACCAGATTAAGAAAGGGAACACCGTTGTTTTTGAGTTTGTGAAGGGACATGTGAAGCTTCACATCATTAGAGATGAGGGATATGAAGTGATGCTCACAGGTCCTAATATCGTGTATTGA
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

246

Amino Acids

28.39

Weight (kDa)

8.7

Isoelectric Point (pI)

43.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 18 - 96 8.8e-17 B3 DNA binding domain
B3 PF02362 149 - 229 6.7e-12 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: OG0000210)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G66980
fragaria_vesca FvH4_2g27400 FvH4_2g27400 FvH4_2g27400 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_3g19710 FvH4_5g30470 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g23440 FvH4_7g23440 FvH4_7g23440
malus_domestica MD03G1230100.v1.1 MD03G1230200.v1.1 MD04G1034500.v1.1 MD04G1034600.v1.1 MD08G1039500.v1.1 MD11G1250800.v1.1 MD11G1251100.v1.1 MD11G1251200.v1.1
prunus_persica Prupe.1G388000_v2.0.a1 Prupe.1G388000_v2.0.a1 Prupe.1G388100_v2.0.a1 Prupe.4G178000_v2.0.a1 Prupe.4G178100_v2.0.a1 Prupe.4G178100_v2.0.a1 Prupe.4G178200_v2.0.a1 Prupe.4G178300_v2.0.a1 Prupe.4G178400_v2.0.a1 Prupe.4G178500_v2.0.a1 Prupe.4G206300_v2.0.a1 Prupe.4G206300_v2.0.a1 Prupe.4G206800_v2.0.a1 Prupe.4G206900_v2.0.a1 Prupe.4G207000_v2.0.a1 Prupe.7G064600_v2.0.a1 Prupe.7G064600_v2.0.a1
pyrus_communis pycom03g17770 pycom04g02860 pycom04g02870 pycom08g03160 pycom11g22190 pycom11g22200 pycom11g22210 pycom11g22220
rosa_chinensis RchiOBHm_Chr1g0318651 RchiOBHm_Chr1g0318881 RchiOBHm_Chr1g0319011 RchiOBHm_Chr1g0356381 RchiOBHm_Chr3g0482191 RchiOBHm_Chr5g0033031 RchiOBHm_Chr5g0033041 RchiOBHm_Chr6g0296251 RchiOBHm_Chr6g0299611 RchiOBHm_Chr7g0208501 RchiOBHm_Chr7g0224941
rosa_laevigata RLG00000001845 RLG00000011405 RLG00000011713 RLG00000023362 RLG00000030508 RLG00000030520 RLG00000033444
rosa_multiflora Rmu_sc0000307.1_g000013 Rmu_sc0000986.1_g000010 Rmu_sc0000986.1_g000011 Rmu_sc0002895.1_g000002 Rmu_sc0003503.1_g000005 Rmu_ssc0000357.1_g000023
rosa_roxburghii Rroxscaffold_1G00046900 Rroxscaffold_1G00046920 Rroxscaffold_1G00046930 Rroxscaffold_1G00046940 Rroxscaffold_1G00047010 Rroxscaffold_1G00047020 Rroxscaffold_1G00047030 Rroxscaffold_1G00059830 Rroxscaffold_3G00234250 Rroxscaffold_4G00299610 Rroxscaffold_4G00321350 Rroxscaffold_4G00328680 Rroxscaffold_4G00329000 Rroxscaffold_6G00399560 Rroxscaffold_6G00399970 Rroxscaffold_7G00168510 Rroxscaffold_7G00171700 Rroxscaffold_7G00178360
rosa_rugosa Rorug01G0022500 Rorug01G0022800 Rorug01G0026400 Rorug03G0195600 Rorug05G0135400 Rorug06G0260100 Rorug06G0260200.1 Rorug06G0291000 Rorug06G0291100 Rorug06G0291100 Rorug07G0227000
rosa_samantha Rh1AG035600 Rh1AG038500 Rh1AG045500 Rh1BG031400 Rh1BG034700 Rh1CG034500 Rh1CG037200 Rh1CG048500 Rh1DG032800 Rh1DG035800 Rh1DG052700 Rh3AG247000 Rh3CG277700 Rh3DG274200 Rh5AG227900 Rh5AG228000 Rh5CG256800 Rh5CG256900 Rh5CG257100 Rh5DG234000 Rh5DG234200 Rh6AG401800 Rh6BG380000 Rh6BG410200 Rh6CG385400 Rh6CG415800 Rh6DG372600 Rh6DG403000 Rh7AG376300 Rh7BG362400 Rh7DG372500
rosa_wichuraiana Rw0G008540 Rw1G002780 Rw1G002970 Rw3G022090 Rw5G020870 Rw6G032430 Rw6G035160 Rw7G031430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 24, 511
AclWI GGATC 2 cut(s) 524, 537
AcsI RAATTY 1 cut(s) 200
AfaI GTAC 2 cut(s) 337, 583
AflIII ACRYGT 1 cut(s) 670
AgsI TTSAA 3 cut(s) 97, 247, 409
AjnI CCWGG 3 cut(s) 33, 376, 485
AluBI AGCT 4 cut(s) 80, 463, 523, 679
AluI AGCT 4 cut(s) 80, 463, 523, 679
Alw26I GTCTC 3 cut(s) 225, 377, 503
AlwI GGATC 2 cut(s) 524, 537
AoxI GGCC 3 cut(s) 101, 124, 548
ApoI RAATTY 1 cut(s) 200
AspS9I GGNCC 4 cut(s) 37, 101, 125, 722
AsuHPI GGTGA 1 cut(s) 59
AvaII GGWCC 2 cut(s) 37, 722
BaeGI GKGCMC 1 cut(s) 24
BamHI GGATCC 1 cut(s) 529
BccI CCATC 2 cut(s) 248, 569
BciT130I CCWGG 3 cut(s) 35, 378, 487
BcoDI GTCTC 3 cut(s) 225, 377, 503
BfmI CTRYAG 1 cut(s) 516
Bme1390I CCNGG 3 cut(s) 35, 378, 487
Bme18I GGWCC 2 cut(s) 37, 722
BmgT120I GGNCC 4 cut(s) 37, 101, 125, 722
BmiI GGNNCC 1 cut(s) 531
BmrFI CCNGG 3 cut(s) 35, 378, 487
BmsI GCATC 2 cut(s) 427, 702
Bpu10I CCTNAGC 1 cut(s) 492
BsaI GGTCTC 1 cut(s) 503
BsaJI CCNNGG 3 cut(s) 377, 486, 567
Bse118I RCCGGY 1 cut(s) 338
Bse1I ACTGG 1 cut(s) 17
BseBI CCWGG 3 cut(s) 35, 378, 487
BseDI CCNNGG 3 cut(s) 377, 486, 567
BseMII CTCAG 1 cut(s) 48
BseNI ACTGG 1 cut(s) 17
BseSI GKGCMC 1 cut(s) 24
BseYI CCCAGC 1 cut(s) 141
BshFI GGCC 3 cut(s) 103, 126, 550
BsiSI CCGG 1 cut(s) 339
BslFI GGGAC 2 cut(s) 158, 681
BsmAI GTCTC 3 cut(s) 225, 377, 503
BsmFI GGGAC 2 cut(s) 158, 681
BsnI GGCC 3 cut(s) 103, 126, 550
Bso31I GGTCTC 1 cut(s) 503
Bsp1286I GDGCHC 1 cut(s) 24
Bsp143I GATC 3 cut(s) 172, 529, 542
Bsp19I CCATGG 1 cut(s) 567
BspACI CCGC 2 cut(s) 24, 511
BspANI GGCC 3 cut(s) 103, 126, 550
BspCNI CTCAG 1 cut(s) 49
BspHI TCATGA 1 cut(s) 501
BspLI GGNNCC 1 cut(s) 531
BspPI GGATC 2 cut(s) 524, 537
BspTNI GGTCTC 1 cut(s) 503
BsrFI RCCGGY 1 cut(s) 338
BsrI ACTGG 1 cut(s) 17
BssAI RCCGGY 1 cut(s) 338
BssECI CCNNGG 3 cut(s) 377, 486, 567
BssMI GATC 3 cut(s) 172, 529, 542
BssT1I CCWWGG 1 cut(s) 567
Bst2UI CCWGG 3 cut(s) 35, 378, 487
Bst4CI ACNGT 2 cut(s) 456, 646
BstC8I GCNNGC 3 cut(s) 24, 105, 509
BstDEI CTNAG 3 cut(s) 57, 392, 492
BstDSI CCRYGG 1 cut(s) 567
BstKTI GATC 3 cut(s) 175, 532, 545
BstMAI GTCTC 3 cut(s) 225, 377, 503
BstMBI GATC 3 cut(s) 172, 529, 542
BstMWI GCNNNNNNNGC 1 cut(s) 11
BstNI CCWGG 3 cut(s) 35, 378, 487
BstNSI RCATGY 2 cut(s) 300, 674
BstSCI CCNGG 3 cut(s) 33, 376, 485
BstSFI CTRYAG 1 cut(s) 516
BstSLI GKGCMC 1 cut(s) 24
BstX2I RGATCY 1 cut(s) 529
BstYI RGATCY 1 cut(s) 529
BsuRI GGCC 3 cut(s) 103, 126, 550
BtgI CCRYGG 1 cut(s) 567
BtsI GCAGTG 1 cut(s) 564
BtsIMutI CAGTG 3 cut(s) 24, 277, 564
Cac8I GCNNGC 3 cut(s) 24, 105, 509
CciI TCATGA 1 cut(s) 501
Cfr10I RCCGGY 1 cut(s) 338
Cfr13I GGNCC 4 cut(s) 37, 101, 125, 722
Csp6I GTAC 2 cut(s) 336, 582
CviAII CATG 7 cut(s) 297, 310, 373, 502, 546, 568, 671
CviQI GTAC 2 cut(s) 336, 582
DdeI CTNAG 3 cut(s) 57, 392, 492
DpnI GATC 3 cut(s) 174, 531, 544
DpnII GATC 3 cut(s) 172, 529, 542
Eco130I CCWWGG 1 cut(s) 567
Eco31I GGTCTC 1 cut(s) 503
Eco47I GGWCC 2 cut(s) 37, 722
EcoO109I RGGNCCY 3 cut(s) 37, 125, 722
EcoRII CCWGG 3 cut(s) 33, 376, 485
EcoT14I CCWWGG 1 cut(s) 567
ErhI CCWWGG 1 cut(s) 567
FaeI CATG 7 cut(s) 300, 313, 376, 505, 549, 571, 674
FaqI GGGAC 2 cut(s) 158, 681
FatI CATG 7 cut(s) 296, 309, 372, 501, 545, 567, 670
FauI CCCGC 1 cut(s) 31
GsaI CCCAGC 1 cut(s) 145
HaeIII GGCC 3 cut(s) 103, 126, 550
HapII CCGG 1 cut(s) 339
Hin1II CATG 7 cut(s) 300, 313, 376, 505, 549, 571, 674
HincII GTYRAC 1 cut(s) 88
HindII GTYRAC 1 cut(s) 88
HindIII AAGCTT 1 cut(s) 677
HinfI GANTC 1 cut(s) 396
HpaII CCGG 1 cut(s) 339
HphI GGTGA 1 cut(s) 59
Hpy166II GTNNAC 2 cut(s) 88, 584
Hpy188I TCNGA 2 cut(s) 58, 415
Hpy188III TCNNGA 2 cut(s) 502, 527
Hpy8I GTNNAC 2 cut(s) 88, 584
HpyAV CCTTC 3 cut(s) 202, 221, 658
HpyCH4III ACNGT 2 cut(s) 456, 646
HpyCH4IV ACGT 1 cut(s) 147
HpyCH4V TGCA 4 cut(s) 114, 296, 557, 615
HpyF10VI GCNNNNNNNGC 1 cut(s) 11
HpyF3I CTNAG 3 cut(s) 57, 392, 492
HpySE526I ACGT 1 cut(s) 147
Hsp92II CATG 7 cut(s) 300, 313, 376, 505, 549, 571, 674
Kzo9I GATC 3 cut(s) 172, 529, 542
LweI GCATC 2 cut(s) 427, 702
MaeII ACGT 1 cut(s) 147
MaeIII GTNAC 2 cut(s) 274, 559
MalI GATC 3 cut(s) 174, 531, 544
MboI GATC 3 cut(s) 172, 529, 542
MboII GAAGA 5 cut(s) 170, 172, 208, 326, 584
MflI RGATCY 1 cut(s) 529
MhlI GDGCHC 1 cut(s) 24
MluCI AATT 4 cut(s) 152, 200, 247, 259
MnlI CCTC 6 cut(s) 116, 182, 217, 354, 436, 691
MseI TTAA 2 cut(s) 429, 630
MspA1I CMGCKG 1 cut(s) 463
MspI CCGG 1 cut(s) 339
MspR9I CCNGG 3 cut(s) 35, 378, 487
MvaI CCWGG 3 cut(s) 35, 378, 487
MwoI GCNNNNNNNGC 1 cut(s) 11
NcoI CCATGG 1 cut(s) 567
NdeII GATC 3 cut(s) 172, 529, 542
NlaIII CATG 7 cut(s) 300, 313, 376, 505, 549, 571, 674
NlaIV GGNNCC 1 cut(s) 531
NmuCI GTSAC 2 cut(s) 274, 559
NspI RCATGY 2 cut(s) 300, 674
PagI TCATGA 1 cut(s) 501
PciI ACATGT 1 cut(s) 670
PfeI GAWTC 1 cut(s) 396
PpuMI RGGWCCY 2 cut(s) 37, 722
PscI ACATGT 1 cut(s) 670
Psp5II RGGWCCY 2 cut(s) 37, 722
Psp6I CCWGG 3 cut(s) 33, 376, 485
PspFI CCCAGC 1 cut(s) 141
PspGI CCWGG 3 cut(s) 33, 376, 485
PspN4I GGNNCC 1 cut(s) 531
PspPI GGNCC 4 cut(s) 37, 101, 125, 722
PspPPI RGGWCCY 2 cut(s) 37, 722
PsuI RGATCY 1 cut(s) 529
PvuII CAGCTG 1 cut(s) 463
RsaI GTAC 2 cut(s) 337, 583
RsaNI GTAC 2 cut(s) 336, 582
SaqAI TTAA 2 cut(s) 429, 630
Sau3AI GATC 3 cut(s) 172, 529, 542
Sau96I GGNCC 4 cut(s) 37, 101, 125, 722
ScrFI CCNGG 3 cut(s) 35, 378, 487
SduI GDGCHC 1 cut(s) 24
SetI ASST 7 cut(s) 39, 82, 150, 465, 525, 681, 724
SfaNI GCATC 2 cut(s) 427, 702
SfcI CTRYAG 1 cut(s) 516
SinI GGWCC 2 cut(s) 37, 722
Sse9I AATT 4 cut(s) 152, 200, 247, 259
SsiI CCGC 2 cut(s) 24, 511
StyD4I CCNGG 3 cut(s) 33, 376, 485
StyI CCWWGG 1 cut(s) 567
TaaI ACNGT 2 cut(s) 456, 646
TaiI ACGT 1 cut(s) 150
TaqI TCGA 1 cut(s) 121
TasI AATT 4 cut(s) 152, 200, 247, 259
TfiI GAWTC 1 cut(s) 396
Tru1I TTAA 2 cut(s) 429, 630
Tru9I TTAA 2 cut(s) 429, 630
TscAI CASTG 3 cut(s) 24, 277, 564
TseFI GTSAC 2 cut(s) 274, 559
Tsp45I GTSAC 2 cut(s) 274, 559
TspDTI ATGAA 4 cut(s) 252, 303, 605, 720
TspRI CASTG 3 cut(s) 24, 277, 564
VpaK11BI GGWCC 2 cut(s) 37, 722
XapI RAATTY 1 cut(s) 200
XceI RCATGY 2 cut(s) 300, 674
XcmI CCANNNNNNNNNTGG 1 cut(s) 41
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.