Rh6BG380000

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000210
Physical Location & Seq
Reverse (-)
60829360 .. 60834631
5272 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG380000.1

Sequence Viewer

Length: 780 bp
ATGGCTAGGAAGACTGAGCATCCAGCAAGAAGAGAAGCATTTTTCAAGGCCCTTATGGGTGATTTTTCTCAGCATCTGCGTATACCATCAGCGTTTATCAAGAACTTGAACAGACGCTCACTGCACATATGTCGTCTTAAAGGCCCTAGTGGACAATGTTGGGTTGTGGAATTGGAAAAGAGAGGCAATCGATTGTTTTTCCATAAGGGTTGGGAGGAATTTGTGAAGCATCATCCTCTAGAAGTTGGGGATTTTCTGATTTTCGGTTACGATGGTGTGTCCATGTTCGATGTGACCATATATGGCAAAACTTTCTGTGAGAAGAATGTAAAAGCAGCCAAGAGGAGAAGTGACAGTAATGGTATTGCTGCCAAAAGAAGTGGTAAGTTGCCAAGGAGAAGTGACAGTCATGCTGACAAAAGAAGGGGAAAGTTGCTAGTTGATGATGTAGAAGAAACTTCTGTTCGACCCATTCCATTCCAATCAAAGAATTCTTTTATCTGTAGAGTTTTGAAGGCACGTACATTGTATGAAGTGTATATTCCGATGGAAGTAGTCATAGCGGAAGGTTTAAAGGCTGGGATGGCCATAAAGATTCAAGATACATTTGGGATGTCATGGCATCTTAGACTCCGTGCTAACCATGATCGTGTGCTGATGAGGTTGGGCTTGTCAAATATATGCAAAGCAAACAAAACTTCACATGGGGACACTGTGATCTTTGAGTTTGTCAAGCCAAGAGTAGTGCAACTTCATATTATCAGAGCAGGAGCTTACTAG
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

259

Amino Acids

29.72

Weight (kDa)

10.1

Isoelectric Point (pI)

45.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 14 - 98 6.3e-15 B3 DNA binding domain
B3 PF02362 179 - 253 8.3e-09 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)
AccI GTMKAC 1 cut(s) 82
AciI CCGC 1 cut(s) 563
AcoI YGGCCR 1 cut(s) 585
AcsI RAATTY 2 cut(s) 218, 490
AfaI GTAC 1 cut(s) 523
AgsI TTSAA 4 cut(s) 46, 109, 514, 599
AluBI AGCT 1 cut(s) 773
AluI AGCT 1 cut(s) 773
AlwNI CAGNNNCTG 1 cut(s) 76
AoxI GGCC 3 cut(s) 48, 142, 585
ApeKI GCWGC 2 cut(s) 335, 368
ApoI RAATTY 2 cut(s) 218, 490
AspS9I GGNCC 2 cut(s) 49, 143
AsuHPI GGTGA 1 cut(s) 71
BalI TGGCCA 1 cut(s) 587
BarI GAAGNNNNNNTAC 2 cut(s) 735, 767
BbsI GAAGAC 1 cut(s) 17
BbvI GCAGC 2 cut(s) 347, 355
BccI CCATC 4 cut(s) 94, 266, 541, 577
BcgI CGANNNNNNTGC 2 cut(s) 113, 147
BfaI CTAG 5 cut(s) 6, 147, 239, 437, 778
BfmI CTRYAG 1 cut(s) 502
BisI GCNGC 2 cut(s) 336, 369
BlsI GCNGC 2 cut(s) 337, 370
BmgT120I GGNCC 2 cut(s) 49, 143
BmsI GCATC 4 cut(s) 28, 82, 238, 631
BpiI GAAGAC 1 cut(s) 17
Bsa29I ATCGAT 1 cut(s) 190
BsaAI YACGTR 1 cut(s) 521
BsaJI CCNNGG 1 cut(s) 392
BseCI ATCGAT 1 cut(s) 190
BseDI CCNNGG 1 cut(s) 392
BseGI GGATG 4 cut(s) 19, 232, 588, 618
BseMII CTCAG 2 cut(s) 6, 83
BseRI GAGGAG 1 cut(s) 358
BseXI GCAGC 2 cut(s) 347, 355
BseYI CCCAGC 1 cut(s) 578
BsgI GTGCAG 1 cut(s) 107
BshFI GGCC 3 cut(s) 50, 144, 587
BshVI ATCGAT 1 cut(s) 190
BslFI GGGAC 1 cut(s) 722
BsmFI GGGAC 1 cut(s) 722
BsnI GGCC 3 cut(s) 50, 144, 587
Bsp143I GATC 2 cut(s) 646, 717
BspACI CCGC 1 cut(s) 563
BspANI GGCC 3 cut(s) 50, 144, 587
BspCNI CTCAG 2 cut(s) 7, 82
BspDI ATCGAT 1 cut(s) 190
BssECI CCNNGG 1 cut(s) 392
BssMI GATC 2 cut(s) 646, 717
BssNAI GTATAC 1 cut(s) 83
BssT1I CCWWGG 1 cut(s) 392
Bst1107I GTATAC 1 cut(s) 83
Bst4CI ACNGT 3 cut(s) 356, 407, 715
Bst6I CTCTTC 1 cut(s) 25
BstBAI YACGTR 1 cut(s) 521
BstDEI CTNAG 3 cut(s) 15, 69, 626
BstF5I GGATG 4 cut(s) 19, 232, 588, 618
BstKTI GATC 2 cut(s) 649, 720
BstMBI GATC 2 cut(s) 646, 717
BstMWI GCNNNNNNNGC 1 cut(s) 584
BstSFI CTRYAG 1 cut(s) 502
BstV1I GCAGC 2 cut(s) 347, 355
BstV2I GAAGAC 1 cut(s) 17
BstZ17I GTATAC 1 cut(s) 83
Bsu15I ATCGAT 1 cut(s) 190
BsuRI GGCC 3 cut(s) 50, 144, 587
BsuTUI ATCGAT 1 cut(s) 190
BtsCI GGATG 4 cut(s) 19, 232, 588, 618
BtsI GCAGTG 1 cut(s) 119
BtsIMutI CAGTG 2 cut(s) 119, 711
CaiI CAGNNNCTG 1 cut(s) 76
Cfr13I GGNCC 2 cut(s) 49, 143
ClaI ATCGAT 1 cut(s) 190
CseI GACGC 1 cut(s) 123
Csp6I GTAC 1 cut(s) 522
CspCI CAANNNNNGTGG 2 cut(s) 361, 396
CviAII CATG 5 cut(s) 283, 410, 618, 644, 704
CviJI RGCY 9 cut(s) 5, 50, 144, 338, 578, 587, 669, 736, 773
CviKI_1 RGCY 9 cut(s) 5, 50, 144, 338, 578, 587, 669, 736, 773
CviQI GTAC 1 cut(s) 522
DdeI CTNAG 3 cut(s) 15, 69, 626
DpnI GATC 2 cut(s) 648, 719
DpnII GATC 2 cut(s) 646, 717
DraI TTTAAA 1 cut(s) 573
EaeI YGGCCR 1 cut(s) 585
Eam1104I CTCTTC 1 cut(s) 25
EarI CTCTTC 1 cut(s) 25
Eco130I CCWWGG 1 cut(s) 392
EcoO109I RGGNCCY 2 cut(s) 49, 143
EcoRI GAATTC 1 cut(s) 490
EcoT14I CCWWGG 1 cut(s) 392
ErhI CCWWGG 1 cut(s) 392
FaeI CATG 5 cut(s) 286, 413, 621, 647, 707
FaqI GGGAC 1 cut(s) 722
FatI CATG 5 cut(s) 282, 409, 617, 643, 703
FauNDI CATATG 1 cut(s) 128
FblI GTMKAC 1 cut(s) 82
Fnu4HI GCNGC 2 cut(s) 336, 369
FokI GGATG 4 cut(s) 6, 219, 595, 625
Fsp4HI GCNGC 2 cut(s) 336, 369
FspBI CTAG 5 cut(s) 6, 147, 239, 437, 778
GluI GCNGC 2 cut(s) 336, 369
GsaI CCCAGC 1 cut(s) 582
HaeIII GGCC 3 cut(s) 50, 144, 587
HgaI GACGC 1 cut(s) 123
Hin1II CATG 5 cut(s) 286, 413, 621, 647, 707
HinfI GANTC 2 cut(s) 595, 630
HphI GGTGA 1 cut(s) 71
Hpy166II GTNNAC 2 cut(s) 83, 152
Hpy188I TCNGA 3 cut(s) 258, 546, 764
Hpy188III TCNNGA 3 cut(s) 100, 239, 599
Hpy8I GTNNAC 2 cut(s) 83, 152
HpyAV CCTTC 3 cut(s) 417, 508, 560
HpyCH4III ACNGT 3 cut(s) 356, 407, 715
HpyCH4IV ACGT 1 cut(s) 520
HpyCH4V TGCA 3 cut(s) 124, 684, 748
HpyF10VI GCNNNNNNNGC 1 cut(s) 584
HpyF3I CTNAG 3 cut(s) 15, 69, 626
HpySE526I ACGT 1 cut(s) 520
Hsp92II CATG 5 cut(s) 286, 413, 621, 647, 707
Kzo9I GATC 2 cut(s) 646, 717
LmnI GCTCC 1 cut(s) 770
LpnPI CCDG 3 cut(s) 36, 564, 753
Lsp1109I GCAGC 2 cut(s) 347, 355
LweI GCATC 4 cut(s) 28, 82, 238, 631
MaeI CTAG 5 cut(s) 6, 147, 239, 437, 778
MaeII ACGT 1 cut(s) 520
MaeIII GTNAC 4 cut(s) 266, 292, 350, 401
MalI GATC 2 cut(s) 648, 719
MboI GATC 2 cut(s) 646, 717
MboII GAAGA 4 cut(s) 22, 42, 334, 464
MlsI TGGCCA 1 cut(s) 587
MluCI AATT 3 cut(s) 170, 218, 490
MluNI TGGCCA 1 cut(s) 587
MlyI GAGTC 1 cut(s) 624
MnlI CCTC 5 cut(s) 176, 208, 246, 336, 654
Mox20I TGGCCA 1 cut(s) 587
MscI TGGCCA 1 cut(s) 587
MseI TTAA 2 cut(s) 138, 572
MslI CAYNNNNRTG 1 cut(s) 648
Msp20I TGGCCA 1 cut(s) 587
MwoI GCNNNNNNNGC 1 cut(s) 584
NdeI CATATG 1 cut(s) 128
NdeII GATC 2 cut(s) 646, 717
NlaIII CATG 5 cut(s) 286, 413, 621, 647, 707
NmuCI GTSAC 3 cut(s) 292, 350, 401
PfeI GAWTC 1 cut(s) 595
PkrI GCNGC 2 cut(s) 337, 370
PleI GAGTC 1 cut(s) 624
PpsI GAGTC 1 cut(s) 624
Ppu21I YACGTR 1 cut(s) 521
PspFI CCCAGC 1 cut(s) 578
PspPI GGNCC 2 cut(s) 49, 143
PstNI CAGNNNCTG 1 cut(s) 76
RsaI GTAC 1 cut(s) 523
RsaNI GTAC 1 cut(s) 522
RseI CAYNNNNRTG 1 cut(s) 648
SaqAI TTAA 2 cut(s) 138, 572
SatI GCNGC 2 cut(s) 336, 369
Sau3AI GATC 2 cut(s) 646, 717
Sau96I GGNCC 2 cut(s) 49, 143
SchI GAGTC 1 cut(s) 624
SetI ASST 4 cut(s) 523, 571, 665, 775
SfaNI GCATC 4 cut(s) 28, 82, 238, 631
SfcI CTRYAG 1 cut(s) 502
SmiMI CAYNNNNRTG 1 cut(s) 648
Sse9I AATT 3 cut(s) 170, 218, 490
SsiI CCGC 1 cut(s) 563
SspMI CTAG 5 cut(s) 6, 147, 239, 437, 778
StyI CCWWGG 1 cut(s) 392
TaaI ACNGT 3 cut(s) 356, 407, 715
TaiI ACGT 1 cut(s) 523
TaqI TCGA 3 cut(s) 190, 288, 466
TasI AATT 3 cut(s) 170, 218, 490
TfiI GAWTC 1 cut(s) 595
Tru1I TTAA 2 cut(s) 138, 572
Tru9I TTAA 2 cut(s) 138, 572
TscAI CASTG 2 cut(s) 126, 718
TseFI GTSAC 3 cut(s) 292, 350, 401
TseI GCWGC 2 cut(s) 335, 368
Tsp45I GTSAC 3 cut(s) 292, 350, 401
TspDTI ATGAA 2 cut(s) 546, 743
TspGWI ACGGA 1 cut(s) 623
TspRI CASTG 2 cut(s) 126, 718
XapI RAATTY 2 cut(s) 218, 490
XbaI TCTAGA 1 cut(s) 238
XmiI GTMKAC 1 cut(s) 82
XspI CTAG 5 cut(s) 6, 147, 239, 437, 778
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.