Rh6DG090500

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000235
Physical Location & Seq
Forward (+)
10615212 .. 10617754
2543 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG090500.1

Sequence Viewer

Length: 921 bp
ATGGTATCAAAGAAAAGCGGCCTTCATTTTTCAAGGTTATTATTCCAGGCTACTCCACTCAACATTTGCCTCCTTTTTGTTGTCTTATTGAAGAGGATCCCACCACCATTCTTGGAGTTTATAAGGAATGACCTATCTGATGAAGCAACCTTGAACTCGAACACTTGTTCAGAGAGGTCTTGGAATGTTAGAGTACGTAAAACAAAAGGAGGTGTGTATTTCAAGGATGGGTGGCAGGGGTTCTCAAAAGATAACTCTGTGGAAGATGGTGACTTTTTGGTATTCGAGTATGAAGGAAACATGCATTTCAGCGTACAGATTTTTGACAACAGTTGTTGTGAGAGAGACTCTTTTCCTGACATTGAAACACACACAAAATCCACCTTTGCTGAGTGTAAGAAAAGGCATCCTGGTAGACCGAGGAAATCAGATATCGGTTGTTCTAAGCGTCCCCTCGCATTGAACTCTAGAAAAGACAGTTCAGTTGCAGATAACATAGCTAAGAAAAGGCTTCCTGGTAGACCAAGAAAATCCCATATCCGTCGTTATAAGCGCCCCTGCCCATCAAACTCTGGCGAAGACAATTCAGTACCAGATGACATAGTTGAGGAATCTGCAAAATCTTTCAAGTCCAACTATCCTCATGTCACAAAAGCCATTAAAGAGACTTTTTGTGTGTACTCATTCCCCACATCCTTCTATAGGGAGCATCTCTCTGGGGGCAACTATGAAGTTGTTTTCCTGAAAATTGCAGGGGGGAAAAGATGGTACCAAGTGAAGCTTGTACGATCCCTAAGAACGGCATACTTGTCCAAAGGGTGGTCTGAGTTTGCATGTGCTAACCAAATCAAGGTCGGAAATATTTGCGTATTTGAAGTTGTGGAAGAAAACAAATTGGTGGTTCACGTAGTCCAGCAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0007275 GO:0008150 GO:0009553 GO:0009566 GO:0009567 GO:0019953 GO:0022414 GO:0032501 GO:0032502 GO:0044703 GO:0048229 GO:0048856 GO:0051704
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
B3

Protein Analysis

306

Amino Acids

34.99

Weight (kDa)

9.38

Isoelectric Point (pI)

49.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 32 - 110 9.9e-16 B3 DNA binding domain
B3 PF02362 228 - 304 4.1e-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: OG0000235)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g22700 FvH4_2g06920 FvH4_2g06920 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06970 FvH4_2g06970 FvH4_2g07230 FvH4_2g07231 FvH4_2g07231 FvH4_2g07240 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_4g19990 FvH4_4g19990 FvH4_4g19990 FvH4_4g20070
malus_domestica MD05G1072700.v1.1
prunus_persica Prupe.8G113100_v2.0.a1
pyrus_communis pycom05g06500 pycom10g06950
rosa_chinensis RchiOBHm_Chr4g0425711 RchiOBHm_Chr6g0259241 RchiOBHm_Chr6g0259251 RchiOBHm_Chr6g0259321 RchiOBHm_Chr6g0259331 RchiOBHm_Chr6g0259781 RchiOBHm_Chr6g0259791 RchiOBHm_Chr6g0259811 RchiOBHm_Chr6g0259881 RchiOBHm_Chr6g0259931
rosa_laevigata RLG00000007345 RLG00000014500 RLG00000014501 RLG00000014505 RLG00000014506 RLG00000014507 RLG00000014539 RLG00000014540 RLG00000014545 RLG00000014546
rosa_multiflora Rmu_co8137334.1_g000001 Rmu_co8454279.1_g000001 Rmu_co8476373.1_g000001 Rmu_sc0001078.1_g000001 Rmu_sc0003958.1_g000011 Rmu_sc0009049.1_g000001 Rmu_sc0009049.1_g000009 Rmu_sc0010546.1_g000001 Rmu_sc0011974.1_g000002 Rmu_sc0011974.1_g000003 Rmu_sc0033846.1_g000001 Rmu_sc0036999.1_g000001 Rmu_ssc0000052.1_g000015
rosa_roxburghii Rroxscaffold_5G00367690 Rroxscaffold_7G00206530 Rroxscaffold_7G00206540 Rroxscaffold_7G00206560 Rroxscaffold_7G00206570 Rroxscaffold_7G00207020 Rroxscaffold_7G00207030 Rroxscaffold_7G00207150 Rroxscaffold_7G00207160 Rroxscaffold_7G00207170 Rroxscaffold_7G00207270
rosa_rugosa Rorug04G0205300 Rorug05G0586300 Rorug05G0586400 Rorug05G0586500 Rorug05G0586600 Rorug05G0586700 Rorug05G0587300 Rorug05G0587400 Rorug05G0587500 Rorug05G0587600 Rorug05G0590500 Rorug05G0590600 Rorug05G0591200 Rorug05G0591300 Rorug05G0591400 Rorug05G0591500
rosa_samantha Rh4AG262200 Rh4BG268500 Rh4CG279700 Rh4DG264100 Rh6AG103100 Rh6AG103600 Rh6AG107100 Rh6AG107200 Rh6AG107700 Rh6BG095400 Rh6BG095500 Rh6BG095900 Rh6BG096000 Rh6BG096800 Rh6BG102600 Rh6BG102700 Rh6BG102800 Rh6BG103800 Rh6CG092300 Rh6CG092400 Rh6CG092800 Rh6CG092900 Rh6CG096200 Rh6CG096300 Rh6CG096800 Rh6CG097100 Rh6DG086300 Rh6DG086400 Rh6DG086700 Rh6DG086800 Rh6DG090000 Rh6DG090100 Rh6DG090500 Rh6DG090800
rosa_wichuraiana Rw4G022670 Rw6G008900 Rw6G008940 Rw6G009250 Rw6G009280 Rw6G009330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 122, 549
Acc65I GGTACC 1 cut(s) 768
AccB1I GGYRCC 1 cut(s) 768
AccB7I CCANNNNNTGG 1 cut(s) 819
AccI GTMKAC 2 cut(s) 415, 520
AciI CCGC 1 cut(s) 18
AclWI GGATC 3 cut(s) 91, 104, 783
AfaI GTAC 6 cut(s) 195, 315, 591, 680, 770, 786
AfiI CCNNNNNNNGG 4 cut(s) 702, 799, 819, 850
AgsI TTSAA 8 cut(s) 33, 91, 154, 223, 365, 463, 628, 875
AjnI CCWGG 3 cut(s) 45, 409, 514
AluBI AGCT 2 cut(s) 500, 781
AluI AGCT 2 cut(s) 500, 781
Alw26I GTCTC 2 cut(s) 339, 659
AlwI GGATC 3 cut(s) 91, 104, 783
AoxI GGCC 1 cut(s) 19
Asp718I GGTACC 1 cut(s) 768
AspLEI GCGC 1 cut(s) 555
AsuHPI GGTGA 1 cut(s) 281
BamHI GGATCC 1 cut(s) 96
BanI GGYRCC 1 cut(s) 768
BbsI GAAGAC 1 cut(s) 585
BccI CCATC 4 cut(s) 221, 260, 571, 759
BceAI ACGGC 1 cut(s) 816
BciT130I CCWGG 3 cut(s) 47, 411, 516
BcoDI GTCTC 2 cut(s) 339, 659
BfaI CTAG 1 cut(s) 468
BfmI CTRYAG 1 cut(s) 700
BfoI RGCGCY 1 cut(s) 556
BisI GCNGC 1 cut(s) 19
BlsI GCNGC 1 cut(s) 20
Bme1390I CCNGG 3 cut(s) 47, 411, 516
BmiI GGNNCC 2 cut(s) 98, 770
BmrFI CCNGG 3 cut(s) 47, 411, 516
BmsI GCATC 2 cut(s) 415, 718
BpiI GAAGAC 1 cut(s) 585
BplI GAGNNNNNCTC 4 cut(s) 332, 364, 698, 730
BsaAI YACGTR 2 cut(s) 197, 907
BsaJI CCNNGG 1 cut(s) 419
Bsc4I CCNNNNNNNGG 4 cut(s) 702, 799, 819, 850
BseBI CCWGG 3 cut(s) 47, 411, 516
BseDI CCNNGG 1 cut(s) 419
BseGI GGATG 3 cut(s) 232, 406, 692
BseLI CCNNNNNNNGG 4 cut(s) 702, 799, 819, 850
BseMII CTCAG 2 cut(s) 381, 816
BshFI GGCC 1 cut(s) 21
BshNI GGYRCC 1 cut(s) 768
BslFI GGGAC 1 cut(s) 435
BslI CCNNNNNNNGG 4 cut(s) 702, 799, 819, 850
BsmAI GTCTC 2 cut(s) 339, 659
BsmFI GGGAC 1 cut(s) 435
BsnI GGCC 1 cut(s) 21
Bsp143I GATC 2 cut(s) 96, 788
BspACI CCGC 1 cut(s) 18
BspANI GGCC 1 cut(s) 21
BspCNI CTCAG 2 cut(s) 382, 817
BspLI GGNNCC 2 cut(s) 98, 770
BspPI GGATC 3 cut(s) 91, 104, 783
BspT107I GGYRCC 1 cut(s) 768
BssECI CCNNGG 1 cut(s) 419
BssMI GATC 2 cut(s) 96, 788
Bst2UI CCWGG 3 cut(s) 47, 411, 516
Bst4CI ACNGT 2 cut(s) 332, 479
Bst6I CTCTTC 1 cut(s) 86
BstBAI YACGTR 2 cut(s) 197, 907
BstDEI CTNAG 5 cut(s) 390, 444, 501, 794, 825
BstENI CCTNNNNNAGG 1 cut(s) 700
BstF5I GGATG 3 cut(s) 232, 406, 692
BstH2I RGCGCY 1 cut(s) 556
BstHHI GCGC 1 cut(s) 555
BstKTI GATC 2 cut(s) 99, 791
BstMAI GTCTC 2 cut(s) 339, 659
BstMBI GATC 2 cut(s) 96, 788
BstNI CCWGG 3 cut(s) 47, 411, 516
BstNSI RCATGY 2 cut(s) 304, 837
BstSCI CCNGG 3 cut(s) 45, 409, 514
BstSFI CTRYAG 1 cut(s) 700
BstSNI TACGTA 1 cut(s) 197
BstV2I GAAGAC 1 cut(s) 585
BstX2I RGATCY 1 cut(s) 96
BstYI RGATCY 1 cut(s) 96
BsuRI GGCC 1 cut(s) 21
BtsCI GGATG 3 cut(s) 232, 406, 692
CfoI GCGC 1 cut(s) 555
CseI GACGC 1 cut(s) 437
Csp6I GTAC 6 cut(s) 194, 314, 590, 679, 769, 785
CspCI CAANNNNNGTGG 2 cut(s) 93, 128
CviAII CATG 3 cut(s) 301, 644, 834
CviJI RGCY 6 cut(s) 21, 50, 500, 511, 656, 781
CviKI_1 RGCY 6 cut(s) 21, 50, 500, 511, 656, 781
CviQI GTAC 6 cut(s) 194, 314, 590, 679, 769, 785
DdeI CTNAG 5 cut(s) 390, 444, 501, 794, 825
DpnI GATC 2 cut(s) 98, 790
DpnII GATC 2 cut(s) 96, 788
Eam1104I CTCTTC 1 cut(s) 86
EarI CTCTTC 1 cut(s) 86
Eco105I TACGTA 1 cut(s) 197
Eco32I GATATC 1 cut(s) 433
EcoNI CCTNNNNNAGG 1 cut(s) 700
EcoRII CCWGG 3 cut(s) 45, 409, 514
EcoRV GATATC 1 cut(s) 433
EcoT22I ATGCAT 1 cut(s) 306
FaeI CATG 3 cut(s) 304, 647, 837
FalI AAGNNNNNCTT 2 cut(s) 765, 797
FaqI GGGAC 1 cut(s) 435
FatI CATG 3 cut(s) 300, 643, 833
FblI GTMKAC 2 cut(s) 415, 520
Fnu4HI GCNGC 1 cut(s) 19
FokI GGATG 3 cut(s) 239, 393, 679
Fsp4HI GCNGC 1 cut(s) 19
FspBI CTAG 1 cut(s) 468
GlaI GCGC 1 cut(s) 554
GluI GCNGC 1 cut(s) 19
HaeII RGCGCY 1 cut(s) 556
HaeIII GGCC 1 cut(s) 21
HgaI GACGC 1 cut(s) 437
HhaI GCGC 1 cut(s) 555
Hin1II CATG 3 cut(s) 304, 647, 837
Hin6I GCGC 1 cut(s) 553
HinP1I GCGC 1 cut(s) 553
HindIII AAGCTT 1 cut(s) 779
HinfI GANTC 2 cut(s) 347, 611
HphI GGTGA 1 cut(s) 281
Hpy166II GTNNAC 4 cut(s) 416, 521, 679, 904
Hpy188I TCNGA 5 cut(s) 139, 172, 430, 826, 857
Hpy188III TCNNGA 3 cut(s) 356, 468, 742
Hpy8I GTNNAC 4 cut(s) 416, 521, 679, 904
Hpy99I CGWCG 1 cut(s) 546
HpyAV CCTTC 3 cut(s) 32, 287, 706
HpyCH4III ACNGT 2 cut(s) 332, 479
HpyCH4IV ACGT 2 cut(s) 196, 906
HpyCH4V TGCA 5 cut(s) 304, 488, 617, 752, 833
HpyF3I CTNAG 5 cut(s) 390, 444, 501, 794, 825
HpySE526I ACGT 2 cut(s) 196, 906
Hsp92II CATG 3 cut(s) 304, 647, 837
HspAI GCGC 1 cut(s) 553
KpnI GGTACC 1 cut(s) 772
Kzo9I GATC 2 cut(s) 96, 788
LmnI GCTCC 1 cut(s) 706
LweI GCATC 2 cut(s) 415, 718
MaeI CTAG 1 cut(s) 468
MaeII ACGT 2 cut(s) 196, 906
MaeIII GTNAC 2 cut(s) 269, 646
MalI GATC 2 cut(s) 98, 790
MboI GATC 2 cut(s) 96, 788
MboII GAAGA 4 cut(s) 103, 275, 590, 896
MflI RGATCY 1 cut(s) 96
MluCI AATT 3 cut(s) 583, 747, 893
MlyI GAGTC 1 cut(s) 341
MmeI TCCRAC 2 cut(s) 657, 835
MnlI CCTC 8 cut(s) 80, 87, 168, 203, 414, 464, 601, 651
Mph1103I ATGCAT 1 cut(s) 306
MseI TTAA 1 cut(s) 660
MspR9I CCNGG 3 cut(s) 47, 411, 516
MvaI CCWGG 3 cut(s) 47, 411, 516
NdeII GATC 2 cut(s) 96, 788
NlaIII CATG 3 cut(s) 304, 647, 837
NlaIV GGNNCC 2 cut(s) 98, 770
NmuCI GTSAC 2 cut(s) 269, 646
NsiI ATGCAT 1 cut(s) 306
NspI RCATGY 2 cut(s) 304, 837
PfeI GAWTC 1 cut(s) 611
PflMI CCANNNNNTGG 1 cut(s) 819
PkrI GCNGC 1 cut(s) 20
PleI GAGTC 1 cut(s) 341
PpsI GAGTC 1 cut(s) 341
Ppu21I YACGTR 2 cut(s) 197, 907
PsiI TTATAA 2 cut(s) 122, 549
Psp6I CCWGG 3 cut(s) 45, 409, 514
PspGI CCWGG 3 cut(s) 45, 409, 514
PspN4I GGNNCC 2 cut(s) 98, 770
PsuI RGATCY 1 cut(s) 96
RsaI GTAC 6 cut(s) 195, 315, 591, 680, 770, 786
RsaNI GTAC 6 cut(s) 194, 314, 590, 679, 769, 785
SaqAI TTAA 1 cut(s) 660
SatI GCNGC 1 cut(s) 19
Sau3AI GATC 2 cut(s) 96, 788
SchI GAGTC 1 cut(s) 341
ScrFI CCNGG 3 cut(s) 47, 411, 516
SfaNI GCATC 2 cut(s) 415, 718
SfcI CTRYAG 1 cut(s) 700
SnaBI TACGTA 1 cut(s) 197
Sse9I AATT 3 cut(s) 583, 747, 893
SsiI CCGC 1 cut(s) 18
SspI AATATT 1 cut(s) 862
SspMI CTAG 1 cut(s) 468
StyD4I CCNGG 3 cut(s) 45, 409, 514
TaaI ACNGT 2 cut(s) 332, 479
TaiI ACGT 2 cut(s) 199, 909
TaqI TCGA 2 cut(s) 158, 285
TaqII GACCGA 1 cut(s) 433
TasI AATT 3 cut(s) 583, 747, 893
TatI WGTACW 1 cut(s) 678
TauI GCSGC 1 cut(s) 21
TfiI GAWTC 1 cut(s) 611
Tru1I TTAA 1 cut(s) 660
Tru9I TTAA 1 cut(s) 660
TseFI GTSAC 2 cut(s) 269, 646
Tsp45I GTSAC 2 cut(s) 269, 646
TspDTI ATGAA 4 cut(s) 14, 156, 306, 744
TspGWI ACGGA 1 cut(s) 530
Van91I CCANNNNNTGG 1 cut(s) 819
XagI CCTNNNNNAGG 1 cut(s) 700
XbaI TCTAGA 1 cut(s) 467
XceI RCATGY 2 cut(s) 304, 837
XmiI GTMKAC 2 cut(s) 415, 520
XspI CTAG 1 cut(s) 468
Zsp2I ATGCAT 1 cut(s) 306
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.