Rroxscaffold_7G00206540

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000235
Physical Location & Seq
Reverse (-)
56349397 .. 56351606
2210 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00206540.1

Sequence Viewer

Length: 696 bp
ATGGCGAGGAGAATAGCCAAGAATGGTGGTATCAAGGAAGAGAGACCTTCTTTCTTCAAGGTCATTCTTCCCGGTTACAACACTGAACAGTTGAGGATTCCACCGCATTTCCTAGAGCATGGTAGAAATGACCAACCTGAAAGGGCAACTTTGACATGGAACATGTCTTTAGAGCGTTCGTGGACTGTCAAATTGTGTAGAACAAAAGAAGGTGTGTATTTCAAGGATGGGTGGCGGGATTTTTTAAATGATAACTCAGTGAAAGAAGGTGACTTCCTAGTGTTCACCCATGAAGGGGAGATGCATTTCAGCATACGTGATTACGAAAATAATTGTTGCAAGAGAGGCGATTTTCCTACTAATAATGAACCACACGAAGAATCCGCCCCTGCTAAGAGTACTAAAAGGAATCCTGGTAGTCCAAAGAAAGATTATTCAGGTATCCAGTTAGATTACTCACTTCCCACAGCCTTCTATAGGAAGCATCTTTCTGCAGGCAACCATGAAGTTGCTTTCCTGAAGATTTCAGGGGGAACCAAATGGTACAAAGTGAAGCTTGTCCCTTCCCTTCAAACAGCCTTCATGTCTAAAGGGTGGTCTGTGTTTGCGCATGATAACCAATTCGTGGTTGGAGATGTTTGCGCTTTCGAGTTCGTGAAAGAGAACAAAATGGTGATTCACATTCTGCGGAAGTGA
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

231

Amino Acids

26.71

Weight (kDa)

9.17

Isoelectric Point (pI)

40.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 18 - 103 3.9e-18 B3 DNA binding domain
B3 PF02362 152 - 231 4.8e-11 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc16I TGCGCA 1 cut(s) 609
AccB7I CCANNNNNTGG 1 cut(s) 625
AciI CCGC 4 cut(s) 104, 235, 384, 688
AcuI CTGAAG 1 cut(s) 539
AfaI GTAC 2 cut(s) 400, 545
AfiI CCNNNNNNNGG 4 cut(s) 294, 295, 477, 625
AflIII ACRYGT 1 cut(s) 162
AgsI TTSAA 3 cut(s) 58, 223, 572
AjnI CCWGG 1 cut(s) 412
AluBI AGCT 1 cut(s) 556
AluI AGCT 1 cut(s) 556
Alw26I GTCTC 1 cut(s) 37
AspLEI GCGC 2 cut(s) 610, 644
AsuC2I CCSGG 1 cut(s) 72
AsuHPI GGTGA 3 cut(s) 277, 281, 685
BccI CCATC 1 cut(s) 221
BciT130I CCWGG 1 cut(s) 414
BciVI GTATCC 1 cut(s) 452
BcnI CCSGG 1 cut(s) 72
BcoDI GTCTC 1 cut(s) 37
BfaI CTAG 2 cut(s) 113, 278
BfmI CTRYAG 2 cut(s) 475, 492
BfuI GTATCC 1 cut(s) 452
BmcAI AGTACT 1 cut(s) 400
Bme1390I CCNGG 2 cut(s) 72, 414
BmiI GGNNCC 1 cut(s) 535
BmrFI CCNGG 2 cut(s) 72, 414
BmsI GCATC 2 cut(s) 291, 493
BpuMI CCSGG 1 cut(s) 72
BsaAI YACGTR 1 cut(s) 317
BsaI GGTCTC 1 cut(s) 37
Bsc4I CCNNNNNNNGG 4 cut(s) 294, 295, 477, 625
Bse1I ACTGG 1 cut(s) 445
BseBI CCWGG 1 cut(s) 414
BseGI GGATG 1 cut(s) 232
BseLI CCNNNNNNNGG 4 cut(s) 294, 295, 477, 625
BseMII CTCAG 1 cut(s) 270
BseNI ACTGG 1 cut(s) 445
BseRI GAGGAG 1 cut(s) 22
BsiSI CCGG 1 cut(s) 72
BslFI GGGAC 1 cut(s) 545
BslI CCNNNNNNNGG 4 cut(s) 294, 295, 477, 625
BsmAI GTCTC 1 cut(s) 37
BsmFI GGGAC 1 cut(s) 545
Bso31I GGTCTC 1 cut(s) 37
BspACI CCGC 4 cut(s) 104, 235, 384, 688
BspCNI CTCAG 1 cut(s) 269
BspLI GGNNCC 1 cut(s) 535
BspMAI CTGCAG 1 cut(s) 496
BspTNI GGTCTC 1 cut(s) 37
BsrI ACTGG 1 cut(s) 445
Bst2UI CCWGG 1 cut(s) 414
Bst4CI ACNGT 2 cut(s) 90, 187
Bst6I CTCTTC 1 cut(s) 33
BstBAI YACGTR 1 cut(s) 317
BstC8I GCNNGC 1 cut(s) 496
BstDEI CTNAG 2 cut(s) 256, 393
BstENI CCTNNNNNAGG 1 cut(s) 475
BstF5I GGATG 1 cut(s) 232
BstHHI GCGC 2 cut(s) 610, 644
BstMAI GTCTC 1 cut(s) 37
BstMWI GCNNNNNNNGC 1 cut(s) 345
BstNI CCWGG 1 cut(s) 414
BstNSI RCATGY 1 cut(s) 166
BstSCI CCNGG 2 cut(s) 70, 412
BstSFI CTRYAG 2 cut(s) 475, 492
BsuI GTATCC 1 cut(s) 452
BtsCI GGATG 1 cut(s) 232
BtsIMutI CAGTG 2 cut(s) 81, 264
Cac8I GCNNGC 1 cut(s) 496
CfoI GCGC 2 cut(s) 610, 644
Csp6I GTAC 2 cut(s) 399, 544
CspCI CAANNNNNGTGG 2 cut(s) 7, 42
CviAII CATG 7 cut(s) 119, 156, 163, 290, 503, 583, 611
CviJI RGCY 4 cut(s) 17, 470, 556, 578
CviKI_1 RGCY 4 cut(s) 17, 470, 556, 578
CviQI GTAC 2 cut(s) 399, 544
DdeI CTNAG 2 cut(s) 256, 393
DraI TTTAAA 1 cut(s) 246
Eam1104I CTCTTC 1 cut(s) 33
EarI CTCTTC 1 cut(s) 33
EciI GGCGGA 1 cut(s) 373
Eco31I GGTCTC 1 cut(s) 37
Eco57I CTGAAG 1 cut(s) 539
EcoNI CCTNNNNNAGG 1 cut(s) 475
EcoRII CCWGG 1 cut(s) 412
EcoT22I ATGCAT 1 cut(s) 306
FaeI CATG 7 cut(s) 122, 159, 166, 293, 506, 586, 614
FaiI YATR 9 cut(s) 120, 157, 164, 291, 314, 477, 504, 584, 612
FalI AAGNNNNNCTT 4 cut(s) 133, 165, 540, 572
FaqI GGGAC 1 cut(s) 545
FatI CATG 7 cut(s) 118, 155, 162, 289, 502, 582, 610
FauI CCCGC 1 cut(s) 228
FokI GGATG 1 cut(s) 239
FspBI CTAG 2 cut(s) 113, 278
FspI TGCGCA 1 cut(s) 609
GlaI GCGC 2 cut(s) 609, 643
HapII CCGG 1 cut(s) 72
HhaI GCGC 2 cut(s) 610, 644
Hin1II CATG 7 cut(s) 122, 159, 166, 293, 506, 586, 614
Hin6I GCGC 2 cut(s) 608, 642
HinP1I GCGC 2 cut(s) 608, 642
HindIII AAGCTT 1 cut(s) 554
HinfI GANTC 4 cut(s) 97, 380, 409, 676
HpaII CCGG 1 cut(s) 72
HphI GGTGA 3 cut(s) 277, 281, 685
Hpy166II GTNNAC 2 cut(s) 183, 285
Hpy188III TCNNGA 2 cut(s) 517, 655
Hpy8I GTNNAC 2 cut(s) 183, 285
HpyAV CCTTC 8 cut(s) 57, 203, 260, 287, 481, 573, 578, 589
HpyCH4III ACNGT 2 cut(s) 90, 187
HpyCH4IV ACGT 1 cut(s) 316
HpyCH4V TGCA 3 cut(s) 304, 339, 494
HpyF10VI GCNNNNNNNGC 1 cut(s) 345
HpyF3I CTNAG 2 cut(s) 256, 393
HpySE526I ACGT 1 cut(s) 316
Hsp92II CATG 7 cut(s) 122, 159, 166, 293, 506, 586, 614
HspAI GCGC 2 cut(s) 608, 642
LweI GCATC 2 cut(s) 291, 493
MaeI CTAG 2 cut(s) 113, 278
MaeII ACGT 1 cut(s) 316
MaeIII GTNAC 2 cut(s) 74, 269
MboII GAAGA 5 cut(s) 46, 50, 59, 389, 532
MluCI AATT 3 cut(s) 191, 331, 620
MmeI TCCRAC 1 cut(s) 610
MnlI CCTC 2 cut(s) 87, 338
Mph1103I ATGCAT 1 cut(s) 306
MseI TTAA 1 cut(s) 245
MspI CCGG 1 cut(s) 72
MspR9I CCNGG 2 cut(s) 72, 414
MvaI CCWGG 1 cut(s) 414
MwoI GCNNNNNNNGC 1 cut(s) 345
NciI CCSGG 1 cut(s) 72
NlaIII CATG 7 cut(s) 122, 159, 166, 293, 506, 586, 614
NlaIV GGNNCC 1 cut(s) 535
NmuCI GTSAC 1 cut(s) 269
NsbI TGCGCA 1 cut(s) 609
NsiI ATGCAT 1 cut(s) 306
NspI RCATGY 1 cut(s) 166
PciI ACATGT 1 cut(s) 162
PfeI GAWTC 4 cut(s) 97, 380, 409, 676
PflMI CCANNNNNTGG 1 cut(s) 625
Ppu21I YACGTR 1 cut(s) 317
PscI ACATGT 1 cut(s) 162
Psp6I CCWGG 1 cut(s) 412
PspGI CCWGG 1 cut(s) 412
PspN4I GGNNCC 1 cut(s) 535
PstI CTGCAG 1 cut(s) 496
RsaI GTAC 2 cut(s) 400, 545
RsaNI GTAC 2 cut(s) 399, 544
SaqAI TTAA 1 cut(s) 245
ScaI AGTACT 1 cut(s) 400
ScrFI CCNGG 2 cut(s) 72, 414
SetI ASST 8 cut(s) 49, 63, 139, 214, 271, 319, 442, 558
SfaNI GCATC 2 cut(s) 291, 493
SfcI CTRYAG 2 cut(s) 475, 492
Sse9I AATT 3 cut(s) 191, 331, 620
SsiI CCGC 4 cut(s) 104, 235, 384, 688
SspMI CTAG 2 cut(s) 113, 278
StyD4I CCNGG 2 cut(s) 70, 412
TaaI ACNGT 2 cut(s) 90, 187
TaiI ACGT 1 cut(s) 319
TaqI TCGA 1 cut(s) 648
TasI AATT 3 cut(s) 191, 331, 620
TatI WGTACW 1 cut(s) 398
TfiI GAWTC 4 cut(s) 97, 380, 409, 676
Tru1I TTAA 1 cut(s) 245
Tru9I TTAA 1 cut(s) 245
TscAI CASTG 2 cut(s) 88, 264
TseFI GTSAC 1 cut(s) 269
Tsp45I GTSAC 1 cut(s) 269
TspDTI ATGAA 4 cut(s) 306, 381, 519, 571
TspRI CASTG 2 cut(s) 88, 264
Van91I CCANNNNNTGG 1 cut(s) 625
XagI CCTNNNNNAGG 1 cut(s) 475
XceI RCATGY 1 cut(s) 166
XcmI CCANNNNNNNNNTGG 1 cut(s) 626
XspI CTAG 2 cut(s) 113, 278
ZrmI AGTACT 1 cut(s) 400
Zsp2I ATGCAT 1 cut(s) 306
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.