Rroxscaffold_4G00329000

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000210
Physical Location & Seq
Reverse (-)
62138980 .. 62142202
3223 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00329000.1

Sequence Viewer

Length: 939 bp
ATGTCCTTATGCTCACTTCATTCAGCTTTATTCTTTTTTTATCTATTTTTTTTCTTCTCTTTTGTTTTTGTTGGTTTACATATTTATCTTGGGGATTCAAGGCAGTCCTTACTTCTGCTGCTGCCTCAGAGTTTAACTTGGAGAGAGAGTTCTGCATTTCCTGTTCTTGTTCAAAACTTCAAGGTATCATCTTCAAATGGCTCATTCAGTACCAGTGCCCGCGCCTTTTTCCAGGTCCTTGTTGGTGATTTCTCTGAGAAACTGAAAATGCCAACAGCTTTTGTCAACCACTTCAATGGATCAGCACTTTGCAAACTTCGAGGCCCTAGTGGAAAGTGCTGGGATGTAATATTGGAAGAGGAAAATAATGATATTTTCTTCCATAAAGGCTGGAATAAATTTGTGAAGGATAATTTTTTGGAGGAAGGACACATTTTGGTTTTCAATTATGATGGCAATTCTTGGTTCAACGCGACAATCTATGATAAAAGTGCATGTGAAATGGACATGGAAGCAGCCAAGACAAAGAGAAGTACTGGCGGTCTTGATGGTCAAAGGAGGGATTATGTCATGCCTGGGGAGACAAGAATCAGAATCATTGAGTTCAAATCAGAGCATCTTTGCTTTAAGAGAACTATGGAGAAGCACAGACTGTATCAGCTGAGCATTCCAATAATAATAGCCAGGGCTAAGGGTCTCATAAGCAAGCGGACTATAGAGCTTCGGGATCCAAGCAACAGATCATGGCTTATTAAAGTGACTCGCATGGAAGATGGTCGTTTACTTATGAACAAAGGCTGGCGTGCTTGTAGCAAGTGGAACCAGATTAAGAAAGGGCACACCATTGTTTTTGAGTTTGTGAAGGGACATGTGAAGCTTCACATCGTTAGAGCTGAGGGGTATGATGTGATACTCACAGGTCCTAATGTAGTAGATTGA
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

312

Amino Acids

35.98

Weight (kDa)

9.37

Isoelectric Point (pI)

47.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 84 - 160 1e-13 B3 DNA binding domain
B3 PF02362 215 - 296 1.4e-10 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)
AccII CGCG 2 cut(s) 222, 473
AciI CCGC 3 cut(s) 220, 540, 709
AclWI GGATC 3 cut(s) 307, 722, 735
AcsI RAATTY 1 cut(s) 398
AfaI GTAC 2 cut(s) 211, 535
AflIII ACRYGT 1 cut(s) 868
AgsI TTSAA 8 cut(s) 99, 173, 181, 195, 295, 445, 469, 607
AjnI CCWGG 3 cut(s) 231, 574, 683
AloI GAACNNNNNNTCC 2 cut(s) 133, 165
AluBI AGCT 6 cut(s) 26, 278, 661, 721, 877, 893
AluI AGCT 6 cut(s) 26, 278, 661, 721, 877, 893
Alw26I GTCTC 2 cut(s) 575, 701
AlwI GGATC 3 cut(s) 307, 722, 735
AoxI GGCC 1 cut(s) 322
ApeKI GCWGC 3 cut(s) 118, 121, 515
ApoI RAATTY 1 cut(s) 398
AspLEI GCGC 1 cut(s) 224
AspS9I GGNCC 3 cut(s) 235, 323, 920
AsuHPI GGTGA 1 cut(s) 257
AvaII GGWCC 2 cut(s) 235, 920
BaeGI GKGCMC 2 cut(s) 220, 840
BamHI GGATCC 1 cut(s) 727
BbvCI CCTCAGC 1 cut(s) 894
BbvI GCAGC 3 cut(s) 105, 108, 527
BccI CCATC 3 cut(s) 446, 542, 767
BciT130I CCWGG 3 cut(s) 233, 576, 685
BcoDI GTCTC 2 cut(s) 575, 701
BfaI CTAG 1 cut(s) 327
BfmI CTRYAG 1 cut(s) 714
BisI GCNGC 3 cut(s) 119, 122, 516
BlpI GCTNAGC 1 cut(s) 662
BlsI GCNGC 3 cut(s) 120, 123, 517
BmcAI AGTACT 1 cut(s) 535
Bme1390I CCNGG 3 cut(s) 233, 576, 685
Bme18I GGWCC 2 cut(s) 235, 920
BmgT120I GGNCC 3 cut(s) 235, 323, 920
BmiI GGNNCC 2 cut(s) 729, 821
BmrFI CCNGG 3 cut(s) 233, 576, 685
BmsI GCATC 1 cut(s) 625
Bpu10I CCTNAGC 2 cut(s) 690, 894
Bpu1102I GCTNAGC 1 cut(s) 662
BsaI GGTCTC 1 cut(s) 701
BsaJI CCNNGG 2 cut(s) 575, 684
BsaXI ACNNNNNCTCC 2 cut(s) 133, 163
Bse1I ACTGG 2 cut(s) 213, 541
BseBI CCWGG 3 cut(s) 233, 576, 685
BseDI CCNNGG 2 cut(s) 575, 684
BseGI GGATG 1 cut(s) 349
BseMII CTCAG 4 cut(s) 140, 246, 653, 885
BseNI ACTGG 2 cut(s) 213, 541
BseSI GKGCMC 2 cut(s) 220, 840
BseXI GCAGC 3 cut(s) 105, 108, 527
BseYI CCCAGC 1 cut(s) 339
Bsh1236I CGCG 2 cut(s) 222, 473
BshFI GGCC 1 cut(s) 324
BslFI GGGAC 1 cut(s) 879
BsmAI GTCTC 2 cut(s) 575, 701
BsmFI GGGAC 1 cut(s) 879
BsmI GAATGC 1 cut(s) 666
BsnI GGCC 1 cut(s) 324
Bso31I GGTCTC 1 cut(s) 701
Bsp1286I GDGCHC 2 cut(s) 220, 840
Bsp143I GATC 3 cut(s) 299, 727, 740
Bsp1720I GCTNAGC 1 cut(s) 662
BspACI CCGC 3 cut(s) 220, 540, 709
BspANI GGCC 1 cut(s) 324
BspCNI CTCAG 4 cut(s) 139, 247, 654, 886
BspFNI CGCG 2 cut(s) 222, 473
BspLI GGNNCC 2 cut(s) 729, 821
BspPI GGATC 3 cut(s) 307, 722, 735
BspTNI GGTCTC 1 cut(s) 701
BsrI ACTGG 2 cut(s) 213, 541
BssECI CCNNGG 2 cut(s) 575, 684
BssMI GATC 3 cut(s) 299, 727, 740
Bst2UI CCWGG 3 cut(s) 233, 576, 685
Bst4CI ACNGT 1 cut(s) 654
Bst6I CTCTTC 1 cut(s) 351
BstC8I GCNNGC 4 cut(s) 220, 707, 800, 804
BstDEI CTNAG 5 cut(s) 126, 255, 662, 690, 894
BstF5I GGATG 1 cut(s) 349
BstFNI CGCG 2 cut(s) 222, 473
BstHHI GCGC 1 cut(s) 224
BstKTI GATC 3 cut(s) 302, 730, 743
BstMAI GTCTC 2 cut(s) 575, 701
BstMBI GATC 3 cut(s) 299, 727, 740
BstNI CCWGG 3 cut(s) 233, 576, 685
BstNSI RCATGY 2 cut(s) 498, 872
BstSCI CCNGG 3 cut(s) 231, 574, 683
BstSFI CTRYAG 1 cut(s) 714
BstSLI GKGCMC 2 cut(s) 220, 840
BstUI CGCG 2 cut(s) 222, 473
BstV1I GCAGC 3 cut(s) 105, 108, 527
BstX2I RGATCY 1 cut(s) 727
BstXI CCANNNNNNTGG 1 cut(s) 296
BstYI RGATCY 1 cut(s) 727
BsuRI GGCC 1 cut(s) 324
BtsCI GGATG 1 cut(s) 349
BtsIMutI CAGTG 1 cut(s) 220
Cac8I GCNNGC 4 cut(s) 220, 707, 800, 804
CfoI GCGC 1 cut(s) 224
Cfr13I GGNCC 3 cut(s) 235, 323, 920
Csp6I GTAC 2 cut(s) 210, 534
CviAII CATG 6 cut(s) 495, 508, 571, 744, 766, 869
CviQI GTAC 2 cut(s) 210, 534
DdeI CTNAG 5 cut(s) 126, 255, 662, 690, 894
DpnI GATC 3 cut(s) 301, 729, 742
DpnII GATC 3 cut(s) 299, 727, 740
Eam1104I CTCTTC 1 cut(s) 351
EarI CTCTTC 1 cut(s) 351
Eco31I GGTCTC 1 cut(s) 701
Eco47I GGWCC 2 cut(s) 235, 920
EcoO109I RGGNCCY 3 cut(s) 235, 323, 920
EcoRII CCWGG 3 cut(s) 231, 574, 683
FaeI CATG 6 cut(s) 498, 511, 574, 747, 769, 872
FaqI GGGAC 1 cut(s) 879
FatI CATG 6 cut(s) 494, 507, 570, 743, 765, 868
FauI CCCGC 1 cut(s) 227
Fnu4HI GCNGC 3 cut(s) 119, 122, 516
FokI GGATG 1 cut(s) 356
Fsp4HI GCNGC 3 cut(s) 119, 122, 516
FspBI CTAG 1 cut(s) 327
GlaI GCGC 1 cut(s) 223
GluI GCNGC 3 cut(s) 119, 122, 516
GsaI CCCAGC 1 cut(s) 343
HaeIII GGCC 1 cut(s) 324
HhaI GCGC 1 cut(s) 224
Hin1II CATG 6 cut(s) 498, 511, 574, 747, 769, 872
Hin6I GCGC 1 cut(s) 222
HinP1I GCGC 1 cut(s) 222
HincII GTYRAC 1 cut(s) 286
HindII GTYRAC 1 cut(s) 286
HindIII AAGCTT 1 cut(s) 875
HinfI GANTC 4 cut(s) 95, 588, 594, 760
HphI GGTGA 1 cut(s) 257
Hpy166II GTNNAC 3 cut(s) 77, 286, 782
Hpy188I TCNGA 4 cut(s) 129, 256, 593, 613
Hpy188III TCNNGA 2 cut(s) 545, 725
Hpy8I GTNNAC 3 cut(s) 77, 286, 782
HpyAV CCTTC 3 cut(s) 400, 419, 856
HpyCH4III ACNGT 1 cut(s) 654
HpyCH4V TGCA 3 cut(s) 155, 312, 494
HpyF3I CTNAG 5 cut(s) 126, 255, 662, 690, 894
Hsp92II CATG 6 cut(s) 498, 511, 574, 747, 769, 872
HspAI GCGC 1 cut(s) 222
Kzo9I GATC 3 cut(s) 299, 727, 740
Lsp1109I GCAGC 3 cut(s) 105, 108, 527
LweI GCATC 1 cut(s) 625
MaeI CTAG 1 cut(s) 327
MaeIII GTNAC 1 cut(s) 757
MalI GATC 3 cut(s) 301, 729, 742
MboI GATC 3 cut(s) 299, 727, 740
MboII GAAGA 5 cut(s) 46, 183, 368, 370, 782
MflI RGATCY 1 cut(s) 727
MhlI GDGCHC 2 cut(s) 220, 840
MluCI AATT 4 cut(s) 398, 412, 445, 457
MlyI GAGTC 1 cut(s) 754
MnlI CCTC 6 cut(s) 135, 314, 352, 415, 552, 889
MseI TTAA 4 cut(s) 134, 627, 753, 828
MslI CAYNNNNRTG 1 cut(s) 294
MspA1I CMGCKG 1 cut(s) 661
MspR9I CCNGG 3 cut(s) 233, 576, 685
Mva1269I GAATGC 1 cut(s) 666
MvaI CCWGG 3 cut(s) 233, 576, 685
MvnI CGCG 2 cut(s) 222, 473
NdeII GATC 3 cut(s) 299, 727, 740
NlaIII CATG 6 cut(s) 498, 511, 574, 747, 769, 872
NlaIV GGNNCC 2 cut(s) 729, 821
NmuCI GTSAC 1 cut(s) 757
NspI RCATGY 2 cut(s) 498, 872
PciI ACATGT 1 cut(s) 868
PctI GAATGC 1 cut(s) 666
PfeI GAWTC 3 cut(s) 95, 588, 594
PkrI GCNGC 3 cut(s) 120, 123, 517
PleI GAGTC 1 cut(s) 754
PpsI GAGTC 1 cut(s) 754
PpuMI RGGWCCY 2 cut(s) 235, 920
PscI ACATGT 1 cut(s) 868
Psp5II RGGWCCY 2 cut(s) 235, 920
Psp6I CCWGG 3 cut(s) 231, 574, 683
PspFI CCCAGC 1 cut(s) 339
PspGI CCWGG 3 cut(s) 231, 574, 683
PspN4I GGNNCC 2 cut(s) 729, 821
PspPI GGNCC 3 cut(s) 235, 323, 920
PspPPI RGGWCCY 2 cut(s) 235, 920
PsuI RGATCY 1 cut(s) 727
PvuII CAGCTG 1 cut(s) 661
RsaI GTAC 2 cut(s) 211, 535
RsaNI GTAC 2 cut(s) 210, 534
RseI CAYNNNNRTG 1 cut(s) 294
SaqAI TTAA 4 cut(s) 134, 627, 753, 828
SatI GCNGC 3 cut(s) 119, 122, 516
Sau3AI GATC 3 cut(s) 299, 727, 740
Sau96I GGNCC 3 cut(s) 235, 323, 920
ScaI AGTACT 1 cut(s) 535
SchI GAGTC 1 cut(s) 754
ScrFI CCNGG 3 cut(s) 233, 576, 685
SduI GDGCHC 2 cut(s) 220, 840
SetI ASST 9 cut(s) 28, 186, 237, 280, 663, 723, 879, 895, 922
SfaNI GCATC 1 cut(s) 625
SfcI CTRYAG 1 cut(s) 714
SinI GGWCC 2 cut(s) 235, 920
SmiMI CAYNNNNRTG 1 cut(s) 294
Sse9I AATT 4 cut(s) 398, 412, 445, 457
SsiI CCGC 3 cut(s) 220, 540, 709
SspI AATATT 1 cut(s) 351
SspMI CTAG 1 cut(s) 327
StyD4I CCNGG 3 cut(s) 231, 574, 683
TaaI ACNGT 1 cut(s) 654
TaqI TCGA 1 cut(s) 319
TasI AATT 4 cut(s) 398, 412, 445, 457
TatI WGTACW 1 cut(s) 533
TfiI GAWTC 3 cut(s) 95, 588, 594
Tru1I TTAA 4 cut(s) 134, 627, 753, 828
Tru9I TTAA 4 cut(s) 134, 627, 753, 828
TscAI CASTG 1 cut(s) 220
TseFI GTSAC 1 cut(s) 757
TseI GCWGC 3 cut(s) 118, 121, 515
Tsp45I GTSAC 1 cut(s) 757
TspDTI ATGAA 2 cut(s) 8, 803
TspRI CASTG 1 cut(s) 220
VpaK11BI GGWCC 2 cut(s) 235, 920
XapI RAATTY 1 cut(s) 398
XceI RCATGY 2 cut(s) 498, 872
XcmI CCANNNNNNNNNTGG 1 cut(s) 239
XspI CTAG 1 cut(s) 327
ZrmI AGTACT 1 cut(s) 535
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.