Rroxscaffold_6G00421090

dna binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0017503
Physical Location & Seq
Forward (+)
42336698 .. 42337525
828 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00421090.1

Sequence Viewer

Length: 828 bp
ATGAAGAACCCTAATTCCGACGACACGGCTCCCAATCCAAAACCGAACAGCCACCATAGCGCCGCCAATGGGCGGCTGAGAGTAGTGGCACCGGGATCAGCCTCGGCCGGAGGAGGAGGAGGAGCAGCCGGCGGAGGAGTAGTAGAGGAGTGCAGCAACTGCGGGACCAAGAAGGGGTGGGTCCTACACAATGTCCGTTACCGAGCCACCCTCCGGCGCCTCTGCACCTCCTGCGTCCTCCGCCTCCACCCGGCCAGCTTCTGCCCCATCTGCTTCCAATTCCAGGACCACAACAATTCCCAAAATGCCCCTCCTCCCAACCTCGTCTCCTGCTCCAAGTGCCCCTCCCTCTCCCACTCCGACTGCCTCCCTCCCTACGCCGCCTTCTCCCCCTCCCCATTCCTCTGCCCTCCCTGCGCCTCCGCCAACCCCAAATTCTCCTTCTTCGAACTCGACGACCGCAACAAGGTCCTCGACAAGCGCCTCGCCGCCGTGCTGCTCTGCGCCGCCAGCATCGCCGCCTCGTCCATGTCCAAAGCCGCTGCCATCTCACGCGCCGAGGCCGAGCGGCGCGTGAGGGAGGCCGCCTTGGCTCGGAAGCGCGCTCGCGAGGCCTTGGACCGCTTCGTGCTCCTCTCCTCCGGCTCCTCCTTCAAGGCGGCGGCTCGCGCAACCGAGGTCTCTGGCTCCTCCAATGGCGGGAAGGAACCCTCCAAGAACAAGACCACCACCCCAGTTGCATTGACGAACAAAGCTCATCACTCTAATGGGGGCTTGCATCATAAACAAGAAGACAAGGCTGAAGAGCAGAAGGTGAAATTGAGCTGA
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
No domains found.

Protein Analysis

275

Amino Acids

29.06

Weight (kDa)

9.56

Isoelectric Point (pI)

53.47

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0017503)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09520
fragaria_vesca FvH4_6g08440
rosa_chinensis RchiOBHm_Chr3g0458411
rosa_laevigata RLG00000025159
rosa_multiflora Rmu_sc0013809.1_g000002
rosa_roxburghii Rroxscaffold_6G00421090
rosa_rugosa Rorug03G0027700
rosa_samantha Rh3AG087500 Rh3BG090300 Rh3CG090600 Rh3DG091200
rosa_wichuraiana Rw3G007430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 88, 216
AccBSI CCGCTC 1 cut(s) 568
AccII CGCG 5 cut(s) 555, 573, 603, 609, 669
AclWI GGATC 1 cut(s) 103
AcoI YGGCCR 2 cut(s) 105, 252
AcsI RAATTY 1 cut(s) 434
AcuI CTGAAG 1 cut(s) 822
AcyI GRCGYC 1 cut(s) 217
AfiI CCNNNNNNNGG 9 cut(s) 69, 72, 174, 213, 250, 283, 466, 594, 699
AgsI TTSAA 1 cut(s) 655
AjnI CCWGG 1 cut(s) 282
AjuI GAANNNNNNNTTGG 4 cut(s) 419, 425, 451, 457
AloI GAACNNNNNNTCC 1 cut(s) 31
AluBI AGCT 3 cut(s) 258, 755, 825
AluI AGCT 3 cut(s) 258, 755, 825
Alw21I GWGCWC 1 cut(s) 633
Alw26I GTCTC 2 cut(s) 331, 685
AlwI GGATC 1 cut(s) 103
AlwNI CAGNNNCTG 2 cut(s) 159, 261
AoxI GGCC 5 cut(s) 105, 252, 561, 582, 612
ApeKI GCWGC 4 cut(s) 125, 153, 496, 542
ApoI RAATTY 1 cut(s) 434
AspS9I GGNCC 5 cut(s) 165, 181, 286, 469, 619
AsuC2I CCSGG 2 cut(s) 93, 251
AsuHPI GGTGA 1 cut(s) 826
AsuII TTCGAA 1 cut(s) 447
AvaII GGWCC 5 cut(s) 165, 181, 286, 469, 619
BaeGI GKGCMC 1 cut(s) 344
BanI GGYRCC 2 cut(s) 88, 216
BbsI GAAGAC 1 cut(s) 798
Bbv12I GWGCWC 1 cut(s) 633
BbvI GCAGC 4 cut(s) 137, 165, 483, 529
BccI CCATC 2 cut(s) 275, 554
BceAI ACGGC 2 cut(s) 42, 476
BciT130I CCWGG 1 cut(s) 284
BcnI CCSGG 2 cut(s) 93, 251
BcoDI GTCTC 2 cut(s) 331, 685
BfoI RGCGCY 3 cut(s) 63, 220, 484
BglI GCCNNNNNGGC 1 cut(s) 590
Bme1390I CCNGG 3 cut(s) 93, 251, 284
Bme18I GGWCC 5 cut(s) 165, 181, 286, 469, 619
BmgT120I GGNCC 5 cut(s) 165, 181, 286, 469, 619
BmiI GGNNCC 8 cut(s) 30, 90, 166, 182, 218, 646, 688, 708
BmrFI CCNGG 3 cut(s) 93, 251, 284
BmrI ACTGGG 1 cut(s) 728
BmsI GCATC 2 cut(s) 522, 787
BmuI ACTGGG 1 cut(s) 728
BpiI GAAGAC 1 cut(s) 798
BplI GAGNNNNNCTC 2 cut(s) 195, 227
Bpu14I TTCGAA 1 cut(s) 447
BpuMI CCSGG 2 cut(s) 93, 251
BsaHI GRCGYC 1 cut(s) 217
BsaI GGTCTC 1 cut(s) 685
BsaJI CCNNGG 5 cut(s) 102, 558, 588, 615, 675
BsaXI ACNNNNNCTCC 4 cut(s) 126, 156, 311, 341
Bsc4I CCNNNNNNNGG 9 cut(s) 69, 72, 174, 213, 250, 283, 466, 594, 699
Bse118I RCCGGY 1 cut(s) 128
Bse1I ACTGG 1 cut(s) 734
BseBI CCWGG 1 cut(s) 284
BseDI CCNNGG 5 cut(s) 102, 558, 588, 615, 675
BseLI CCNNNNNNNGG 9 cut(s) 69, 72, 174, 213, 250, 283, 466, 594, 699
BseMII CTCAG 1 cut(s) 68
BseNI ACTGG 1 cut(s) 734
BsePI GCGCGC 1 cut(s) 601
BseSI GKGCMC 1 cut(s) 344
BseX3I CGGCCG 1 cut(s) 105
BseXI GCAGC 4 cut(s) 137, 165, 483, 529
BsgI GTGCAG 2 cut(s) 172, 208
Bsh1236I CGCG 5 cut(s) 555, 573, 603, 609, 669
Bsh1285I CGRYCG 2 cut(s) 108, 460
BshFI GGCC 5 cut(s) 107, 254, 563, 584, 614
BshNI GGYRCC 2 cut(s) 88, 216
BsiEI CGRYCG 2 cut(s) 108, 460
BsiHKAI GWGCWC 1 cut(s) 633
BsiSI CCGG 6 cut(s) 92, 108, 129, 214, 251, 642
BslFI GGGAC 1 cut(s) 178
BslI CCNNNNNNNGG 9 cut(s) 69, 72, 174, 213, 250, 283, 466, 594, 699
BsmAI GTCTC 2 cut(s) 331, 685
BsmBI CGTCTC 1 cut(s) 331
BsmFI GGGAC 1 cut(s) 178
BsnI GGCC 5 cut(s) 107, 254, 563, 584, 614
Bso31I GGTCTC 1 cut(s) 685
Bsp119I TTCGAA 1 cut(s) 447
Bsp1286I GDGCHC 2 cut(s) 344, 633
Bsp143I GATC 1 cut(s) 95
Bsp68I TCGCGA 1 cut(s) 609
BspANI GGCC 5 cut(s) 107, 254, 563, 584, 614
BspCNI CTCAG 1 cut(s) 69
BspFNI CGCG 5 cut(s) 555, 573, 603, 609, 669
BspLI GGNNCC 8 cut(s) 30, 90, 166, 182, 218, 646, 688, 708
BspPI GGATC 1 cut(s) 103
BspQI GCTCTTC 1 cut(s) 798
BspT104I TTCGAA 1 cut(s) 447
BspT107I GGYRCC 2 cut(s) 88, 216
BspTNI GGTCTC 1 cut(s) 685
BsrBI CCGCTC 1 cut(s) 568
BsrFI RCCGGY 1 cut(s) 128
BsrI ACTGG 1 cut(s) 734
BssAI RCCGGY 1 cut(s) 128
BssECI CCNNGG 5 cut(s) 102, 558, 588, 615, 675
BssHII GCGCGC 1 cut(s) 601
BssMI GATC 1 cut(s) 95
BssNI GRCGYC 1 cut(s) 217
BssT1I CCWWGG 2 cut(s) 588, 615
Bst2UI CCWGG 1 cut(s) 284
Bst6I CTCTTC 1 cut(s) 798
BstACI GRCGYC 1 cut(s) 217
BstAPI GCANNNNNTGC 2 cut(s) 159, 231
BstBI TTCGAA 1 cut(s) 447
BstC8I GCNNGC 7 cut(s) 130, 256, 511, 603, 607, 667, 776
BstDEI CTNAG 1 cut(s) 77
BstFNI CGCG 5 cut(s) 555, 573, 603, 609, 669
BstH2I RGCGCY 3 cut(s) 63, 220, 484
BstKTI GATC 1 cut(s) 98
BstMAI GTCTC 2 cut(s) 331, 685
BstMBI GATC 1 cut(s) 95
BstMCI CGRYCG 2 cut(s) 108, 460
BstNI CCWGG 1 cut(s) 284
BstSCI CCNGG 3 cut(s) 91, 249, 282
BstSLI GKGCMC 1 cut(s) 344
BstUI CGCG 5 cut(s) 555, 573, 603, 609, 669
BstV1I GCAGC 4 cut(s) 137, 165, 483, 529
BstV2I GAAGAC 1 cut(s) 798
BstZI CGGCCG 1 cut(s) 105
BsuRI GGCC 5 cut(s) 107, 254, 563, 584, 614
BtgZI GCGATG 1 cut(s) 499
BtuMI TCGCGA 1 cut(s) 609
Cac8I GCNNGC 7 cut(s) 130, 256, 511, 603, 607, 667, 776
CaiI CAGNNNCTG 2 cut(s) 159, 261
Cfr10I RCCGGY 1 cut(s) 128
Cfr13I GGNCC 5 cut(s) 165, 181, 286, 469, 619
CseI GACGC 1 cut(s) 223
CspCI CAANNNNNGTGG 2 cut(s) 718, 753
CviAII CATG 1 cut(s) 529
DdeI CTNAG 1 cut(s) 77
DinI GGCGCC 1 cut(s) 218
DpnI GATC 1 cut(s) 97
DpnII GATC 1 cut(s) 95
EaeI YGGCCR 2 cut(s) 105, 252
EagI CGGCCG 1 cut(s) 105
Eam1104I CTCTTC 1 cut(s) 798
EarI CTCTTC 1 cut(s) 798
EciI GGCGGA 3 cut(s) 147, 230, 412
EclXI CGGCCG 1 cut(s) 105
Eco130I CCWWGG 2 cut(s) 588, 615
Eco147I AGGCCT 1 cut(s) 614
Eco31I GGTCTC 1 cut(s) 685
Eco47I GGWCC 5 cut(s) 165, 181, 286, 469, 619
Eco52I CGGCCG 1 cut(s) 105
Eco57I CTGAAG 1 cut(s) 822
EcoO109I RGGNCCY 2 cut(s) 181, 469
EcoRII CCWGG 1 cut(s) 282
EcoT14I CCWWGG 2 cut(s) 588, 615
EgeI GGCGCC 1 cut(s) 218
EheI GGCGCC 1 cut(s) 218
ErhI CCWWGG 2 cut(s) 588, 615
Esp3I CGTCTC 1 cut(s) 331
FaeI CATG 1 cut(s) 532
FaiI YATR 3 cut(s) 57, 530, 783
FaqI GGGAC 1 cut(s) 178
FatI CATG 1 cut(s) 528
FauI CCCGC 2 cut(s) 155, 692
HaeII RGCGCY 3 cut(s) 63, 220, 484
HaeIII GGCC 5 cut(s) 107, 254, 563, 584, 614
HapII CCGG 6 cut(s) 92, 108, 129, 214, 251, 642
HgaI GACGC 1 cut(s) 223
Hin1I GRCGYC 1 cut(s) 217
Hin1II CATG 1 cut(s) 532
HpaII CCGG 6 cut(s) 92, 108, 129, 214, 251, 642
HphI GGTGA 1 cut(s) 826
Hpy188I TCNGA 3 cut(s) 19, 361, 597
Hpy188III TCNNGA 1 cut(s) 608
Hpy99I CGWCG 2 cut(s) 23, 458
HpyAV CCTTC 6 cut(s) 166, 394, 451, 661, 697, 805
HpyCH4V TGCA 4 cut(s) 153, 225, 740, 778
HpyF3I CTNAG 1 cut(s) 77
Hsp92I GRCGYC 1 cut(s) 217
Hsp92II CATG 1 cut(s) 532
KasI GGCGCC 1 cut(s) 216
KroI GCCGGC 1 cut(s) 128
KroNI GCCGGC 1 cut(s) 130
Kzo9I GATC 1 cut(s) 95
LguI GCTCTTC 1 cut(s) 798
LmnI GCTCC 6 cut(s) 34, 122, 338, 636, 650, 692
Lsp1109I GCAGC 4 cut(s) 137, 165, 483, 529
LweI GCATC 2 cut(s) 522, 787
MaeIII GTNAC 1 cut(s) 197
MalI GATC 1 cut(s) 97
MbiI CCGCTC 1 cut(s) 568
MboI GATC 1 cut(s) 95
MboII GAAGA 4 cut(s) 16, 436, 803, 815
MhlI GDGCHC 2 cut(s) 344, 633
MluCI AATT 5 cut(s) 13, 278, 295, 434, 818
Mly113I GGCGCC 1 cut(s) 217
MmeI TCCRAC 2 cut(s) 42, 384
MroNI GCCGGC 1 cut(s) 128
MslI CAYNNNNRTG 1 cut(s) 765
MspA1I CMGCKG 1 cut(s) 542
MspI CCGG 6 cut(s) 92, 108, 129, 214, 251, 642
MspR9I CCNGG 3 cut(s) 93, 251, 284
MvaI CCWGG 1 cut(s) 284
MvnI CGCG 5 cut(s) 555, 573, 603, 609, 669
NaeI GCCGGC 1 cut(s) 130
NarI GGCGCC 1 cut(s) 217
NciI CCSGG 2 cut(s) 93, 251
NdeII GATC 1 cut(s) 95
NgoMIV GCCGGC 1 cut(s) 128
NlaIII CATG 1 cut(s) 532
NlaIV GGNNCC 8 cut(s) 30, 90, 166, 182, 218, 646, 688, 708
NmeAIII GCCGAG 3 cut(s) 83, 583, 589
NruI TCGCGA 1 cut(s) 609
NspV TTCGAA 1 cut(s) 447
PauI GCGCGC 1 cut(s) 601
PceI AGGCCT 1 cut(s) 614
PciSI GCTCTTC 1 cut(s) 798
PcsI WCGNNNNNNNCGW 1 cut(s) 453
PdiI GCCGGC 1 cut(s) 130
PfoI TCCNGGA 1 cut(s) 282
PluTI GGCGCC 1 cut(s) 220
PpuMI RGGWCCY 2 cut(s) 181, 469
Psp5II RGGWCCY 2 cut(s) 181, 469
Psp6I CCWGG 1 cut(s) 282
PspGI CCWGG 1 cut(s) 282
PspN4I GGNNCC 8 cut(s) 30, 90, 166, 182, 218, 646, 688, 708
PspPI GGNCC 5 cut(s) 165, 181, 286, 469, 619
PspPPI RGGWCCY 2 cut(s) 181, 469
PstNI CAGNNNCTG 2 cut(s) 159, 261
PteI GCGCGC 1 cut(s) 601
RruI TCGCGA 1 cut(s) 609
RseI CAYNNNNRTG 1 cut(s) 765
SapI GCTCTTC 1 cut(s) 798
Sau3AI GATC 1 cut(s) 95
Sau96I GGNCC 5 cut(s) 165, 181, 286, 469, 619
ScrFI CCNGG 3 cut(s) 93, 251, 284
SduI GDGCHC 2 cut(s) 344, 633
SetI ASST 8 cut(s) 230, 260, 324, 471, 681, 757, 816, 827
SfaNI GCATC 2 cut(s) 522, 787
SfoI GGCGCC 1 cut(s) 218
SfuI TTCGAA 1 cut(s) 447
SinI GGWCC 5 cut(s) 165, 181, 286, 469, 619
SmiMI CAYNNNNRTG 1 cut(s) 765
Sse9I AATT 5 cut(s) 13, 278, 295, 434, 818
SseBI AGGCCT 1 cut(s) 614
SspDI GGCGCC 1 cut(s) 216
StuI AGGCCT 1 cut(s) 614
StyD4I CCNGG 3 cut(s) 91, 249, 282
StyI CCWWGG 2 cut(s) 588, 615
TaqI TCGA 3 cut(s) 447, 453, 474
TasI AATT 5 cut(s) 13, 278, 295, 434, 818
TseI GCWGC 4 cut(s) 125, 153, 496, 542
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 185
VpaK11BI GGWCC 5 cut(s) 165, 181, 286, 469, 619
XapI RAATTY 1 cut(s) 434
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.