Rroxscaffold_3G00249310

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0013533
Physical Location & Seq
Forward (+)
42892350 .. 42896501
4152 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00249310.1

Sequence Viewer

Length: 1200 bp
ATGGATTCCCGGGACGCCCCGCCGCAGCAGCCTCCGTCGCAGCAACCCAACATGATGGTGGGCCCCAATTCCTACCCTTCCCCCATGGCCAACCCCAGCATAAACCCCAACAACAACAACGCCACCGCCACCGCCACCGCCAACAGCAACAACAACAACAACTCGGCCGCGATGTTGGGCGGCGGCGGCGGGCCGAATTCGGGTCGGTTCCAGTTCAACACGGTGGCCCAGCAGCCCGCATCGAAGCCGCAGCCGCTGGATTCCATGAGCCCGAGCCCGTTCGACGGATCGTTGAGGCCGTGCGGCGGAGGCGGCGGCGGCGGCAGCGGAGGGTTTAGCATCGACTCTTCTACGGCCTCGGCGGGGAAGAAGAAGCGAGGGAGGCCCAGAAAGTACTCCCCTGATGGCAACATTGCATTGGGATTGGCGCCCACTCAGATTCCTGCCTCGGCTCCCGTGGCGGCCGCCGCCGGCCCCCACGGAGAATCGAGCGGCACCATGTCGTCGGATCCCCCTGCCAAGAAGAACAGGGGGCGCCCGCCGGGCTCCGGAAAAAAGCAGCTCGACGCTTTGGGAGCTGGTGGAGTTGGGTTCACGCCTCATGTCATTATGGTGCAAGCCGGCGAGGATATAGCATCAAAGGTTATGTCCTTTTCACAGCAAGGACCACGCACAGTTTGTATCCTTTCTGCAAATGGTCCAATTGGCAATGTTACCCTTCGCCAGCCATCAATGTCTGGTGGTACAGTCACATATGAGGGTCGATTTGAGATTATTTCTCTTTCAGGCTCCTACTTGTTCTCTGAAAATAATGGTAACCGCAGCAGAACTGGTGGTTTGAGTGTGTCCCTGGCAGGGTCTGATGGTTCAGTGCTGGGCGGTGGAGTAGCGGGCATGCTATTGGCAGCAGGCCCGGTACAGGTGATTGTGGGTAGTTTTATTGCGGAAGGGAAAAAATCTAGCTCCAATTTGCTAAAATCCGGGCCTTCTTCTCCACCACCATCTCAAATGTTGAACTTTGGTGCACCTATGACAGCAGCTAGCCCTTCCTCTCAAGGAGGAGGCTCAACTGAGTCGTCTGATGAGAATGGTAGTAGCCCTCTTAACAAGGCACCGCCTGTGCTTTACAGTAACCCTAGTCAACCCATGCATAATATCACGATGTATCAACAATTATGGGCCGGGCAAACTCAACAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

399

Amino Acids

40.08

Weight (kDa)

9.57

Isoelectric Point (pI)

62.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 199 - 314 3.5e-24 Plants and Prokaryotes Conserved (PCC) 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: OG0013533)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17950 AT5G46640
fragaria_vesca FvH4_5g22000
malus_domestica MD06G1033700.v1.1 MD16G1274800.v1.1
prunus_persica Prupe.5G037000_v2.0.a1
pyrus_communis pycom06g02780 pycom16g24490
rosa_chinensis RchiOBHm_Chr7g0209501
rosa_laevigata RLG00000003123
rosa_multiflora Rmu_sc0000243.1_g000005
rosa_roxburghii Rroxscaffold_3G00249310
rosa_rugosa Rorug07G0114000
rosa_samantha Rh7AG248000 Rh7BG242500 Rh7CG263500 Rh7DG254100
rosa_wichuraiana Rw7G020930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 4 cut(s) 427, 494, 534, 1111
AccBSI CCGCTC 1 cut(s) 492
AccII CGCG 1 cut(s) 170
AccIII TCCGGA 1 cut(s) 548
AclWI GGATC 3 cut(s) 295, 503, 516
AcoI YGGCCR 3 cut(s) 87, 165, 462
AcsI RAATTY 1 cut(s) 196
AcyI GRCGYC 3 cut(s) 15, 428, 535
AfaI GTAC 3 cut(s) 395, 745, 918
AfiI CCNNNNNNNGG 7 cut(s) 200, 284, 305, 363, 548, 855, 919
AgsI TTSAA 2 cut(s) 217, 1015
AjnI CCWGG 1 cut(s) 849
AluBI AGCT 4 cut(s) 562, 578, 963, 1040
AluI AGCT 4 cut(s) 562, 578, 963, 1040
Alw21I GWGCWC 1 cut(s) 1027
Alw44I GTGCAC 1 cut(s) 1023
AlwI GGATC 3 cut(s) 295, 503, 516
AlwNI CAGNNNCTG 2 cut(s) 256, 860
Ama87I CYCGRG 2 cut(s) 9, 271
Aor13HI TCCGGA 1 cut(s) 548
ApaI GGGCCC 1 cut(s) 65
ApaLI GTGCAC 1 cut(s) 1023
ApoI RAATTY 1 cut(s) 196
ArsI GACNNNNNNTTYG 2 cut(s) 632, 664
AspLEI GCGC 2 cut(s) 430, 537
AsuC2I CCSGG 6 cut(s) 10, 11, 543, 914, 982, 1183
AsuHPI GGTGA 1 cut(s) 934
AsuNHI GCTAGC 1 cut(s) 1040
AvaI CYCGRG 2 cut(s) 9, 271
AvaII GGWCC 2 cut(s) 665, 698
BaeGI GKGCMC 2 cut(s) 65, 1027
BalI TGGCCA 1 cut(s) 89
BamHI GGATCC 1 cut(s) 508
BanI GGYRCC 4 cut(s) 427, 494, 534, 1111
BanII GRGCYC 4 cut(s) 65, 272, 278, 548
Bbv12I GWGCWC 1 cut(s) 1027
BccI CCATC 5 cut(s) 49, 398, 736, 857, 1009
BceAI ACGGC 2 cut(s) 283, 369
BciT130I CCWGG 1 cut(s) 851
BciVI GTATCC 1 cut(s) 692
BcnI CCSGG 6 cut(s) 10, 11, 543, 914, 982, 1183
BfaI CTAG 3 cut(s) 960, 1041, 1137
BfoI RGCGCY 2 cut(s) 431, 538
BfuI GTATCC 1 cut(s) 692
BglI GCCNNNNNGGC 1 cut(s) 543
BmcAI AGTACT 1 cut(s) 395
Bme1390I CCNGG 7 cut(s) 10, 11, 543, 851, 914, 982, 1183
Bme18I GGWCC 2 cut(s) 665, 698
BmeT110I CYCGRG 2 cut(s) 9, 271
BmrFI CCNGG 7 cut(s) 10, 11, 543, 851, 914, 982, 1183
BmsI GCATC 3 cut(s) 248, 348, 644
BmtI GCTAGC 1 cut(s) 1044
BpuEI CTTGAG 1 cut(s) 1038
BpuMI CCSGG 6 cut(s) 10, 11, 543, 914, 982, 1183
BsaHI GRCGYC 3 cut(s) 15, 428, 535
BsaJI CCNNGG 7 cut(s) 9, 84, 357, 447, 456, 478, 849
BsaWI WCCGGW 1 cut(s) 548
Bsc4I CCNNNNNNNGG 7 cut(s) 200, 284, 305, 363, 548, 855, 919
Bse118I RCCGGY 2 cut(s) 470, 620
Bse1I ACTGG 2 cut(s) 211, 835
Bse3DI GCAATG 2 cut(s) 411, 715
BseAI TCCGGA 1 cut(s) 548
BseBI CCWGG 1 cut(s) 851
BseDI CCNNGG 7 cut(s) 9, 84, 357, 447, 456, 478, 849
BseLI CCNNNNNNNGG 7 cut(s) 200, 284, 305, 363, 548, 855, 919
BseMI GCAATG 2 cut(s) 411, 715
BseMII CTCAG 2 cut(s) 449, 1062
BseNI ACTGG 2 cut(s) 211, 835
BseRI GAGGAG 1 cut(s) 1074
BseSI GKGCMC 2 cut(s) 65, 1027
BseX3I CGGCCG 2 cut(s) 165, 462
BseYI CCCAGC 3 cut(s) 95, 228, 874
Bsh1236I CGCG 1 cut(s) 170
Bsh1285I CGRYCG 2 cut(s) 168, 465
BshNI GGYRCC 4 cut(s) 427, 494, 534, 1111
BsiEI CGRYCG 2 cut(s) 168, 465
BsiHKAI GWGCWC 1 cut(s) 1027
BsiHKCI CYCGRG 2 cut(s) 9, 271
BsiSI CCGG 8 cut(s) 10, 471, 542, 549, 621, 914, 981, 1182
BslFI GGGAC 2 cut(s) 26, 832
BslI CCNNNNNNNGG 7 cut(s) 200, 284, 305, 363, 548, 855, 919
BsmFI GGGAC 2 cut(s) 26, 832
BsoBI CYCGRG 2 cut(s) 9, 271
Bsp120I GGGCCC 1 cut(s) 61
Bsp1286I GDGCHC 5 cut(s) 65, 272, 278, 548, 1027
Bsp13I TCCGGA 1 cut(s) 548
Bsp143I GATC 2 cut(s) 287, 508
Bsp19I CCATGG 1 cut(s) 84
BspCNI CTCAG 2 cut(s) 448, 1063
BspEI TCCGGA 1 cut(s) 548
BspFNI CGCG 1 cut(s) 170
BspOI GCTAGC 1 cut(s) 1044
BspPI GGATC 3 cut(s) 295, 503, 516
BspT107I GGYRCC 4 cut(s) 427, 494, 534, 1111
BsrBI CCGCTC 1 cut(s) 492
BsrDI GCAATG 2 cut(s) 411, 715
BsrFI RCCGGY 2 cut(s) 470, 620
BsrI ACTGG 2 cut(s) 211, 835
BssAI RCCGGY 2 cut(s) 470, 620
BssECI CCNNGG 7 cut(s) 9, 84, 357, 447, 456, 478, 849
BssMI GATC 2 cut(s) 287, 508
BssNI GRCGYC 3 cut(s) 15, 428, 535
BssT1I CCWWGG 1 cut(s) 84
Bst2UI CCWGG 1 cut(s) 851
Bst4CI ACNGT 5 cut(s) 223, 676, 748, 1130, 1197
Bst6I CTCTTC 1 cut(s) 352
BstACI GRCGYC 3 cut(s) 15, 428, 535
BstDEI CTNAG 2 cut(s) 435, 1071
BstDSI CCRYGG 3 cut(s) 84, 456, 478
BstEII GGTNACC 1 cut(s) 815
BstFNI CGCG 1 cut(s) 170
BstH2I RGCGCY 2 cut(s) 431, 538
BstHHI GCGC 2 cut(s) 430, 537
BstKTI GATC 2 cut(s) 290, 511
BstMBI GATC 2 cut(s) 287, 508
BstMCI CGRYCG 2 cut(s) 168, 465
BstNI CCWGG 1 cut(s) 851
BstNSI RCATGY 1 cut(s) 898
BstPI GGTNACC 1 cut(s) 815
BstSCI CCNGG 7 cut(s) 8, 9, 541, 849, 912, 980, 1181
BstSLI GKGCMC 2 cut(s) 65, 1027
BstUI CGCG 1 cut(s) 170
BstX2I RGATCY 1 cut(s) 508
BstXI CCANNNNNNTGG 1 cut(s) 55
BstYI RGATCY 1 cut(s) 508
BstZI CGGCCG 2 cut(s) 165, 462
BsuI GTATCC 1 cut(s) 692
BtgI CCRYGG 3 cut(s) 84, 456, 478
BtgZI GCGATG 1 cut(s) 185
BtsIMutI CAGTG 1 cut(s) 876
CaiI CAGNNNCTG 2 cut(s) 256, 860
CciNI GCGGCCGC 1 cut(s) 462
CfoI GCGC 2 cut(s) 430, 537
Cfr10I RCCGGY 2 cut(s) 470, 620
Cfr9I CCCGGG 1 cut(s) 9
CseI GACGC 2 cut(s) 23, 575
Csp6I GTAC 3 cut(s) 394, 744, 917
CviAII CATG 7 cut(s) 52, 85, 265, 499, 602, 895, 1147
CviQI GTAC 3 cut(s) 394, 744, 917
DdeI CTNAG 2 cut(s) 435, 1071
DinI GGCGCC 2 cut(s) 429, 536
DpnI GATC 2 cut(s) 289, 510
DpnII GATC 2 cut(s) 287, 508
EaeI YGGCCR 3 cut(s) 87, 165, 462
EagI CGGCCG 2 cut(s) 165, 462
Eam1104I CTCTTC 1 cut(s) 352
EarI CTCTTC 1 cut(s) 352
EciI GGCGGA 1 cut(s) 321
EclXI CGGCCG 2 cut(s) 165, 462
Eco130I CCWWGG 1 cut(s) 84
Eco24I GRGCYC 4 cut(s) 65, 272, 278, 548
Eco47I GGWCC 2 cut(s) 665, 698
Eco52I CGGCCG 2 cut(s) 165, 462
Eco88I CYCGRG 2 cut(s) 9, 271
Eco91I GGTNACC 1 cut(s) 815
EcoO109I RGGNCCY 1 cut(s) 62
EcoO65I GGTNACC 1 cut(s) 815
EcoRI GAATTC 1 cut(s) 196
EcoRII CCWGG 1 cut(s) 849
EcoT14I CCWWGG 1 cut(s) 84
EcoT22I ATGCAT 1 cut(s) 1152
EcoT38I GRGCYC 4 cut(s) 65, 272, 278, 548
EgeI GGCGCC 2 cut(s) 429, 536
EheI GGCGCC 2 cut(s) 429, 536
ErhI CCWWGG 1 cut(s) 84
FaeI CATG 7 cut(s) 55, 88, 268, 502, 605, 898, 1150
FaqI GGGAC 2 cut(s) 26, 832
FatI CATG 7 cut(s) 51, 84, 264, 498, 601, 894, 1146
FauI CCCGC 6 cut(s) 27, 182, 244, 355, 546, 883
FauNDI CATATG 1 cut(s) 754
FriOI GRGCYC 4 cut(s) 65, 272, 278, 548
FspBI CTAG 3 cut(s) 960, 1041, 1137
GlaI GCGC 2 cut(s) 429, 536
GsaI CCCAGC 3 cut(s) 99, 232, 878
HaeII RGCGCY 2 cut(s) 431, 538
HapII CCGG 8 cut(s) 10, 471, 542, 549, 621, 914, 981, 1182
HgaI GACGC 2 cut(s) 23, 575
HhaI GCGC 2 cut(s) 430, 537
Hin1I GRCGYC 3 cut(s) 15, 428, 535
Hin1II CATG 7 cut(s) 55, 88, 268, 502, 605, 898, 1150
Hin6I GCGC 2 cut(s) 428, 535
HinP1I GCGC 2 cut(s) 428, 535
HincII GTYRAC 1 cut(s) 1142
HindII GTYRAC 1 cut(s) 1142
HinfI GANTC 6 cut(s) 5, 260, 344, 439, 485, 1073
HpaII CCGG 8 cut(s) 10, 471, 542, 549, 621, 914, 981, 1182
HphI GGTGA 1 cut(s) 934
Hpy166II GTNNAC 3 cut(s) 594, 1025, 1142
Hpy188I TCNGA 5 cut(s) 438, 508, 805, 862, 1081
Hpy188III TCNNGA 2 cut(s) 549, 1159
Hpy8I GTNNAC 3 cut(s) 594, 1025, 1142
Hpy99I CGWCG 4 cut(s) 40, 287, 508, 569
HpyAV CCTTC 5 cut(s) 87, 728, 941, 996, 1056
HpyCH4III ACNGT 5 cut(s) 223, 676, 748, 1130, 1197
HpyCH4V TGCA 5 cut(s) 416, 616, 692, 1025, 1150
HpyF3I CTNAG 2 cut(s) 435, 1071
Hsp92I GRCGYC 3 cut(s) 15, 428, 535
Hsp92II CATG 7 cut(s) 55, 88, 268, 502, 605, 898, 1150
HspAI GCGC 2 cut(s) 428, 535
KasI GGCGCC 2 cut(s) 427, 534
Kpn2I TCCGGA 1 cut(s) 548
KroI GCCGGC 2 cut(s) 470, 620
KroNI GCCGGC 2 cut(s) 472, 622
Kzo9I GATC 2 cut(s) 287, 508
LmnI GCTCC 5 cut(s) 457, 551, 575, 794, 968
LweI GCATC 3 cut(s) 248, 348, 644
MaeI CTAG 3 cut(s) 960, 1041, 1137
MaeIII GTNAC 4 cut(s) 712, 748, 815, 1130
MalI GATC 2 cut(s) 289, 510
MbiI CCGCTC 1 cut(s) 492
MboI GATC 2 cut(s) 287, 508
MboII GAAGA 5 cut(s) 339, 379, 382, 535, 981
MfeI CAATTG 1 cut(s) 702
MflI RGATCY 1 cut(s) 508
MhlI GDGCHC 5 cut(s) 65, 272, 278, 548, 1027
MlsI TGGCCA 1 cut(s) 89
MluCI AATT 5 cut(s) 67, 196, 702, 967, 1172
MluNI TGGCCA 1 cut(s) 89
Mly113I GGCGCC 2 cut(s) 428, 535
MlyI GAGTC 2 cut(s) 338, 1082
MmeI TCCRAC 1 cut(s) 486
Mox20I TGGCCA 1 cut(s) 89
Mph1103I ATGCAT 1 cut(s) 1152
MroI TCCGGA 1 cut(s) 548
MroNI GCCGGC 2 cut(s) 470, 620
MscI TGGCCA 1 cut(s) 89
MseI TTAA 1 cut(s) 1104
MslI CAYNNNNRTG 2 cut(s) 56, 611
Msp20I TGGCCA 1 cut(s) 89
MspA1I CMGCKG 2 cut(s) 256, 327
MspI CCGG 8 cut(s) 10, 471, 542, 549, 621, 914, 981, 1182
MspR9I CCNGG 7 cut(s) 10, 11, 543, 851, 914, 982, 1183
MunI CAATTG 1 cut(s) 702
MvaI CCWGG 1 cut(s) 851
MvnI CGCG 1 cut(s) 170
NaeI GCCGGC 2 cut(s) 472, 622
NarI GGCGCC 2 cut(s) 428, 535
NciI CCSGG 6 cut(s) 10, 11, 543, 914, 982, 1183
NcoI CCATGG 1 cut(s) 84
NdeI CATATG 1 cut(s) 754
NdeII GATC 2 cut(s) 287, 508
NgoMIV GCCGGC 2 cut(s) 470, 620
NheI GCTAGC 1 cut(s) 1040
NlaIII CATG 7 cut(s) 55, 88, 268, 502, 605, 898, 1150
NmeAIII GCCGAG 3 cut(s) 143, 338, 428
NmuCI GTSAC 1 cut(s) 748
NotI GCGGCCGC 1 cut(s) 462
NsiI ATGCAT 1 cut(s) 1152
NspI RCATGY 1 cut(s) 898
PaeI GCATGC 1 cut(s) 898
PcsI WCGNNNNNNNCGW 1 cut(s) 296
PdiI GCCGGC 2 cut(s) 472, 622
PfeI GAWTC 4 cut(s) 5, 260, 439, 485
PleI GAGTC 2 cut(s) 338, 1081
PluTI GGCGCC 2 cut(s) 431, 538
PpsI GAGTC 2 cut(s) 338, 1081
Psp6I CCWGG 1 cut(s) 849
PspEI GGTNACC 1 cut(s) 815
PspFI CCCAGC 3 cut(s) 95, 228, 874
PspGI CCWGG 1 cut(s) 849
PspOMI GGGCCC 1 cut(s) 61
PstNI CAGNNNCTG 2 cut(s) 256, 860
PsuI RGATCY 1 cut(s) 508
RsaI GTAC 3 cut(s) 395, 745, 918
RsaNI GTAC 3 cut(s) 394, 744, 917
RseI CAYNNNNRTG 2 cut(s) 56, 611
SaqAI TTAA 1 cut(s) 1104
Sau3AI GATC 2 cut(s) 287, 508
ScaI AGTACT 1 cut(s) 395
SchI GAGTC 2 cut(s) 338, 1082
ScrFI CCNGG 7 cut(s) 10, 11, 543, 851, 914, 982, 1183
SduI GDGCHC 5 cut(s) 65, 272, 278, 548, 1027
SetI ASST 7 cut(s) 564, 580, 645, 924, 965, 1030, 1042
SfaNI GCATC 3 cut(s) 248, 348, 644
SfoI GGCGCC 2 cut(s) 429, 536
SinI GGWCC 2 cut(s) 665, 698
SmaI CCCGGG 1 cut(s) 11
SmiMI CAYNNNNRTG 2 cut(s) 56, 611
SmlI CTYRAG 1 cut(s) 1053
SmoI CTYRAG 1 cut(s) 1053
SphI GCATGC 1 cut(s) 898
Sse9I AATT 5 cut(s) 67, 196, 702, 967, 1172
SspDI GGCGCC 2 cut(s) 427, 534
SspMI CTAG 3 cut(s) 960, 1041, 1137
StyD4I CCNGG 7 cut(s) 8, 9, 541, 849, 912, 980, 1181
StyI CCWWGG 1 cut(s) 84
TaaI ACNGT 5 cut(s) 223, 676, 748, 1130, 1197
TaqI TCGA 6 cut(s) 242, 282, 342, 488, 564, 763
TasI AATT 5 cut(s) 67, 196, 702, 967, 1172
TatI WGTACW 1 cut(s) 393
TfiI GAWTC 4 cut(s) 5, 260, 439, 485
Tru1I TTAA 1 cut(s) 1104
Tru9I TTAA 1 cut(s) 1104
TscAI CASTG 1 cut(s) 876
TseFI GTSAC 1 cut(s) 748
Tsp45I GTSAC 1 cut(s) 748
TspGWI ACGGA 3 cut(s) 24, 300, 495
TspMI CCCGGG 1 cut(s) 9
TspRI CASTG 1 cut(s) 876
VneI GTGCAC 1 cut(s) 1023
VpaK11BI GGWCC 2 cut(s) 665, 698
XapI RAATTY 1 cut(s) 196
XceI RCATGY 1 cut(s) 898
XcmI CCANNNNNNNNNTGG 1 cut(s) 55
XmaI CCCGGG 1 cut(s) 9
XspI CTAG 3 cut(s) 960, 1041, 1137
ZrmI AGTACT 1 cut(s) 395
Zsp2I ATGCAT 1 cut(s) 1152
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.