Rroxscaffold_6G00427890

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0011499
Physical Location & Seq
Reverse (-)
48444827 .. 48450916
6090 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00427890.1

Sequence Viewer

Length: 1098 bp
ATGGAACCAAACGAACACCAACTCAGCTCCTACTTCAACCCCTCCACCACCGCCGCCGCCGCCGCCTTGTCTCCCACCAATGGCCTTGCCGGCGGCCCAAACACCCAACAACAACAGCTGTCCTCCGCCGACAACAACAACATGGTCTACACTCCTCACTCTTCCTCCGCCGCCGCCGTGCCTCCGCCCTCGGCAGCGGTGACGTCACCGCTGGAGCCGGCGAAGAGGAAGCGCGGGAGGCCCAGGAAGTACGGCACGCCGGAGCAGGCCTTGGCGGCCAAGAAGGCCGCGACGACGTCGTCTCACTCCTCGTCTTCTAAGGAGAAGAAGGAGCAGCAGCACCACCACCAGCAGCAGCAACACGGCGGCGGCTCAGCCTCGCCGTCTTATTCTGGGTCCACCAAGAAATCTCAGCTCTCTGCTCTTGGCAATTCAGGGCAAGGTTTTACACCACATGTTCTAACTGTGGCTGCAGGAGAGGATGTGGCCCAGAAAATCATGGTTTTTATGCAACAGAATAAGCGTGACATATGCATTCTGTCCGCTTCTGGTTCAATCTCAAATGCATCTATTCGCCAGCCAGCTACTTCAGGAGGCAACATTACATATGAGGGTCGCTTTGAGATCATTTCACTGTCTGGATCTTATGTAACTGACCAAGGGGGAAAGACTGGTGGGCTCAGTGTGTGTCTCTCCAATACAAATGGGCAAATCATTGGGGGTGGAGTTGGTGGACCACTGAAGGCTGCAGGCCCTGTTCAGGTTATTGTTGGTACTTTTCTGATTGATAACAAAAAGGATAAAGTCGAGGTTTCCATGCCCAGGATGCCATCGCCAGGTGGTGGAGCATCTATGATGAATGTAGGTTTCCGCTCAACGGTGGACTCTTCTGGAAGAAATATGGTCAGGGCAAATGATGAACAACAGCAAGCTATTGGCGGAAGTCATTTCATGATTCAGGGCATGCATGGATCCACAGATTGGAGGACTGGTCCAGATGCCAGAAGCACTGGTGGTGCTTATGAATTGGCAGGAAGAGGTGGTCGTGCGGCCCACCAGTCTCCGGAAAATGGGGACTATGATCAAATTCCAGATTAG
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
DUF296

Protein Analysis

365

Amino Acids

37.85

Weight (kDa)

9.24

Isoelectric Point (pI)

45.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 150 - 260 6.5e-25 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
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Orthologous Genes (Group: OG0011499)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04590 AT3G04590
fragaria_vesca FvH4_6g02360 FvH4_6g02360
malus_domestica MD00G1114400.v1.1 MD12G1245000.v1.1
prunus_persica Prupe.6G347600_v2.0.a1 Prupe.6G347600_v2.0.a1
pyrus_communis pycom04g20220 pycom12g22470
rosa_chinensis RchiOBHm_Chr3g0450121
rosa_laevigata RLG00000025754
rosa_multiflora Rmu_ssc0000116.1_g000066
rosa_roxburghii Rroxscaffold_6G00427890
rosa_rugosa Rorug02G0625700
rosa_samantha Rh3AG024900 Rh3BG025500 Rh3CG024400 Rh3DG025500
rosa_wichuraiana Rw3G001990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 298
AatII GACGTC 2 cut(s) 206, 299
AccB7I CCANNNNNTGG 2 cut(s) 842, 981
AccBSI CCGCTC 1 cut(s) 873
AccI GTMKAC 1 cut(s) 147
AccII CGCG 2 cut(s) 234, 290
AccIII TCCGGA 1 cut(s) 1063
AclWI GGATC 3 cut(s) 649, 966, 979
AcoI YGGCCR 1 cut(s) 276
AcsI RAATTY 1 cut(s) 1086
AcuI CTGAAG 2 cut(s) 573, 761
AcyI GRCGYC 2 cut(s) 203, 296
AfaI GTAC 2 cut(s) 251, 775
AfiI CCNNNNNNNGG 9 cut(s) 80, 760, 822, 836, 842, 877, 981, 1063, 1070
AflIII ACRYGT 1 cut(s) 454
AgsI TTSAA 2 cut(s) 37, 555
AjnI CCWGG 3 cut(s) 242, 821, 835
AluBI AGCT 5 cut(s) 27, 118, 415, 584, 932
AluI AGCT 5 cut(s) 27, 118, 415, 584, 932
Alw26I GTCTC 4 cut(s) 75, 306, 695, 1065
AlwI GGATC 3 cut(s) 649, 966, 979
AlwNI CAGNNNCTG 1 cut(s) 755
Aor13HI TCCGGA 1 cut(s) 1063
AoxI GGCC 9 cut(s) 82, 94, 239, 267, 276, 285, 486, 751, 1050
ApeKI GCWGC 7 cut(s) 194, 334, 337, 352, 355, 470, 746
ApoI RAATTY 1 cut(s) 1086
AspLEI GCGC 1 cut(s) 234
AspS9I GGNCC 8 cut(s) 95, 240, 396, 487, 734, 752, 992, 1051
AsuHPI GGTGA 2 cut(s) 198, 211
AvaII GGWCC 3 cut(s) 396, 734, 992
BamHI GGATCC 1 cut(s) 971
BanII GRGCYC 1 cut(s) 681
BbsI GAAGAC 1 cut(s) 306
BbvI GCAGC 7 cut(s) 206, 346, 349, 364, 367, 457, 733
BccI CCATC 1 cut(s) 838
BceAI ACGGC 4 cut(s) 161, 268, 367, 379
BciT130I CCWGG 3 cut(s) 244, 823, 837
BclI TGATCA 1 cut(s) 1081
BcoDI GTCTC 4 cut(s) 75, 306, 695, 1065
BfmI CTRYAG 2 cut(s) 471, 747
BglI GCCNNNNNGGC 3 cut(s) 90, 275, 284
BlpI GCTNAGC 1 cut(s) 373
Bme1390I CCNGG 3 cut(s) 244, 823, 837
Bme18I GGWCC 3 cut(s) 396, 734, 992
BmgT120I GGNCC 8 cut(s) 95, 240, 396, 487, 734, 752, 992, 1051
BmiI GGNNCC 4 cut(s) 6, 216, 397, 973
BmrFI CCNGG 3 cut(s) 244, 823, 837
BmsI GCATC 4 cut(s) 575, 816, 857, 988
BpiI GAAGAC 1 cut(s) 306
BpmI CTGGAG 1 cut(s) 233
Bpu1102I GCTNAGC 1 cut(s) 373
BsaHI GRCGYC 2 cut(s) 203, 296
BsaJI CCNNGG 5 cut(s) 189, 242, 270, 658, 821
BsaWI WCCGGW 1 cut(s) 1063
BsaXI ACNNNNNCTCC 6 cut(s) 149, 179, 468, 498, 976, 1006
Bsc4I CCNNNNNNNGG 9 cut(s) 80, 760, 822, 836, 842, 877, 981, 1063, 1070
Bse118I RCCGGY 2 cut(s) 89, 217
Bse1I ACTGG 4 cut(s) 676, 994, 1015, 1057
BseAI TCCGGA 1 cut(s) 1063
BseBI CCWGG 3 cut(s) 244, 823, 837
BseDI CCNNGG 5 cut(s) 189, 242, 270, 658, 821
BseGI GGATG 2 cut(s) 487, 831
BseLI CCNNNNNNNGG 9 cut(s) 80, 760, 822, 836, 842, 877, 981, 1063, 1070
BseMII CTCAG 4 cut(s) 37, 387, 425, 694
BseNI ACTGG 4 cut(s) 676, 994, 1015, 1057
BseRI GAGGAG 2 cut(s) 144, 298
BseXI GCAGC 7 cut(s) 206, 346, 349, 364, 367, 457, 733
Bsh1236I CGCG 2 cut(s) 234, 290
BshFI GGCC 9 cut(s) 84, 96, 241, 269, 278, 287, 488, 753, 1052
BsiSI CCGG 4 cut(s) 90, 218, 260, 1064
BslFI GGGAC 1 cut(s) 1088
BslI CCNNNNNNNGG 9 cut(s) 80, 760, 822, 836, 842, 877, 981, 1063, 1070
BsmAI GTCTC 4 cut(s) 75, 306, 695, 1065
BsmBI CGTCTC 1 cut(s) 306
BsmFI GGGAC 1 cut(s) 1088
BsmI GAATGC 1 cut(s) 534
BsnI GGCC 9 cut(s) 84, 96, 241, 269, 278, 287, 488, 753, 1052
Bsp1286I GDGCHC 1 cut(s) 681
Bsp13I TCCGGA 1 cut(s) 1063
Bsp143I GATC 4 cut(s) 624, 641, 971, 1081
Bsp1720I GCTNAGC 1 cut(s) 373
BspANI GGCC 9 cut(s) 84, 96, 241, 269, 278, 287, 488, 753, 1052
BspCNI CTCAG 4 cut(s) 36, 386, 424, 693
BspEI TCCGGA 1 cut(s) 1063
BspFNI CGCG 2 cut(s) 234, 290
BspHI TCATGA 1 cut(s) 951
BspLI GGNNCC 4 cut(s) 6, 216, 397, 973
BspMAI CTGCAG 2 cut(s) 475, 751
BspPI GGATC 3 cut(s) 649, 966, 979
BsrBI CCGCTC 1 cut(s) 873
BsrFI RCCGGY 2 cut(s) 89, 217
BsrI ACTGG 4 cut(s) 676, 994, 1015, 1057
BssAI RCCGGY 2 cut(s) 89, 217
BssECI CCNNGG 5 cut(s) 189, 242, 270, 658, 821
BssMI GATC 4 cut(s) 624, 641, 971, 1081
BssNI GRCGYC 2 cut(s) 203, 296
BssT1I CCWWGG 2 cut(s) 270, 658
Bst2UI CCWGG 3 cut(s) 244, 823, 837
Bst4CI ACNGT 3 cut(s) 466, 636, 880
Bst6I CTCTTC 4 cut(s) 166, 218, 892, 1030
BstACI GRCGYC 2 cut(s) 203, 296
BstC8I GCNNGC 9 cut(s) 91, 219, 257, 267, 578, 582, 751, 930, 965
BstDEI CTNAG 5 cut(s) 23, 318, 373, 411, 680
BstF5I GGATG 2 cut(s) 487, 831
BstFNI CGCG 2 cut(s) 234, 290
BstHHI GCGC 1 cut(s) 234
BstKTI GATC 4 cut(s) 627, 644, 974, 1084
BstMAI GTCTC 4 cut(s) 75, 306, 695, 1065
BstMBI GATC 4 cut(s) 624, 641, 971, 1081
BstMWI GCNNNNNNNGC 7 cut(s) 59, 62, 90, 238, 275, 284, 826
BstNI CCWGG 3 cut(s) 244, 823, 837
BstNSI RCATGY 2 cut(s) 458, 967
BstSCI CCNGG 3 cut(s) 242, 821, 835
BstSFI CTRYAG 2 cut(s) 471, 747
BstUI CGCG 2 cut(s) 234, 290
BstV1I GCAGC 7 cut(s) 206, 346, 349, 364, 367, 457, 733
BstV2I GAAGAC 1 cut(s) 306
BstX2I RGATCY 2 cut(s) 641, 971
BstYI RGATCY 2 cut(s) 641, 971
BsuRI GGCC 9 cut(s) 84, 96, 241, 269, 278, 287, 488, 753, 1052
BtgZI GCGATG 1 cut(s) 816
BtsCI GGATG 2 cut(s) 487, 831
BtsIMutI CAGTG 4 cut(s) 632, 688, 737, 1008
Cac8I GCNNGC 9 cut(s) 91, 219, 257, 267, 578, 582, 751, 930, 965
CaiI CAGNNNCTG 1 cut(s) 755
CciI TCATGA 1 cut(s) 951
CfoI GCGC 1 cut(s) 234
Cfr10I RCCGGY 2 cut(s) 89, 217
Cfr13I GGNCC 8 cut(s) 95, 240, 396, 487, 734, 752, 992, 1051
Csp6I GTAC 2 cut(s) 250, 774
CviAII CATG 7 cut(s) 142, 455, 499, 817, 952, 964, 968
CviQI GTAC 2 cut(s) 250, 774
DdeI CTNAG 5 cut(s) 23, 318, 373, 411, 680
DpnI GATC 4 cut(s) 626, 643, 973, 1083
DpnII GATC 4 cut(s) 624, 641, 971, 1081
DrdI GACNNNNNNGTC 1 cut(s) 298
DseDI GACNNNNNNGTC 1 cut(s) 298
EaeI YGGCCR 1 cut(s) 276
Eam1104I CTCTTC 4 cut(s) 166, 218, 892, 1030
EarI CTCTTC 4 cut(s) 166, 218, 892, 1030
EciI GGCGGA 4 cut(s) 115, 157, 174, 954
Eco130I CCWWGG 2 cut(s) 270, 658
Eco147I AGGCCT 1 cut(s) 269
Eco24I GRGCYC 1 cut(s) 681
Eco47I GGWCC 3 cut(s) 396, 734, 992
Eco57I CTGAAG 2 cut(s) 573, 761
EcoO109I RGGNCCY 1 cut(s) 752
EcoRII CCWGG 3 cut(s) 242, 821, 835
EcoT14I CCWWGG 2 cut(s) 270, 658
EcoT22I ATGCAT 3 cut(s) 536, 568, 969
EcoT38I GRGCYC 1 cut(s) 681
ErhI CCWWGG 2 cut(s) 270, 658
Esp3I CGTCTC 1 cut(s) 306
FaeI CATG 7 cut(s) 145, 458, 502, 820, 955, 967, 971
FaqI GGGAC 1 cut(s) 1088
FatI CATG 7 cut(s) 141, 454, 498, 816, 951, 963, 967
FauI CCCGC 1 cut(s) 227
FauNDI CATATG 2 cut(s) 530, 607
FbaI TGATCA 1 cut(s) 1081
FblI GTMKAC 1 cut(s) 147
FokI GGATG 2 cut(s) 494, 838
FriOI GRGCYC 1 cut(s) 681
GlaI GCGC 1 cut(s) 233
GsuI CTGGAG 1 cut(s) 233
HaeIII GGCC 9 cut(s) 84, 96, 241, 269, 278, 287, 488, 753, 1052
HapII CCGG 4 cut(s) 90, 218, 260, 1064
HhaI GCGC 1 cut(s) 234
Hin1I GRCGYC 2 cut(s) 203, 296
Hin1II CATG 7 cut(s) 145, 458, 502, 820, 955, 967, 971
Hin6I GCGC 1 cut(s) 232
HinP1I GCGC 1 cut(s) 232
HinfI GANTC 2 cut(s) 884, 955
HpaII CCGG 4 cut(s) 90, 218, 260, 1064
HphI GGTGA 2 cut(s) 198, 211
Hpy166II GTNNAC 4 cut(s) 148, 399, 734, 883
Hpy188I TCNGA 1 cut(s) 783
Hpy188III TCNNGA 7 cut(s) 591, 639, 891, 952, 995, 1064, 1091
Hpy8I GTNNAC 4 cut(s) 148, 399, 734, 883
Hpy99I CGWCG 3 cut(s) 295, 298, 301
HpyAV CCTTC 3 cut(s) 277, 322, 736
HpyCH4III ACNGT 3 cut(s) 466, 636, 880
HpyCH4IV ACGT 2 cut(s) 203, 296
HpyCH4V TGCA 6 cut(s) 473, 511, 534, 566, 749, 967
HpyF10VI GCNNNNNNNGC 7 cut(s) 59, 62, 90, 238, 275, 284, 826
HpyF3I CTNAG 5 cut(s) 23, 318, 373, 411, 680
HpySE526I ACGT 2 cut(s) 203, 296
Hsp92I GRCGYC 2 cut(s) 203, 296
Hsp92II CATG 7 cut(s) 145, 458, 502, 820, 955, 967, 971
HspAI GCGC 1 cut(s) 232
Kpn2I TCCGGA 1 cut(s) 1063
KroI GCCGGC 2 cut(s) 89, 217
KroNI GCCGGC 2 cut(s) 91, 219
Ksp22I TGATCA 1 cut(s) 1081
Kzo9I GATC 4 cut(s) 624, 641, 971, 1081
LmnI GCTCC 5 cut(s) 32, 214, 262, 331, 845
Lsp1109I GCAGC 7 cut(s) 206, 346, 349, 364, 367, 457, 733
LweI GCATC 4 cut(s) 575, 816, 857, 988
MaeII ACGT 2 cut(s) 203, 296
MaeIII GTNAC 4 cut(s) 199, 204, 524, 649
MalI GATC 4 cut(s) 626, 643, 973, 1083
MbiI CCGCTC 1 cut(s) 873
MboI GATC 4 cut(s) 624, 641, 971, 1081
MboII GAAGA 7 cut(s) 153, 235, 306, 337, 879, 906, 1047
MflI RGATCY 2 cut(s) 641, 971
MhlI GDGCHC 1 cut(s) 681
MluCI AATT 3 cut(s) 430, 1025, 1086
MlyI GAGTC 1 cut(s) 878
Mph1103I ATGCAT 3 cut(s) 536, 568, 969
MroI TCCGGA 1 cut(s) 1063
MroNI GCCGGC 2 cut(s) 89, 217
MspA1I CMGCKG 3 cut(s) 118, 197, 211
MspI CCGG 4 cut(s) 90, 218, 260, 1064
MspR9I CCNGG 3 cut(s) 244, 823, 837
Mva1269I GAATGC 1 cut(s) 534
MvaI CCWGG 3 cut(s) 244, 823, 837
MvnI CGCG 2 cut(s) 234, 290
MwoI GCNNNNNNNGC 7 cut(s) 59, 62, 90, 238, 275, 284, 826
NaeI GCCGGC 2 cut(s) 91, 219
NdeI CATATG 2 cut(s) 530, 607
NdeII GATC 4 cut(s) 624, 641, 971, 1081
NgoMIV GCCGGC 2 cut(s) 89, 217
NlaIII CATG 7 cut(s) 145, 458, 502, 820, 955, 967, 971
NlaIV GGNNCC 4 cut(s) 6, 216, 397, 973
NmeAIII GCCGAG 1 cut(s) 170
NmuCI GTSAC 3 cut(s) 199, 204, 524
NsiI ATGCAT 3 cut(s) 536, 568, 969
NspI RCATGY 2 cut(s) 458, 967
PaeI GCATGC 1 cut(s) 967
PagI TCATGA 1 cut(s) 951
PceI AGGCCT 1 cut(s) 269
PciI ACATGT 1 cut(s) 454
PctI GAATGC 1 cut(s) 534
PdiI GCCGGC 2 cut(s) 91, 219
PfeI GAWTC 1 cut(s) 955
PflFI GACNNNGTC 2 cut(s) 295, 298
PflMI CCANNNNNTGG 2 cut(s) 842, 981
PleI GAGTC 1 cut(s) 878
PpsI GAGTC 1 cut(s) 878
PscI ACATGT 1 cut(s) 454
Psp6I CCWGG 3 cut(s) 242, 821, 835
PspGI CCWGG 3 cut(s) 242, 821, 835
PspN4I GGNNCC 4 cut(s) 6, 216, 397, 973
PspPI GGNCC 8 cut(s) 95, 240, 396, 487, 734, 752, 992, 1051
PstI CTGCAG 2 cut(s) 475, 751
PstNI CAGNNNCTG 1 cut(s) 755
PsuI RGATCY 2 cut(s) 641, 971
PsyI GACNNNGTC 2 cut(s) 295, 298
PvuII CAGCTG 1 cut(s) 118
RsaI GTAC 2 cut(s) 251, 775
RsaNI GTAC 2 cut(s) 250, 774
Sau3AI GATC 4 cut(s) 624, 641, 971, 1081
Sau96I GGNCC 8 cut(s) 95, 240, 396, 487, 734, 752, 992, 1051
SchI GAGTC 1 cut(s) 878
ScrFI CCNGG 3 cut(s) 244, 823, 837
SduI GDGCHC 1 cut(s) 681
SfaNI GCATC 4 cut(s) 575, 816, 857, 988
SfcI CTRYAG 2 cut(s) 471, 747
SfiI GGCCNNNNNGGCC 2 cut(s) 275, 284
SinI GGWCC 3 cut(s) 396, 734, 992
SphI GCATGC 1 cut(s) 967
Sse9I AATT 3 cut(s) 430, 1025, 1086
SseBI AGGCCT 1 cut(s) 269
StuI AGGCCT 1 cut(s) 269
StyD4I CCNGG 3 cut(s) 242, 821, 835
StyI CCWWGG 2 cut(s) 270, 658
TaaI ACNGT 3 cut(s) 466, 636, 880
TaiI ACGT 2 cut(s) 206, 299
TaqI TCGA 1 cut(s) 807
TasI AATT 3 cut(s) 430, 1025, 1086
TfiI GAWTC 1 cut(s) 955
TscAI CASTG 4 cut(s) 639, 688, 744, 1015
TseFI GTSAC 3 cut(s) 199, 204, 524
TseI GCWGC 7 cut(s) 194, 334, 337, 352, 355, 470, 746
Tsp45I GTSAC 3 cut(s) 199, 204, 524
TspDTI ATGAA 4 cut(s) 872, 933, 940, 1038
TspRI CASTG 4 cut(s) 639, 688, 744, 1015
Tth111I GACNNNGTC 2 cut(s) 295, 298
Van91I CCANNNNNTGG 2 cut(s) 842, 981
VpaK11BI GGWCC 3 cut(s) 396, 734, 992
XapI RAATTY 1 cut(s) 1086
XceI RCATGY 2 cut(s) 458, 967
XmiI GTMKAC 1 cut(s) 147
ZraI GACGTC 2 cut(s) 204, 297
Zsp2I ATGCAT 3 cut(s) 536, 568, 969
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.