Rw3G001990

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0011499
Physical Location & Seq
Reverse (-)
1765930 .. 1771778
5849 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G001990.1

Sequence Viewer

Length: 1098 bp
ATGGAACCAAACGAACACCAACTCAGCTCCTACTTCAACCCCACCACCACCGCCGCCGCCGCCGCCGCCTTGTCTCCGACCAATGGCCTCGCCGGCGGCCCAAACACCCAACAACAACTCTCCTCGGCCGACAACAACAACAACATGGTCTACACTCCTCACTCCTCCTCCGCCGCCGCCGTGCCTCCGCCCCCGTCAGCCTTGACGTCACCGCTGGAGCCGGCGAAGAGGAAGCGCGGGAGGCCCAGGAAGTACGGCACGCCGGAGCAGGCCTTGGCGGCCAAGAAGGCCGCGACGACGTCGTCTCACTCCTCGTCTTCTAAGGAGAAGAAGGAGCAGCAGCTCCACCAGCAGCAGCAGCAGCAACACGGCGGCGGCTCAGCCTCGCCGTCTTATTCTGGGTCCACCAAGAAATCTCAGCTCTCTGCTCTCGGCAATTCAGGGCAAGGTTTTACACCACATGTTCTAACTGTGGCTCCAGGAGAGGATGTGGGCCAGAAAATCATGGTTTTTATGCAACAGAATAAGCGTGACATTTGCATTCTGTCTGCTTCTGGTTCAATCTCAAACGCATCTATTCGCCAGCCAGCTACTTCAGGAGGCAACATTACATATGAGGGTCGCTTTGAGATCATTTCACTGTCTGGATCTTATGTAACTGACCAAGGGGGAAAGACTGGTGGGCTCAGTGTGTGTCTCTCCAATACAAATGGGCAAATCATTGGGGGTGGAGTTGGTGGACCACTGAAGGCTGCAGGCCCTGTTCAGGTTATTGTTGGTACTTTTCTGATTGATAACAAAAAGGAAAAAGTCGAGGTTTCTATGCCCAGGATGCCATCGCCAGGTGGTGGAGCATCTATGATGAATGTAGGTTTCCGCTCAACGGTGGACTCTTCTGGAAGAAATATGATCAGGGCAAATGATGAACAGCAAGCTATTGGCGGAAGTCATTTCATGATTCAGGGCATGCATGGGTCCACAGATTGGAGGACTGGTCCAGATGCCAGAAGCACTGGTGCTTATGAATTGGCAGGAAGAGGTGGTCGTGCAGCCCACCAATCTCCAGAAAATGGGGACTATGATCAAATTCCAGATTAG
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

37.91

Weight (kDa)

9.24

Isoelectric Point (pI)

46.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 152 - 262 1.2e-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
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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) 301
AatII GACGTC 2 cut(s) 209, 302
AccB7I CCANNNNNTGG 3 cut(s) 848, 984, 1070
AccBSI CCGCTC 1 cut(s) 879
AccI GTMKAC 1 cut(s) 150
AccII CGCG 2 cut(s) 237, 293
AclWI GGATC 1 cut(s) 655
AcoI YGGCCR 2 cut(s) 126, 279
AcsI RAATTY 1 cut(s) 1086
AcuI CTGAAG 2 cut(s) 579, 767
AcyI GRCGYC 2 cut(s) 206, 299
AfaI GTAC 2 cut(s) 254, 781
AfiI CCNNNNNNNGG 7 cut(s) 83, 766, 842, 848, 883, 984, 1070
AflIII ACRYGT 1 cut(s) 460
AgsI TTSAA 2 cut(s) 37, 561
AjnI CCWGG 4 cut(s) 245, 478, 827, 841
AluBI AGCT 5 cut(s) 27, 343, 421, 590, 935
AluI AGCT 5 cut(s) 27, 343, 421, 590, 935
Alw26I GTCTC 3 cut(s) 78, 309, 701
AlwI GGATC 1 cut(s) 655
AlwNI CAGNNNCTG 1 cut(s) 761
AoxI GGCC 9 cut(s) 85, 97, 126, 242, 270, 279, 288, 493, 757
ApeKI GCWGC 8 cut(s) 337, 340, 352, 355, 358, 361, 752, 1049
ApoI RAATTY 1 cut(s) 1086
AspLEI GCGC 1 cut(s) 237
AspS9I GGNCC 8 cut(s) 98, 243, 402, 493, 740, 758, 975, 995
AsuHPI GGTGA 1 cut(s) 201
AvaII GGWCC 4 cut(s) 402, 740, 975, 995
BanII GRGCYC 1 cut(s) 687
BbsI GAAGAC 1 cut(s) 309
BbvI GCAGC 8 cut(s) 349, 352, 364, 367, 370, 373, 739, 1061
BccI CCATC 1 cut(s) 844
BceAI ACGGC 4 cut(s) 164, 271, 373, 385
BciT130I CCWGG 4 cut(s) 247, 480, 829, 843
BclI TGATCA 2 cut(s) 909, 1081
BcoDI GTCTC 3 cut(s) 78, 309, 701
BfmI CTRYAG 1 cut(s) 753
BglI GCCNNNNNGGC 3 cut(s) 93, 278, 287
BlpI GCTNAGC 1 cut(s) 379
Bme1390I CCNGG 4 cut(s) 247, 480, 829, 843
Bme18I GGWCC 4 cut(s) 402, 740, 975, 995
BmgT120I GGNCC 8 cut(s) 98, 243, 402, 493, 740, 758, 975, 995
BmiI GGNNCC 5 cut(s) 6, 219, 403, 477, 976
BmrFI CCNGG 4 cut(s) 247, 480, 829, 843
BmsI GCATC 4 cut(s) 581, 822, 863, 991
BpiI GAAGAC 1 cut(s) 309
BpmI CTGGAG 3 cut(s) 236, 462, 1047
Bpu1102I GCTNAGC 1 cut(s) 379
BsaHI GRCGYC 2 cut(s) 206, 299
BsaJI CCNNGG 5 cut(s) 123, 245, 273, 664, 827
BsaXI ACNNNNNCTCC 8 cut(s) 152, 182, 460, 474, 490, 504, 979, 1009
Bsc4I CCNNNNNNNGG 7 cut(s) 83, 766, 842, 848, 883, 984, 1070
Bse118I RCCGGY 2 cut(s) 92, 220
Bse1I ACTGG 3 cut(s) 682, 997, 1018
BseBI CCWGG 4 cut(s) 247, 480, 829, 843
BseDI CCNNGG 5 cut(s) 123, 245, 273, 664, 827
BseGI GGATG 2 cut(s) 493, 837
BseLI CCNNNNNNNGG 7 cut(s) 83, 766, 842, 848, 883, 984, 1070
BseMII CTCAG 4 cut(s) 37, 393, 431, 700
BseNI ACTGG 3 cut(s) 682, 997, 1018
BseRI GAGGAG 5 cut(s) 112, 147, 154, 157, 301
BseX3I CGGCCG 1 cut(s) 126
BseXI GCAGC 8 cut(s) 349, 352, 364, 367, 370, 373, 739, 1061
BsgI GTGCAG 1 cut(s) 1068
Bsh1236I CGCG 2 cut(s) 237, 293
Bsh1285I CGRYCG 1 cut(s) 129
BshFI GGCC 9 cut(s) 87, 99, 128, 244, 272, 281, 290, 495, 759
BsiEI CGRYCG 1 cut(s) 129
BsiSI CCGG 3 cut(s) 93, 221, 263
BslFI GGGAC 1 cut(s) 1088
BslI CCNNNNNNNGG 7 cut(s) 83, 766, 842, 848, 883, 984, 1070
BsmAI GTCTC 3 cut(s) 78, 309, 701
BsmBI CGTCTC 1 cut(s) 309
BsmFI GGGAC 1 cut(s) 1088
BsmI GAATGC 1 cut(s) 540
BsnI GGCC 9 cut(s) 87, 99, 128, 244, 272, 281, 290, 495, 759
Bsp1286I GDGCHC 1 cut(s) 687
Bsp143I GATC 4 cut(s) 630, 647, 909, 1081
Bsp1720I GCTNAGC 1 cut(s) 379
BspANI GGCC 9 cut(s) 87, 99, 128, 244, 272, 281, 290, 495, 759
BspCNI CTCAG 4 cut(s) 36, 392, 430, 699
BspFNI CGCG 2 cut(s) 237, 293
BspHI TCATGA 1 cut(s) 954
BspLI GGNNCC 5 cut(s) 6, 219, 403, 477, 976
BspMAI CTGCAG 1 cut(s) 757
BspPI GGATC 1 cut(s) 655
BsrBI CCGCTC 1 cut(s) 879
BsrFI RCCGGY 2 cut(s) 92, 220
BsrI ACTGG 3 cut(s) 682, 997, 1018
BssAI RCCGGY 2 cut(s) 92, 220
BssECI CCNNGG 5 cut(s) 123, 245, 273, 664, 827
BssMI GATC 4 cut(s) 630, 647, 909, 1081
BssNI GRCGYC 2 cut(s) 206, 299
BssT1I CCWWGG 2 cut(s) 273, 664
Bst2UI CCWGG 4 cut(s) 247, 480, 829, 843
Bst4CI ACNGT 3 cut(s) 472, 642, 886
Bst6I CTCTTC 3 cut(s) 221, 898, 1030
BstACI GRCGYC 2 cut(s) 206, 299
BstC8I GCNNGC 9 cut(s) 94, 222, 260, 270, 584, 588, 757, 933, 968
BstDEI CTNAG 5 cut(s) 23, 321, 379, 417, 686
BstF5I GGATG 2 cut(s) 493, 837
BstFNI CGCG 2 cut(s) 237, 293
BstHHI GCGC 1 cut(s) 237
BstKTI GATC 4 cut(s) 633, 650, 912, 1084
BstMAI GTCTC 3 cut(s) 78, 309, 701
BstMBI GATC 4 cut(s) 630, 647, 909, 1081
BstMCI CGRYCG 1 cut(s) 129
BstNI CCWGG 4 cut(s) 247, 480, 829, 843
BstNSI RCATGY 2 cut(s) 464, 970
BstSCI CCNGG 4 cut(s) 245, 478, 827, 841
BstSFI CTRYAG 1 cut(s) 753
BstUI CGCG 2 cut(s) 237, 293
BstV1I GCAGC 8 cut(s) 349, 352, 364, 367, 370, 373, 739, 1061
BstV2I GAAGAC 1 cut(s) 309
BstX2I RGATCY 1 cut(s) 647
BstYI RGATCY 1 cut(s) 647
BstZI CGGCCG 1 cut(s) 126
BsuRI GGCC 9 cut(s) 87, 99, 128, 244, 272, 281, 290, 495, 759
BtgZI GCGATG 1 cut(s) 822
BtsCI GGATG 2 cut(s) 493, 837
BtsIMutI CAGTG 4 cut(s) 638, 694, 743, 1011
Cac8I GCNNGC 9 cut(s) 94, 222, 260, 270, 584, 588, 757, 933, 968
CaiI CAGNNNCTG 1 cut(s) 761
CciI TCATGA 1 cut(s) 954
CfoI GCGC 1 cut(s) 237
Cfr10I RCCGGY 2 cut(s) 92, 220
Cfr13I GGNCC 8 cut(s) 98, 243, 402, 493, 740, 758, 975, 995
Csp6I GTAC 2 cut(s) 253, 780
CviAII CATG 6 cut(s) 145, 461, 505, 955, 967, 971
CviQI GTAC 2 cut(s) 253, 780
DdeI CTNAG 5 cut(s) 23, 321, 379, 417, 686
DpnI GATC 4 cut(s) 632, 649, 911, 1083
DpnII GATC 4 cut(s) 630, 647, 909, 1081
DrdI GACNNNNNNGTC 1 cut(s) 301
DseDI GACNNNNNNGTC 1 cut(s) 301
EaeI YGGCCR 2 cut(s) 126, 279
EagI CGGCCG 1 cut(s) 126
Eam1104I CTCTTC 3 cut(s) 221, 898, 1030
EarI CTCTTC 3 cut(s) 221, 898, 1030
EciI GGCGGA 3 cut(s) 160, 177, 957
EclXI CGGCCG 1 cut(s) 126
Eco130I CCWWGG 2 cut(s) 273, 664
Eco147I AGGCCT 1 cut(s) 272
Eco24I GRGCYC 1 cut(s) 687
Eco47I GGWCC 4 cut(s) 402, 740, 975, 995
Eco52I CGGCCG 1 cut(s) 126
Eco57I CTGAAG 2 cut(s) 579, 767
EcoO109I RGGNCCY 1 cut(s) 758
EcoRII CCWGG 4 cut(s) 245, 478, 827, 841
EcoT14I CCWWGG 2 cut(s) 273, 664
EcoT22I ATGCAT 1 cut(s) 972
EcoT38I GRGCYC 1 cut(s) 687
ErhI CCWWGG 2 cut(s) 273, 664
Esp3I CGTCTC 1 cut(s) 309
FaeI CATG 6 cut(s) 148, 464, 508, 958, 970, 974
FaqI GGGAC 1 cut(s) 1088
FatI CATG 6 cut(s) 144, 460, 504, 954, 966, 970
FauI CCCGC 1 cut(s) 230
FauNDI CATATG 1 cut(s) 613
FbaI TGATCA 2 cut(s) 909, 1081
FblI GTMKAC 1 cut(s) 150
FokI GGATG 2 cut(s) 500, 844
FriOI GRGCYC 1 cut(s) 687
GlaI GCGC 1 cut(s) 236
GsuI CTGGAG 3 cut(s) 236, 462, 1047
HaeIII GGCC 9 cut(s) 87, 99, 128, 244, 272, 281, 290, 495, 759
HapII CCGG 3 cut(s) 93, 221, 263
HhaI GCGC 1 cut(s) 237
Hin1I GRCGYC 2 cut(s) 206, 299
Hin1II CATG 6 cut(s) 148, 464, 508, 958, 970, 974
Hin6I GCGC 1 cut(s) 235
HinP1I GCGC 1 cut(s) 235
HinfI GANTC 2 cut(s) 890, 958
HpaII CCGG 3 cut(s) 93, 221, 263
HphI GGTGA 1 cut(s) 201
Hpy166II GTNNAC 5 cut(s) 151, 405, 740, 889, 978
Hpy188I TCNGA 2 cut(s) 78, 789
Hpy188III TCNNGA 7 cut(s) 597, 645, 897, 955, 998, 1064, 1091
Hpy8I GTNNAC 5 cut(s) 151, 405, 740, 889, 978
Hpy99I CGWCG 3 cut(s) 298, 301, 304
HpyAV CCTTC 3 cut(s) 280, 325, 742
HpyCH4III ACNGT 3 cut(s) 472, 642, 886
HpyCH4IV ACGT 2 cut(s) 206, 299
HpyCH4V TGCA 5 cut(s) 517, 540, 755, 970, 1049
HpyF3I CTNAG 5 cut(s) 23, 321, 379, 417, 686
HpySE526I ACGT 2 cut(s) 206, 299
Hsp92I GRCGYC 2 cut(s) 206, 299
Hsp92II CATG 6 cut(s) 148, 464, 508, 958, 970, 974
HspAI GCGC 1 cut(s) 235
KroI GCCGGC 2 cut(s) 92, 220
KroNI GCCGGC 2 cut(s) 94, 222
Ksp22I TGATCA 2 cut(s) 909, 1081
Kzo9I GATC 4 cut(s) 630, 647, 909, 1081
LmnI GCTCC 7 cut(s) 32, 217, 265, 334, 348, 481, 851
Lsp1109I GCAGC 8 cut(s) 349, 352, 364, 367, 370, 373, 739, 1061
LweI GCATC 4 cut(s) 581, 822, 863, 991
MaeII ACGT 2 cut(s) 206, 299
MaeIII GTNAC 3 cut(s) 207, 530, 655
MalI GATC 4 cut(s) 632, 649, 911, 1083
MbiI CCGCTC 1 cut(s) 879
MboI GATC 4 cut(s) 630, 647, 909, 1081
MboII GAAGA 6 cut(s) 238, 309, 340, 885, 912, 1047
MflI RGATCY 1 cut(s) 647
MhlI GDGCHC 1 cut(s) 687
MluCI AATT 3 cut(s) 436, 1025, 1086
MlyI GAGTC 1 cut(s) 884
MmeI TCCRAC 1 cut(s) 101
Mph1103I ATGCAT 1 cut(s) 972
MreI CGCCGGCG 1 cut(s) 92
MroNI GCCGGC 2 cut(s) 92, 220
MspA1I CMGCKG 1 cut(s) 214
MspI CCGG 3 cut(s) 93, 221, 263
MspR9I CCNGG 4 cut(s) 247, 480, 829, 843
Mva1269I GAATGC 1 cut(s) 540
MvaI CCWGG 4 cut(s) 247, 480, 829, 843
MvnI CGCG 2 cut(s) 237, 293
NaeI GCCGGC 2 cut(s) 94, 222
NdeI CATATG 1 cut(s) 613
NdeII GATC 4 cut(s) 630, 647, 909, 1081
NgoMIV GCCGGC 2 cut(s) 92, 220
NlaIII CATG 6 cut(s) 148, 464, 508, 958, 970, 974
NlaIV GGNNCC 5 cut(s) 6, 219, 403, 477, 976
NmeAIII GCCGAG 2 cut(s) 104, 411
NmuCI GTSAC 2 cut(s) 207, 530
NsiI ATGCAT 1 cut(s) 972
NspI RCATGY 2 cut(s) 464, 970
PaeI GCATGC 1 cut(s) 970
PagI TCATGA 1 cut(s) 954
PceI AGGCCT 1 cut(s) 272
PciI ACATGT 1 cut(s) 460
PctI GAATGC 1 cut(s) 540
PdiI GCCGGC 2 cut(s) 94, 222
PfeI GAWTC 1 cut(s) 958
PflFI GACNNNGTC 2 cut(s) 298, 301
PflMI CCANNNNNTGG 3 cut(s) 848, 984, 1070
PfoI TCCNGGA 1 cut(s) 478
PleI GAGTC 1 cut(s) 884
PpsI GAGTC 1 cut(s) 884
PscI ACATGT 1 cut(s) 460
Psp6I CCWGG 4 cut(s) 245, 478, 827, 841
PspGI CCWGG 4 cut(s) 245, 478, 827, 841
PspN4I GGNNCC 5 cut(s) 6, 219, 403, 477, 976
PspPI GGNCC 8 cut(s) 98, 243, 402, 493, 740, 758, 975, 995
PstI CTGCAG 1 cut(s) 757
PstNI CAGNNNCTG 1 cut(s) 761
PsuI RGATCY 1 cut(s) 647
PsyI GACNNNGTC 2 cut(s) 298, 301
RsaI GTAC 2 cut(s) 254, 781
RsaNI GTAC 2 cut(s) 253, 780
Sau3AI GATC 4 cut(s) 630, 647, 909, 1081
Sau96I GGNCC 8 cut(s) 98, 243, 402, 493, 740, 758, 975, 995
SchI GAGTC 1 cut(s) 884
ScrFI CCNGG 4 cut(s) 247, 480, 829, 843
SduI GDGCHC 1 cut(s) 687
SfaNI GCATC 4 cut(s) 581, 822, 863, 991
SfcI CTRYAG 1 cut(s) 753
SfiI GGCCNNNNNGGCC 2 cut(s) 278, 287
SgrAI CRCCGGYG 1 cut(s) 92
SinI GGWCC 4 cut(s) 402, 740, 975, 995
SphI GCATGC 1 cut(s) 970
Sse9I AATT 3 cut(s) 436, 1025, 1086
SseBI AGGCCT 1 cut(s) 272
StuI AGGCCT 1 cut(s) 272
StyD4I CCNGG 4 cut(s) 245, 478, 827, 841
StyI CCWWGG 2 cut(s) 273, 664
TaaI ACNGT 3 cut(s) 472, 642, 886
TaiI ACGT 2 cut(s) 209, 302
TaqI TCGA 1 cut(s) 813
TasI AATT 3 cut(s) 436, 1025, 1086
TfiI GAWTC 1 cut(s) 958
TscAI CASTG 4 cut(s) 645, 694, 750, 1018
TseFI GTSAC 2 cut(s) 207, 530
TseI GCWGC 8 cut(s) 337, 340, 352, 355, 358, 361, 752, 1049
Tsp45I GTSAC 2 cut(s) 207, 530
TspDTI ATGAA 4 cut(s) 878, 939, 943, 1038
TspRI CASTG 4 cut(s) 645, 694, 750, 1018
Tth111I GACNNNGTC 2 cut(s) 298, 301
Van91I CCANNNNNTGG 3 cut(s) 848, 984, 1070
VpaK11BI GGWCC 4 cut(s) 402, 740, 975, 995
XapI RAATTY 1 cut(s) 1086
XceI RCATGY 2 cut(s) 464, 970
XmiI GTMKAC 1 cut(s) 150
ZraI GACGTC 2 cut(s) 207, 300
Zsp2I ATGCAT 1 cut(s) 972
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.