RLG00000025754

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0011499
Physical Location & Seq
Forward (+)
48083942 .. 48089783
5842 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025754

Sequence Viewer

Length: 1110 bp
ATGGAACCAAACGAACACCAACTCAGCTCCTACTTCAACCCCCCCACCACCACCGCCGCCGCCGCCGTCTTGTCTCCCACCAATGGCCTCGCCGGCGGCCCAAACACCCAACAACAACTCTCCTCCGCCGACAACAACAACATGGTCTACACTCCTCACTCCTCCTCCGCCGCCGCCGTGCCTCCGCCCTCGTCAGCAGTGACGTCACCGCTGGAGCCGGCGAAGAGGAAGCGCGGGAGGCCCAGGAAGTACGGCACCCCCGAGCAGGCCTTGGCGGCCAAGAAGGCCGCGACGACGTCGTCTCACTCCTCGTCTTCTAAGGAGAAGAAGGAGCAGCAGCACCACCAGCAGCAGCAGCAACACGGCGGCGGCTCAGCCTCGCCGTCTTATTCTGGGTCCACCAAGAAATCTCAGCTCTCTGCTCTTGGCAATTCAGGGCAAGGTTTTACACCACATGTTCTAACTGTGGCTGCAGGAGAGGATGTGAGCCAGAAAATCATGGTTTTTATGCAACAGAATAAGCGTGACATATGCATTCTGTCCGCTTCTGGTTCAATCTCAAATGCATCTATTCGCCAGCCAGCTACTTCAGGAGGCAACATTACATATGAGGGCCGCTTTGAGATCATTTCACTGTCTGGATCTTATGTAACTGACCAAGGGGGGAAGACTGGTGGGCTCAGTGTGTGTCTCTCCAATACAAATGGGCAAATCATTGGGGGTGGAGTTGGTGGACCACTGAAGGCTGCAGGCCCTGTTCAGGTTATTGTTGGTACTTTTCTGATTGATAACAAAAAGGATGCCACTACTGGTGTAAAAGTCGAGGCTTCTATGCCCAGGATGCCATCGCCAGGTGGTGGACCATCTATGATGAATGTAGGTTTCCGCTCAACGGTGGACTCTTCTGGAAGAAATATGGTCAGGGCAAATGATGAACAACAGCAAGCTATTGGCGGAAGTCATTTCATGATTCAGGGCATGCATGGATCCACAGATTGGAGGACTGGTCCAGATGCCAGAAGCACTGGTGCTTATGAATTGGCAGGAAGAGGTGGTCGTGCAGCCCACCAATCTCCGGAAAATGGGGACTATGATCAAATTCCAGATTAG
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

370

Amino Acids

38.25

Weight (kDa)

9.24

Isoelectric Point (pI)

46.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 150 - 260 1.4e-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) 298
AatII GACGTC 2 cut(s) 206, 299
AccB1I GGYRCC 1 cut(s) 254
AccB7I CCANNNNNTGG 2 cut(s) 857, 996
AccBSI CCGCTC 1 cut(s) 888
AccI GTMKAC 1 cut(s) 147
AccII CGCG 2 cut(s) 234, 290
AccIII TCCGGA 1 cut(s) 1075
AclWI GGATC 3 cut(s) 649, 981, 994
AcoI YGGCCR 1 cut(s) 276
AcsI RAATTY 1 cut(s) 1098
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) 83, 265, 760, 851, 857, 892, 996, 1075, 1082
AflIII ACRYGT 1 cut(s) 454
AgsI TTSAA 2 cut(s) 37, 555
AjnI CCWGG 3 cut(s) 242, 836, 850
AluBI AGCT 4 cut(s) 27, 415, 584, 947
AluI AGCT 4 cut(s) 27, 415, 584, 947
Alw26I GTCTC 3 cut(s) 78, 306, 695
AlwI GGATC 3 cut(s) 649, 981, 994
AlwNI CAGNNNCTG 1 cut(s) 755
Ama87I CYCGRG 1 cut(s) 260
Aor13HI TCCGGA 1 cut(s) 1075
AoxI GGCC 8 cut(s) 85, 97, 239, 267, 276, 285, 613, 751
ApeKI GCWGC 8 cut(s) 334, 337, 349, 352, 355, 470, 746, 1061
ApoI RAATTY 1 cut(s) 1098
AspLEI GCGC 1 cut(s) 234
AspS9I GGNCC 8 cut(s) 98, 240, 396, 613, 734, 752, 860, 1007
AsuHPI GGTGA 1 cut(s) 198
AvaI CYCGRG 1 cut(s) 260
AvaII GGWCC 4 cut(s) 396, 734, 860, 1007
BamHI GGATCC 1 cut(s) 986
BanI GGYRCC 1 cut(s) 254
BanII GRGCYC 1 cut(s) 681
BbsI GAAGAC 2 cut(s) 306, 674
BbvI GCAGC 8 cut(s) 346, 349, 361, 364, 367, 457, 733, 1073
BccI CCATC 2 cut(s) 853, 871
BceAI ACGGC 5 cut(s) 50, 161, 268, 367, 379
BciT130I CCWGG 3 cut(s) 244, 838, 852
BclI TGATCA 1 cut(s) 1093
BcoDI GTCTC 3 cut(s) 78, 306, 695
BfmI CTRYAG 2 cut(s) 471, 747
BglI GCCNNNNNGGC 3 cut(s) 93, 275, 284
BlpI GCTNAGC 1 cut(s) 373
Bme1390I CCNGG 3 cut(s) 244, 838, 852
Bme18I GGWCC 4 cut(s) 396, 734, 860, 1007
BmeT110I CYCGRG 1 cut(s) 260
BmgT120I GGNCC 8 cut(s) 98, 240, 396, 613, 734, 752, 860, 1007
BmiI GGNNCC 5 cut(s) 6, 216, 256, 397, 988
BmrFI CCNGG 3 cut(s) 244, 838, 852
BmsI GCATC 4 cut(s) 575, 790, 831, 1003
BpiI GAAGAC 2 cut(s) 306, 674
BpmI CTGGAG 1 cut(s) 233
Bpu1102I GCTNAGC 1 cut(s) 373
BsaHI GRCGYC 2 cut(s) 203, 296
BsaJI CCNNGG 4 cut(s) 242, 270, 658, 836
BsaWI WCCGGW 1 cut(s) 1075
BsaXI ACNNNNNCTCC 6 cut(s) 149, 179, 468, 498, 991, 1021
Bsc4I CCNNNNNNNGG 9 cut(s) 83, 265, 760, 851, 857, 892, 996, 1075, 1082
Bse118I RCCGGY 2 cut(s) 92, 217
Bse1I ACTGG 4 cut(s) 676, 814, 1009, 1030
BseAI TCCGGA 1 cut(s) 1075
BseBI CCWGG 3 cut(s) 244, 838, 852
BseDI CCNNGG 4 cut(s) 242, 270, 658, 836
BseGI GGATG 3 cut(s) 487, 805, 846
BseLI CCNNNNNNNGG 9 cut(s) 83, 265, 760, 851, 857, 892, 996, 1075, 1082
BseMII CTCAG 4 cut(s) 37, 387, 425, 694
BseNI ACTGG 4 cut(s) 676, 814, 1009, 1030
BseRI GAGGAG 5 cut(s) 112, 144, 151, 154, 298
BseXI GCAGC 8 cut(s) 346, 349, 361, 364, 367, 457, 733, 1073
BsgI GTGCAG 1 cut(s) 1080
Bsh1236I CGCG 2 cut(s) 234, 290
BshFI GGCC 8 cut(s) 87, 99, 241, 269, 278, 287, 615, 753
BshNI GGYRCC 1 cut(s) 254
BsiHKCI CYCGRG 1 cut(s) 260
BsiSI CCGG 3 cut(s) 93, 218, 1076
BslFI GGGAC 1 cut(s) 1100
BslI CCNNNNNNNGG 9 cut(s) 83, 265, 760, 851, 857, 892, 996, 1075, 1082
BsmAI GTCTC 3 cut(s) 78, 306, 695
BsmBI CGTCTC 1 cut(s) 306
BsmFI GGGAC 1 cut(s) 1100
BsmI GAATGC 1 cut(s) 534
BsnI GGCC 8 cut(s) 87, 99, 241, 269, 278, 287, 615, 753
BsoBI CYCGRG 1 cut(s) 260
Bsp1286I GDGCHC 1 cut(s) 681
Bsp13I TCCGGA 1 cut(s) 1075
Bsp143I GATC 4 cut(s) 624, 641, 986, 1093
Bsp1720I GCTNAGC 1 cut(s) 373
BspANI GGCC 8 cut(s) 87, 99, 241, 269, 278, 287, 615, 753
BspCNI CTCAG 4 cut(s) 36, 386, 424, 693
BspEI TCCGGA 1 cut(s) 1075
BspFNI CGCG 2 cut(s) 234, 290
BspHI TCATGA 1 cut(s) 966
BspLI GGNNCC 5 cut(s) 6, 216, 256, 397, 988
BspMAI CTGCAG 2 cut(s) 475, 751
BspPI GGATC 3 cut(s) 649, 981, 994
BspT107I GGYRCC 1 cut(s) 254
BsrBI CCGCTC 1 cut(s) 888
BsrFI RCCGGY 2 cut(s) 92, 217
BsrI ACTGG 4 cut(s) 676, 814, 1009, 1030
BssAI RCCGGY 2 cut(s) 92, 217
BssECI CCNNGG 4 cut(s) 242, 270, 658, 836
BssMI GATC 4 cut(s) 624, 641, 986, 1093
BssNI GRCGYC 2 cut(s) 203, 296
BssT1I CCWWGG 2 cut(s) 270, 658
Bst2UI CCWGG 3 cut(s) 244, 838, 852
Bst4CI ACNGT 3 cut(s) 466, 636, 895
Bst6I CTCTTC 3 cut(s) 218, 907, 1042
BstACI GRCGYC 2 cut(s) 203, 296
BstC8I GCNNGC 8 cut(s) 94, 219, 267, 578, 582, 751, 945, 980
BstDEI CTNAG 5 cut(s) 23, 318, 373, 411, 680
BstF5I GGATG 3 cut(s) 487, 805, 846
BstFNI CGCG 2 cut(s) 234, 290
BstHHI GCGC 1 cut(s) 234
BstKTI GATC 4 cut(s) 627, 644, 989, 1096
BstMAI GTCTC 3 cut(s) 78, 306, 695
BstMBI GATC 4 cut(s) 624, 641, 986, 1093
BstMWI GCNNNNNNNGC 8 cut(s) 62, 93, 238, 275, 284, 346, 355, 841
BstNI CCWGG 3 cut(s) 244, 838, 852
BstNSI RCATGY 2 cut(s) 458, 982
BstSCI CCNGG 3 cut(s) 242, 836, 850
BstSFI CTRYAG 2 cut(s) 471, 747
BstUI CGCG 2 cut(s) 234, 290
BstV1I GCAGC 8 cut(s) 346, 349, 361, 364, 367, 457, 733, 1073
BstV2I GAAGAC 2 cut(s) 306, 674
BstX2I RGATCY 2 cut(s) 641, 986
BstYI RGATCY 2 cut(s) 641, 986
BsuRI GGCC 8 cut(s) 87, 99, 241, 269, 278, 287, 615, 753
BtgZI GCGATG 1 cut(s) 831
BtsCI GGATG 3 cut(s) 487, 805, 846
BtsI GCAGTG 1 cut(s) 204
BtsIMutI CAGTG 5 cut(s) 204, 632, 688, 737, 1023
Cac8I GCNNGC 8 cut(s) 94, 219, 267, 578, 582, 751, 945, 980
CaiI CAGNNNCTG 1 cut(s) 755
CciI TCATGA 1 cut(s) 966
CfoI GCGC 1 cut(s) 234
Cfr10I RCCGGY 2 cut(s) 92, 217
Cfr13I GGNCC 8 cut(s) 98, 240, 396, 613, 734, 752, 860, 1007
Csp6I GTAC 2 cut(s) 250, 774
CviAII CATG 6 cut(s) 142, 455, 499, 967, 979, 983
CviQI GTAC 2 cut(s) 250, 774
DdeI CTNAG 5 cut(s) 23, 318, 373, 411, 680
DpnI GATC 4 cut(s) 626, 643, 988, 1095
DpnII GATC 4 cut(s) 624, 641, 986, 1093
DrdI GACNNNNNNGTC 1 cut(s) 298
DseDI GACNNNNNNGTC 1 cut(s) 298
EaeI YGGCCR 1 cut(s) 276
Eam1104I CTCTTC 3 cut(s) 218, 907, 1042
EarI CTCTTC 3 cut(s) 218, 907, 1042
EciI GGCGGA 4 cut(s) 115, 157, 174, 969
Eco130I CCWWGG 2 cut(s) 270, 658
Eco147I AGGCCT 1 cut(s) 269
Eco24I GRGCYC 1 cut(s) 681
Eco47I GGWCC 4 cut(s) 396, 734, 860, 1007
Eco57I CTGAAG 2 cut(s) 573, 761
Eco88I CYCGRG 1 cut(s) 260
EcoO109I RGGNCCY 1 cut(s) 752
EcoRII CCWGG 3 cut(s) 242, 836, 850
EcoT14I CCWWGG 2 cut(s) 270, 658
EcoT22I ATGCAT 3 cut(s) 536, 568, 984
EcoT38I GRGCYC 1 cut(s) 681
ErhI CCWWGG 2 cut(s) 270, 658
Esp3I CGTCTC 1 cut(s) 306
FaeI CATG 6 cut(s) 145, 458, 502, 970, 982, 986
FaqI GGGAC 1 cut(s) 1100
FatI CATG 6 cut(s) 141, 454, 498, 966, 978, 982
FauI CCCGC 1 cut(s) 227
FauNDI CATATG 2 cut(s) 530, 607
FbaI TGATCA 1 cut(s) 1093
FblI GTMKAC 1 cut(s) 147
FokI GGATG 3 cut(s) 494, 812, 853
FriOI GRGCYC 1 cut(s) 681
GlaI GCGC 1 cut(s) 233
GsuI CTGGAG 1 cut(s) 233
HaeIII GGCC 8 cut(s) 87, 99, 241, 269, 278, 287, 615, 753
HapII CCGG 3 cut(s) 93, 218, 1076
HhaI GCGC 1 cut(s) 234
Hin1I GRCGYC 2 cut(s) 203, 296
Hin1II CATG 6 cut(s) 145, 458, 502, 970, 982, 986
Hin6I GCGC 1 cut(s) 232
HinP1I GCGC 1 cut(s) 232
HinfI GANTC 2 cut(s) 899, 970
HpaII CCGG 3 cut(s) 93, 218, 1076
HphI GGTGA 1 cut(s) 198
Hpy166II GTNNAC 5 cut(s) 148, 399, 734, 860, 898
Hpy188I TCNGA 1 cut(s) 783
Hpy188III TCNNGA 7 cut(s) 591, 639, 906, 967, 1010, 1076, 1103
Hpy8I GTNNAC 5 cut(s) 148, 399, 734, 860, 898
Hpy99I CGWCG 3 cut(s) 295, 298, 301
HpyAV CCTTC 3 cut(s) 277, 322, 736
HpyCH4III ACNGT 3 cut(s) 466, 636, 895
HpyCH4IV ACGT 2 cut(s) 203, 296
HpyCH4V TGCA 7 cut(s) 473, 511, 534, 566, 749, 982, 1061
HpyF10VI GCNNNNNNNGC 8 cut(s) 62, 93, 238, 275, 284, 346, 355, 841
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 6 cut(s) 145, 458, 502, 970, 982, 986
HspAI GCGC 1 cut(s) 232
Kpn2I TCCGGA 1 cut(s) 1075
KroI GCCGGC 2 cut(s) 92, 217
KroNI GCCGGC 2 cut(s) 94, 219
Ksp22I TGATCA 1 cut(s) 1093
Kzo9I GATC 4 cut(s) 624, 641, 986, 1093
LmnI GCTCC 3 cut(s) 32, 214, 331
Lsp1109I GCAGC 8 cut(s) 346, 349, 361, 364, 367, 457, 733, 1073
LweI GCATC 4 cut(s) 575, 790, 831, 1003
MaeII ACGT 2 cut(s) 203, 296
MaeIII GTNAC 4 cut(s) 199, 204, 524, 649
MalI GATC 4 cut(s) 626, 643, 988, 1095
MbiI CCGCTC 1 cut(s) 888
MboI GATC 4 cut(s) 624, 641, 986, 1093
MboII GAAGA 7 cut(s) 235, 306, 337, 679, 894, 921, 1059
MflI RGATCY 2 cut(s) 641, 986
MhlI GDGCHC 1 cut(s) 681
MluCI AATT 3 cut(s) 430, 1037, 1098
MlyI GAGTC 1 cut(s) 893
Mph1103I ATGCAT 3 cut(s) 536, 568, 984
MreI CGCCGGCG 1 cut(s) 92
MroI TCCGGA 1 cut(s) 1075
MroNI GCCGGC 2 cut(s) 92, 217
MspA1I CMGCKG 1 cut(s) 211
MspI CCGG 3 cut(s) 93, 218, 1076
MspR9I CCNGG 3 cut(s) 244, 838, 852
Mva1269I GAATGC 1 cut(s) 534
MvaI CCWGG 3 cut(s) 244, 838, 852
MvnI CGCG 2 cut(s) 234, 290
MwoI GCNNNNNNNGC 8 cut(s) 62, 93, 238, 275, 284, 346, 355, 841
NaeI GCCGGC 2 cut(s) 94, 219
NdeI CATATG 2 cut(s) 530, 607
NdeII GATC 4 cut(s) 624, 641, 986, 1093
NgoMIV GCCGGC 2 cut(s) 92, 217
NlaIII CATG 6 cut(s) 145, 458, 502, 970, 982, 986
NlaIV GGNNCC 5 cut(s) 6, 216, 256, 397, 988
NmuCI GTSAC 3 cut(s) 199, 204, 524
NsiI ATGCAT 3 cut(s) 536, 568, 984
NspI RCATGY 2 cut(s) 458, 982
PaeI GCATGC 1 cut(s) 982
PagI TCATGA 1 cut(s) 966
PceI AGGCCT 1 cut(s) 269
PciI ACATGT 1 cut(s) 454
PcsI WCGNNNNNNNCGW 1 cut(s) 258
PctI GAATGC 1 cut(s) 534
PdiI GCCGGC 2 cut(s) 94, 219
PfeI GAWTC 1 cut(s) 970
PflFI GACNNNGTC 2 cut(s) 295, 298
PflMI CCANNNNNTGG 2 cut(s) 857, 996
PleI GAGTC 1 cut(s) 893
PpsI GAGTC 1 cut(s) 893
PscI ACATGT 1 cut(s) 454
Psp6I CCWGG 3 cut(s) 242, 836, 850
PspGI CCWGG 3 cut(s) 242, 836, 850
PspN4I GGNNCC 5 cut(s) 6, 216, 256, 397, 988
PspPI GGNCC 8 cut(s) 98, 240, 396, 613, 734, 752, 860, 1007
PstI CTGCAG 2 cut(s) 475, 751
PstNI CAGNNNCTG 1 cut(s) 755
PsuI RGATCY 2 cut(s) 641, 986
PsyI GACNNNGTC 2 cut(s) 295, 298
RsaI GTAC 2 cut(s) 251, 775
RsaNI GTAC 2 cut(s) 250, 774
Sau3AI GATC 4 cut(s) 624, 641, 986, 1093
Sau96I GGNCC 8 cut(s) 98, 240, 396, 613, 734, 752, 860, 1007
SchI GAGTC 1 cut(s) 893
ScrFI CCNGG 3 cut(s) 244, 838, 852
SduI GDGCHC 1 cut(s) 681
SfaNI GCATC 4 cut(s) 575, 790, 831, 1003
SfcI CTRYAG 2 cut(s) 471, 747
SfiI GGCCNNNNNGGCC 2 cut(s) 275, 284
SgrAI CRCCGGYG 1 cut(s) 92
SinI GGWCC 4 cut(s) 396, 734, 860, 1007
SphI GCATGC 1 cut(s) 982
Sse9I AATT 3 cut(s) 430, 1037, 1098
SseBI AGGCCT 1 cut(s) 269
StuI AGGCCT 1 cut(s) 269
StyD4I CCNGG 3 cut(s) 242, 836, 850
StyI CCWWGG 2 cut(s) 270, 658
TaaI ACNGT 3 cut(s) 466, 636, 895
TaiI ACGT 2 cut(s) 206, 299
TaqI TCGA 1 cut(s) 822
TasI AATT 3 cut(s) 430, 1037, 1098
TfiI GAWTC 1 cut(s) 970
TscAI CASTG 5 cut(s) 204, 639, 688, 744, 1030
TseFI GTSAC 3 cut(s) 199, 204, 524
TseI GCWGC 8 cut(s) 334, 337, 349, 352, 355, 470, 746, 1061
Tsp45I GTSAC 3 cut(s) 199, 204, 524
TspDTI ATGAA 4 cut(s) 887, 948, 955, 1050
TspRI CASTG 5 cut(s) 204, 639, 688, 744, 1030
Tth111I GACNNNGTC 2 cut(s) 295, 298
Van91I CCANNNNNTGG 2 cut(s) 857, 996
VpaK11BI GGWCC 4 cut(s) 396, 734, 860, 1007
XapI RAATTY 1 cut(s) 1098
XceI RCATGY 2 cut(s) 458, 982
XmiI GTMKAC 1 cut(s) 147
ZraI GACGTC 2 cut(s) 204, 297
Zsp2I ATGCAT 3 cut(s) 536, 568, 984
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.