RLG00000024975

DNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0013954
Physical Location & Seq
Forward (+)
40975770 .. 40977366
1597 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000024975

Sequence Viewer

Length: 1185 bp
ATGGGTAAGTACAAGTTTAGATTATCTGATATGATACCCAATGCCTGGTTTTACAAGCTCAAAGACATGAGCAAACCCAGAAAGAACCAGAGCAGCAATTCTCATCCCCAGAAGAAAAACCAACCACCACCGCCCCCATTTTCTTCTTCAGCAACACCAACAAGCCTAGCAAAGCCAAAGCAGGTGACCCATCACCACCATTGTCATCAATCAAGAAAGTCGTACTACTTCACAAGGGAGCTGAATAACTCCACAGGTGAGAACGGACCACTCTGCAACACCCCCATAAACCCAAAAGTCTCCAACAACAATTTGCCTCATGAGCCACCAAGAAAATCCTCCAGACAAAAACCAAGGAAGAGTCGAATTGCCTCTGATTCCAAGCCTGCCATGTCGACCACCTCCTCTGTTTCTGCCGGGTGTCGGGCCTCGATTGAATCCGTCTGGACCAAATCGGATTCTCCACCGGAGGAGCAGCTCTGGTCTTCTTCGTCTCTCGACAGCTCCGAGCTTGATTTTCATCCCCATGAGCCTCTTGAATTCCGATGTGACCGTGTTCTGGCTACAGAAACATTTGATGCTATGATTTCTATGTCGAGTTCTAATGAGAAAGACATCATCATCGACGTGGATAACTCATCTGAGGGCAAGAAGTTTGATTTGTTCTCCGAGCTTGAGCTTCCTCGGATTATAACCAAGCCCGAAAGCTTCACTGAAATGGTGAGCGAGGTCAAGAAGAAGAAGAAAGAGACCAAGGAGCAGCCAATCAAGTCCAGAAAAAGCTCACATGGATCAGAGAACAATAGAGAGCATCGTACAAGTTCTGTTAGAAGAGTATCTTCGAGCACTTCACCGGGAGTTAAGCTTCGGATTAACTCTCCGAGAATTGCAAACCGGAAAATTAACCAGGCCCAAGTGGGACGCCGGAGTCTGTCGTCGAATTCGAGCTCAAAGCGGAGGAGTCTCTCGGAGAGTTTTGCAATTGTGAAGTCGTCATTTGATCCTCAAAGGGATTTCAGAGAATCAATGATAGAGATGATCATGGAGAACAACATCAAGGCATCAAAGGACTTGGAAGATCTTCTTGCATGTTATCTTTCTCTGAATGCAGATGAATACCATGAGCTTATCATCAAGGTCTTCAAGCAAATCTGGTTTGATCTCACTGACATCCAGTCAAAGTAA

Protein Analysis

395

Amino Acids

44.83

Weight (kDa)

9.57

Isoelectric Point (pI)

59.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_binding_2 PF13724 1 - 41 1e-19 DNA-binding domain
Ovate PF04844 332 - 388 8.7e-25 Transcriptional repressor, ovate
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0013954)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G01840
fragaria_vesca FvH4_6g10140
malus_domestica MD04G1172500.v1.1 MD12G1185700.v1.1
prunus_persica Prupe.6G290900_v2.0.a1
pyrus_communis pycom04g15240 pycom12g17430
rosa_chinensis RchiOBHm_Chr3g0460841
rosa_laevigata RLG00000024975
rosa_multiflora Rmu_sc0004055.1_g000001
rosa_roxburghii Rroxscaffold_6G00419170
rosa_rugosa Rorug03G0046900.1
rosa_samantha Rh3AG104000 Rh3BG107600 Rh3CG109500 Rh3DG109500
rosa_wichuraiana Rw3G008850

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 692
AarI CACCTGC 1 cut(s) 172
AasI GACNNNNNNGTC 1 cut(s) 927
Acc36I ACCTGC 1 cut(s) 172
AccB7I CCANNNNNTGG 1 cut(s) 45
AccI GTMKAC 1 cut(s) 395
AciI CCGC 2 cut(s) 131, 955
AclWI GGATC 2 cut(s) 799, 995
AcsI RAATTY 2 cut(s) 539, 940
AcuI CTGAAG 1 cut(s) 132
AcyI GRCGYC 1 cut(s) 922
AfaI GTAC 3 cut(s) 11, 224, 817
AfiI CCNNNNNNNGG 3 cut(s) 45, 423, 559
AgsI TTSAA 3 cut(s) 437, 539, 1144
AhdI GACNNNNNGTC 1 cut(s) 1174
AjiI CACGTC 1 cut(s) 628
AjnI CCWGG 2 cut(s) 44, 906
Alw21I GWGCWC 2 cut(s) 848, 950
Alw26I GTCTC 4 cut(s) 304, 498, 743, 968
AlwI GGATC 2 cut(s) 799, 995
AoxI GGCC 2 cut(s) 426, 909
ApeKI GCWGC 3 cut(s) 93, 475, 760
ApoI RAATTY 2 cut(s) 539, 940
Asp700I GAANNNNTTC 1 cut(s) 1080
AspS9I GGNCC 4 cut(s) 266, 426, 447, 910
AsuC2I CCSGG 2 cut(s) 418, 855
AsuHPI GGTGA 5 cut(s) 185, 196, 269, 733, 843
AvaII GGWCC 2 cut(s) 266, 447
BanII GRGCYC 1 cut(s) 950
BbsI GAAGAC 2 cut(s) 477, 1132
Bbv12I GWGCWC 2 cut(s) 848, 950
BbvI GCAGC 3 cut(s) 105, 487, 772
BccI CCATC 1 cut(s) 198
BciT130I CCWGG 2 cut(s) 46, 908
BclI TGATCA 1 cut(s) 1038
BcnI CCSGG 2 cut(s) 418, 855
BcoDI GTCTC 4 cut(s) 304, 498, 743, 968
BfaI CTAG 1 cut(s) 167
BfmI CTRYAG 1 cut(s) 564
BfuAI ACCTGC 1 cut(s) 172
BglII AGATCT 1 cut(s) 1078
BisI GCNGC 3 cut(s) 94, 476, 761
BlsI GCNGC 3 cut(s) 95, 477, 762
Bme1390I CCNGG 4 cut(s) 46, 418, 855, 908
Bme18I GGWCC 2 cut(s) 266, 447
BmeRI GACNNNNNGTC 1 cut(s) 1174
BmgBI CACGTC 1 cut(s) 628
BmgT120I GGNCC 4 cut(s) 266, 426, 447, 910
BmrFI CCNGG 4 cut(s) 46, 418, 855, 908
BmsI GCATC 3 cut(s) 568, 820, 1070
BpiI GAAGAC 2 cut(s) 477, 1132
BpmI CTGGAG 1 cut(s) 325
BpuEI CTTGAG 1 cut(s) 695
BpuMI CCSGG 2 cut(s) 418, 855
BsaBI GATNNNNATC 1 cut(s) 519
BsaHI GRCGYC 1 cut(s) 922
BsaI GGTCTC 1 cut(s) 743
BsaJI CCNNGG 3 cut(s) 353, 683, 753
BsaWI WCCGGW 2 cut(s) 466, 894
Bsc4I CCNNNNNNNGG 3 cut(s) 45, 423, 559
Bse1I ACTGG 1 cut(s) 1174
Bse8I GATNNNNATC 1 cut(s) 519
BseBI CCWGG 2 cut(s) 46, 908
BseDI CCNNGG 3 cut(s) 353, 683, 753
BseGI GGATG 3 cut(s) 103, 520, 1170
BseJI GATNNNNATC 1 cut(s) 519
BseLI CCNNNNNNNGG 3 cut(s) 45, 423, 559
BseMII CTCAG 1 cut(s) 633
BseNI ACTGG 1 cut(s) 1174
BseRI GAGGAG 3 cut(s) 394, 485, 973
BseXI GCAGC 3 cut(s) 105, 487, 772
BshFI GGCC 2 cut(s) 428, 911
BsiHKAI GWGCWC 2 cut(s) 848, 950
BsiSI CCGG 5 cut(s) 417, 467, 854, 895, 925
BslFI GGGAC 1 cut(s) 933
BslI CCNNNNNNNGG 3 cut(s) 45, 423, 559
BsmAI GTCTC 4 cut(s) 304, 498, 743, 968
BsmBI CGTCTC 1 cut(s) 498
BsmFI GGGAC 1 cut(s) 933
BsmI GAATGC 1 cut(s) 1111
BsnI GGCC 2 cut(s) 428, 911
Bso31I GGTCTC 1 cut(s) 743
Bsp1286I GDGCHC 2 cut(s) 848, 950
Bsp143I GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
BspACI CCGC 2 cut(s) 131, 955
BspANI GGCC 2 cut(s) 428, 911
BspCNI CTCAG 1 cut(s) 634
BspHI TCATGA 1 cut(s) 319
BspMI ACCTGC 1 cut(s) 172
BspPI GGATC 2 cut(s) 799, 995
BspTNI GGTCTC 1 cut(s) 743
BsrI ACTGG 1 cut(s) 1174
BssECI CCNNGG 3 cut(s) 353, 683, 753
BssMI GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
BssNI GRCGYC 1 cut(s) 922
BssT1I CCWWGG 2 cut(s) 353, 753
Bst2UI CCWGG 2 cut(s) 46, 908
Bst4CI ACNGT 1 cut(s) 554
Bst6I CTCTTC 2 cut(s) 353, 826
BstACI GRCGYC 1 cut(s) 922
BstC8I GCNNGC 1 cut(s) 387
BstDEI CTNAG 1 cut(s) 642
BstEII GGTNACC 1 cut(s) 184
BstF5I GGATG 3 cut(s) 103, 520, 1170
BstKTI GATC 5 cut(s) 794, 1003, 1041, 1081, 1162
BstMAI GTCTC 4 cut(s) 304, 498, 743, 968
BstMBI GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
BstMWI GCNNNNNNNGC 1 cut(s) 322
BstNI CCWGG 2 cut(s) 46, 908
BstNSI RCATGY 1 cut(s) 1092
BstPI GGTNACC 1 cut(s) 184
BstSCI CCNGG 4 cut(s) 44, 416, 853, 906
BstSFI CTRYAG 1 cut(s) 564
BstV1I GCAGC 3 cut(s) 105, 487, 772
BstV2I GAAGAC 2 cut(s) 477, 1132
BstX2I RGATCY 1 cut(s) 1078
BstYI RGATCY 1 cut(s) 1078
BsuRI GGCC 2 cut(s) 428, 911
BtrI CACGTC 1 cut(s) 628
BtsCI GGATG 3 cut(s) 103, 520, 1170
BtsIMutI CAGTG 2 cut(s) 711, 1164
BveI ACCTGC 1 cut(s) 172
Cac8I GCNNGC 1 cut(s) 387
CciI TCATGA 1 cut(s) 319
Cfr13I GGNCC 4 cut(s) 266, 426, 447, 910
CseI GACGC 1 cut(s) 930
Csp6I GTAC 3 cut(s) 10, 223, 816
CviAII CATG 8 cut(s) 67, 320, 391, 527, 788, 1042, 1089, 1121
CviQI GTAC 3 cut(s) 10, 223, 816
DdeI CTNAG 1 cut(s) 642
DpnI GATC 5 cut(s) 793, 1002, 1040, 1080, 1161
DpnII GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
DrdI GACNNNNNNGTC 1 cut(s) 927
DriI GACNNNNNGTC 1 cut(s) 1174
DseDI GACNNNNNNGTC 1 cut(s) 927
Eam1104I CTCTTC 2 cut(s) 353, 826
Eam1105I GACNNNNNGTC 1 cut(s) 1174
EarI CTCTTC 2 cut(s) 353, 826
Ecl136II GAGCTC 1 cut(s) 948
Eco130I CCWWGG 2 cut(s) 353, 753
Eco24I GRGCYC 1 cut(s) 950
Eco31I GGTCTC 1 cut(s) 743
Eco47I GGWCC 2 cut(s) 266, 447
Eco53kI GAGCTC 1 cut(s) 948
Eco57I CTGAAG 1 cut(s) 132
Eco91I GGTNACC 1 cut(s) 184
EcoICRI GAGCTC 1 cut(s) 948
EcoO65I GGTNACC 1 cut(s) 184
EcoRI GAATTC 2 cut(s) 539, 940
EcoRII CCWGG 2 cut(s) 44, 906
EcoT14I CCWWGG 2 cut(s) 353, 753
EcoT38I GRGCYC 1 cut(s) 950
ErhI CCWWGG 2 cut(s) 353, 753
Esp3I CGTCTC 1 cut(s) 498
FaeI CATG 8 cut(s) 70, 323, 394, 530, 791, 1045, 1092, 1124
FalI AAGNNNNNCTT 4 cut(s) 823, 855, 1068, 1100
FaqI GGGAC 1 cut(s) 933
FatI CATG 8 cut(s) 66, 319, 390, 526, 787, 1041, 1088, 1120
FbaI TGATCA 1 cut(s) 1038
FblI GTMKAC 1 cut(s) 395
Fnu4HI GCNGC 3 cut(s) 94, 476, 761
FokI GGATG 3 cut(s) 90, 507, 1157
FriOI GRGCYC 1 cut(s) 950
Fsp4HI GCNGC 3 cut(s) 94, 476, 761
FspBI CTAG 1 cut(s) 167
GluI GCNGC 3 cut(s) 94, 476, 761
GsuI CTGGAG 1 cut(s) 325
HaeIII GGCC 2 cut(s) 428, 911
HapII CCGG 5 cut(s) 417, 467, 854, 895, 925
HgaI GACGC 1 cut(s) 930
Hin1I GRCGYC 1 cut(s) 922
Hin1II CATG 8 cut(s) 70, 323, 394, 530, 791, 1045, 1092, 1124
HincII GTYRAC 1 cut(s) 396
HindII GTYRAC 1 cut(s) 396
HindIII AAGCTT 2 cut(s) 706, 863
HinfI GANTC 7 cut(s) 361, 377, 437, 458, 928, 961, 1022
HpaII CCGG 5 cut(s) 417, 467, 854, 895, 925
HphI GGTGA 5 cut(s) 185, 196, 269, 733, 843
Hpy166II GTNNAC 1 cut(s) 396
Hpy188III TCNNGA 8 cut(s) 213, 320, 342, 445, 497, 536, 733, 774
Hpy8I GTNNAC 1 cut(s) 396
Hpy99I CGWCG 2 cut(s) 629, 940
HpyCH4III ACNGT 1 cut(s) 554
HpyCH4IV ACGT 1 cut(s) 627
HpyCH4V TGCA 5 cut(s) 276, 890, 980, 1088, 1109
HpyF10VI GCNNNNNNNGC 1 cut(s) 322
HpyF3I CTNAG 1 cut(s) 642
HpySE526I ACGT 1 cut(s) 627
Hsp92I GRCGYC 1 cut(s) 922
Hsp92II CATG 8 cut(s) 70, 323, 394, 530, 791, 1045, 1092, 1124
Ksp22I TGATCA 1 cut(s) 1038
Kzo9I GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
LmnI GCTCC 4 cut(s) 238, 472, 509, 757
Lsp1109I GCAGC 3 cut(s) 105, 487, 772
LweI GCATC 3 cut(s) 568, 820, 1070
MaeI CTAG 1 cut(s) 167
MaeII ACGT 1 cut(s) 627
MaeIII GTNAC 2 cut(s) 184, 548
MalI GATC 5 cut(s) 793, 1002, 1040, 1080, 1161
MboI GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
MfeI CAATTG 1 cut(s) 981
MflI RGATCY 1 cut(s) 1078
MhlI GDGCHC 2 cut(s) 848, 950
MluCI AATT 8 cut(s) 97, 310, 366, 539, 885, 900, 940, 981
MlyI GAGTC 3 cut(s) 370, 937, 970
MmeI TCCRAC 1 cut(s) 327
MroXI GAANNNNTTC 1 cut(s) 1080
MseI TTAA 3 cut(s) 861, 873, 903
MslI CAYNNNNRTG 3 cut(s) 525, 626, 716
MspI CCGG 5 cut(s) 417, 467, 854, 895, 925
MspR9I CCNGG 4 cut(s) 46, 418, 855, 908
MunI CAATTG 1 cut(s) 981
Mva1269I GAATGC 1 cut(s) 1111
MvaI CCWGG 2 cut(s) 46, 908
MwoI GCNNNNNNNGC 1 cut(s) 322
NciI CCSGG 2 cut(s) 418, 855
NdeII GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
NlaIII CATG 8 cut(s) 70, 323, 394, 530, 791, 1045, 1092, 1124
NmuCI GTSAC 2 cut(s) 184, 548
NspI RCATGY 1 cut(s) 1092
PagI TCATGA 1 cut(s) 319
PaqCI CACCTGC 1 cut(s) 172
PcsI WCGNNNNNNNCGW 2 cut(s) 504, 941
PctI GAATGC 1 cut(s) 1111
PdmI GAANNNNTTC 1 cut(s) 1080
PfeI GAWTC 4 cut(s) 377, 437, 458, 1022
PflMI CCANNNNNTGG 1 cut(s) 45
PkrI GCNGC 3 cut(s) 95, 477, 762
PleI GAGTC 3 cut(s) 369, 936, 969
PpsI GAGTC 3 cut(s) 369, 936, 969
PsiI TTATAA 1 cut(s) 692
Psp124BI GAGCTC 1 cut(s) 950
Psp6I CCWGG 2 cut(s) 44, 906
PspEI GGTNACC 1 cut(s) 184
PspGI CCWGG 2 cut(s) 44, 906
PspPI GGNCC 4 cut(s) 266, 426, 447, 910
PsuI RGATCY 1 cut(s) 1078
RsaI GTAC 3 cut(s) 11, 224, 817
RsaNI GTAC 3 cut(s) 10, 223, 816
RseI CAYNNNNRTG 3 cut(s) 525, 626, 716
SacI GAGCTC 1 cut(s) 950
SalI GTCGAC 1 cut(s) 394
SaqAI TTAA 3 cut(s) 861, 873, 903
SatI GCNGC 3 cut(s) 94, 476, 761
Sau3AI GATC 5 cut(s) 791, 1000, 1038, 1078, 1159
Sau96I GGNCC 4 cut(s) 266, 426, 447, 910
SchI GAGTC 3 cut(s) 370, 937, 970
ScrFI CCNGG 4 cut(s) 46, 418, 855, 908
SduI GDGCHC 2 cut(s) 848, 950
SfaNI GCATC 3 cut(s) 568, 820, 1070
SfcI CTRYAG 1 cut(s) 564
SinI GGWCC 2 cut(s) 266, 447
SmiMI CAYNNNNRTG 3 cut(s) 525, 626, 716
SmlI CTYRAG 1 cut(s) 674
SmoI CTYRAG 1 cut(s) 674
Sse9I AATT 8 cut(s) 97, 310, 366, 539, 885, 900, 940, 981
SsiI CCGC 2 cut(s) 131, 955
SspMI CTAG 1 cut(s) 167
SstI GAGCTC 1 cut(s) 950
StyD4I CCNGG 4 cut(s) 44, 416, 853, 906
StyI CCWWGG 2 cut(s) 353, 753
TaaI ACNGT 1 cut(s) 554
TaiI ACGT 1 cut(s) 630
TaqI TCGA 9 cut(s) 364, 395, 431, 498, 596, 624, 842, 938, 944
TasI AATT 8 cut(s) 97, 310, 366, 539, 885, 900, 940, 981
TatI WGTACW 1 cut(s) 9
TfiI GAWTC 4 cut(s) 377, 437, 458, 1022
Tru1I TTAA 3 cut(s) 861, 873, 903
Tru9I TTAA 3 cut(s) 861, 873, 903
TscAI CASTG 2 cut(s) 718, 1171
TseFI GTSAC 2 cut(s) 184, 548
TseI GCWGC 3 cut(s) 93, 475, 760
Tsp45I GTSAC 2 cut(s) 184, 548
TspDTI ATGAA 2 cut(s) 509, 1128
TspGWI ACGGA 2 cut(s) 279, 430
TspRI CASTG 2 cut(s) 718, 1171
Van91I CCANNNNNTGG 1 cut(s) 45
VpaK11BI GGWCC 2 cut(s) 266, 447
XapI RAATTY 2 cut(s) 539, 940
XceI RCATGY 1 cut(s) 1092
XmiI GTMKAC 1 cut(s) 395
XmnI GAANNNNTTC 1 cut(s) 1080
XspI CTAG 1 cut(s) 167
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.