Rw2G041710

Introduces a single-strand break via transesterification at a target site in duplex DNA. Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0016078
Physical Location & Seq
Forward (+)
67874816 .. 67876746
1931 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G041710.1

Sequence Viewer

Length: 1293 bp
ATGCATGTTCGAATACATTATAGTAGTAGAGACTCCTGTTATTATTTGAGAGGTCATCTTGAGCTGTATTGTAATATTGAGTGTAGGCACTACCCCTTTGCATTTCTCACAAATTCGAGTTCAATTCCTAATTGGCTCACTGTTTCGTTCATCTCTGCAATTTCAGAGCCACAGATGAAGACGGAAGCACCCGGATTTCTGATCCAAATCGACGACGACGTAGACGACGACTTCCTTTCTCAGGTTGCCGCCGCTGAGGCCCATGCTCTCGCGAACAAGCGCCGCCGTATCGCCACCCCCACGCCCTCCCCAAACGCCGTCGCGTCGGCACCTCCGCCACCACGCGCAGCGAATCCGAAGGAGAGATCCGACTCCGAAGCCGATGGCGGTCTCTACATCGCGGCGCTCAAAGGAAACCAGAGGGCGTTCTCCGAGCCTCCGCGCGGCGGTGGATTTGGCAGAGGGCGAGTCGGCGGGGCCGTAGCGGAGGCGGGAAACGACGGCGTTTTGGGCGGTGATGCGTGCTTCAAGTGCGGGAAATCGGGACACTGGGCTCGCGATTGCGATGCCCCAGGCGGAGGAGGAGGTGGCGGGGGGTATAGTGGTAATTACGGCGGCGGAGGGTATAATGGTAATTACGGTGGCGACGCTGCGTCCGCGATTTTGTTTCCTGAGAAAAGCTGCCCCTGTGGATCTGGAACCTGCGTGGTGCTCACTGCAAATACTGAGAAGAATCGAGGTCGAAAATTCTACAAATGCCCACTTAGACAGGAAAATGGGGGTTGTGGTTTCTTTGAGTGGTGTGATAATGCTTCTGGGCCTAATGCCATGGCTGGTGCTGGTAGTGGTAGCTTTCGTGGGACCCAAAACTATGCATCTGATTCTACATTTCCAGCTCTTGAATGTCCCTGTGGTGGTGGGCAATGCCGAATCTTAACAGCTAAAACGGGCAAAAGTATTGGCAGCCAATTCTATCGCTGTCCTGGAAATGAGGGAAGCTCTTGCGGTTTCTTCAAGTGGTGCAGTGAGAATACTGTGGCAGCTGGTAGTGTTCAAGGTGCACGAATCCCCAAGGTGGTTTATGGTTCAAGCGAGACAGGCAGCCAAGGGAGCTATGGTGTTAGGACTGGTTCTTCCTGTTACAAGTGCGGAAAGGAAGGGCATTGGGCAAGAGATTGCTCCGTTCCTTCAAACAATGCTCCGGTTGAATTTGGAGGACGGTCTGCTTCAACAAGCAGCTGCTATAAGTGTGGAAAGACGGGGCACTGGGCCAGAGACTGTCCTTCTGGTTAA

Protein Analysis

430

Amino Acids

44.86

Weight (kDa)

8.34

Isoelectric Point (pI)

49.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC PF00098 174 - 189 3.5e-07 Zinc knuckle
Zn_ribbon_GRF PF06839 227 - 270 1e-15 GRF zinc finger
Zn_ribbon_GRF PF06839 302 - 343 3.8e-13 GRF zinc finger
zf-CCHC PF00098 379 - 394 7e-08 Zinc knuckle
zf-CCHC PF00098 413 - 429 1.1e-08 Zinc knuckle
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016078)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G42860
fragaria_vesca FvH4_6g39844 FvH4_6g39844 FvH4_6g39844
malus_domestica MD17G1125500.v1.1
prunus_persica Prupe.3G190200_v2.0.a1
pyrus_communis pycom17g11770
rosa_chinensis RchiOBHm_Chr2g0154211
rosa_laevigata RLG00000020764
rosa_roxburghii Rroxscaffold_2G00094460
rosa_samantha Rh2AG507900 Rh2BG518900 Rh2CG493200 Rh2DG529800
rosa_wichuraiana Rw2G041710

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 710
AccB1I GGYRCC 1 cut(s) 328
AccI GTMKAC 1 cut(s) 222
AccII CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
AclWI GGATC 3 cut(s) 196, 360, 700
AcsI RAATTY 3 cut(s) 112, 746, 1208
AfiI CCNNNNNNNGG 6 cut(s) 241, 443, 446, 578, 914, 1075
AgsI TTSAA 9 cut(s) 123, 529, 902, 1015, 1055, 1089, 1191, 1208, 1230
AhdI GACNNNNNGTC 1 cut(s) 652
AjnI CCWGG 2 cut(s) 571, 982
AluBI AGCT 9 cut(s) 64, 681, 852, 896, 941, 999, 1043, 1113, 1239
AluI AGCT 9 cut(s) 64, 681, 852, 896, 941, 999, 1043, 1113, 1239
Alw21I GWGCWC 2 cut(s) 714, 1063
Alw26I GTCTC 4 cut(s) 24, 395, 1088, 1269
Alw44I GTGCAC 1 cut(s) 1059
AlwI GGATC 3 cut(s) 196, 360, 700
AlwNI CAGNNNCTG 1 cut(s) 1278
AoxI GGCC 4 cut(s) 258, 477, 818, 1269
ApaLI GTGCAC 1 cut(s) 1059
ApeKI GCWGC 8 cut(s) 347, 650, 681, 963, 1040, 1101, 1236, 1239
ApoI RAATTY 3 cut(s) 112, 746, 1208
AspLEI GCGC 4 cut(s) 282, 347, 406, 444
AspS9I GGNCC 5 cut(s) 259, 477, 818, 861, 1269
AsuC2I CCSGG 1 cut(s) 192
AsuHPI GGTGA 1 cut(s) 527
AsuII TTCGAA 1 cut(s) 10
AvaII GGWCC 1 cut(s) 861
BaeGI GKGCMC 2 cut(s) 1063, 1266
BanI GGYRCC 1 cut(s) 328
BanII GRGCYC 1 cut(s) 556
BbsI GAAGAC 1 cut(s) 185
Bbv12I GWGCWC 2 cut(s) 714, 1063
BbvCI CCTCAGC 1 cut(s) 255
BbvI GCAGC 8 cut(s) 359, 637, 668, 975, 1052, 1113, 1226, 1248
BccI CCATC 1 cut(s) 377
BceAI ACGGC 5 cut(s) 270, 302, 464, 517, 628
BcgI CGANNNNNNTGC 2 cut(s) 548, 582
BciT130I CCWGG 2 cut(s) 573, 984
BcnI CCSGG 1 cut(s) 192
BcoDI GTCTC 4 cut(s) 24, 395, 1088, 1269
BfoI RGCGCY 2 cut(s) 283, 407
BfuAI ACCTGC 1 cut(s) 710
BglI GCCNNNNNGGC 1 cut(s) 257
Bme1390I CCNGG 3 cut(s) 192, 573, 984
Bme18I GGWCC 1 cut(s) 861
BmeRI GACNNNNNGTC 1 cut(s) 652
BmgT120I GGNCC 5 cut(s) 259, 477, 818, 861, 1269
BmiI GGNNCC 5 cut(s) 330, 478, 700, 862, 863
BmrFI CCNGG 3 cut(s) 192, 573, 984
BmrI ACTGGG 2 cut(s) 559, 1276
BmsI GCATC 3 cut(s) 508, 556, 884
BmuI ACTGGG 2 cut(s) 559, 1276
BpiI GAAGAC 1 cut(s) 185
BplI GAGNNNNNCTC 2 cut(s) 983, 1015
Bpu10I CCTNAGC 1 cut(s) 255
Bpu14I TTCGAA 1 cut(s) 10
BpuEI CTTGAG 1 cut(s) 80
BpuMI CCSGG 1 cut(s) 192
BsaBI GATNNNNATC 1 cut(s) 206
BsaI GGTCTC 1 cut(s) 395
BsaJI CCNNGG 4 cut(s) 571, 828, 1071, 1105
BsaWI WCCGGW 1 cut(s) 1201
BsaXI ACNNNNNCTCC 2 cut(s) 1102, 1132
Bsc4I CCNNNNNNNGG 6 cut(s) 241, 443, 446, 578, 914, 1075
Bse1I ACTGG 3 cut(s) 554, 1132, 1271
Bse3DI GCAATG 1 cut(s) 929
Bse8I GATNNNNATC 1 cut(s) 206
BseBI CCWGG 2 cut(s) 573, 984
BseDI CCNNGG 4 cut(s) 571, 828, 1071, 1105
BseJI GATNNNNATC 1 cut(s) 206
BseLI CCNNNNNNNGG 6 cut(s) 241, 443, 446, 578, 914, 1075
BseMI GCAATG 1 cut(s) 929
BseMII CTCAG 4 cut(s) 246, 254, 663, 717
BseNI ACTGG 3 cut(s) 554, 1132, 1271
BseRI GAGGAG 2 cut(s) 594, 597
BseSI GKGCMC 2 cut(s) 1063, 1266
BseXI GCAGC 8 cut(s) 359, 637, 668, 975, 1052, 1113, 1226, 1248
BsgI GTGCAG 1 cut(s) 1042
Bsh1236I CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
BshFI GGCC 4 cut(s) 260, 479, 820, 1271
BshNI GGYRCC 1 cut(s) 328
BsiHKAI GWGCWC 2 cut(s) 714, 1063
BsiSI CCGG 2 cut(s) 192, 1202
BslFI GGGAC 3 cut(s) 558, 874, 891
BslI CCNNNNNNNGG 6 cut(s) 241, 443, 446, 578, 914, 1075
BsmAI GTCTC 4 cut(s) 24, 395, 1088, 1269
BsmFI GGGAC 3 cut(s) 558, 874, 891
BsnI GGCC 4 cut(s) 260, 479, 820, 1271
Bso31I GGTCTC 1 cut(s) 395
Bsp119I TTCGAA 1 cut(s) 10
Bsp1286I GDGCHC 4 cut(s) 556, 714, 1063, 1266
Bsp143I GATC 3 cut(s) 201, 365, 692
Bsp19I CCATGG 1 cut(s) 828
Bsp68I TCGCGA 2 cut(s) 272, 558
BspANI GGCC 4 cut(s) 260, 479, 820, 1271
BspCNI CTCAG 4 cut(s) 247, 253, 664, 718
BspFNI CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
BspLI GGNNCC 5 cut(s) 330, 478, 700, 862, 863
BspMI ACCTGC 1 cut(s) 710
BspPI GGATC 3 cut(s) 196, 360, 700
BspT104I TTCGAA 1 cut(s) 10
BspT107I GGYRCC 1 cut(s) 328
BspTNI GGTCTC 1 cut(s) 395
BsrDI GCAATG 1 cut(s) 929
BsrI ACTGG 3 cut(s) 554, 1132, 1271
BssECI CCNNGG 4 cut(s) 571, 828, 1071, 1105
BssMI GATC 3 cut(s) 201, 365, 692
BssT1I CCWWGG 3 cut(s) 828, 1071, 1105
Bst2UI CCWGG 2 cut(s) 573, 984
Bst4CI ACNGT 5 cut(s) 142, 641, 1036, 1221, 1280
BstBI TTCGAA 1 cut(s) 10
BstC8I GCNNGC 2 cut(s) 523, 556
BstDEI CTNAG 5 cut(s) 240, 255, 672, 726, 764
BstDSI CCRYGG 1 cut(s) 828
BstENI CCTNNNNNAGG 1 cut(s) 239
BstFNI CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
BstH2I RGCGCY 2 cut(s) 283, 407
BstHHI GCGC 4 cut(s) 282, 347, 406, 444
BstKTI GATC 3 cut(s) 204, 368, 695
BstMAI GTCTC 4 cut(s) 24, 395, 1088, 1269
BstMBI GATC 3 cut(s) 201, 365, 692
BstMWI GCNNNNNNNGC 6 cut(s) 257, 510, 531, 656, 1098, 1110
BstNI CCWGG 2 cut(s) 573, 984
BstNSI RCATGY 1 cut(s) 8
BstSCI CCNGG 3 cut(s) 190, 571, 982
BstSLI GKGCMC 2 cut(s) 1063, 1266
BstUI CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
BstV1I GCAGC 8 cut(s) 359, 637, 668, 975, 1052, 1113, 1226, 1248
BstV2I GAAGAC 1 cut(s) 185
BstX2I RGATCY 2 cut(s) 365, 692
BstYI RGATCY 2 cut(s) 365, 692
BsuRI GGCC 4 cut(s) 260, 479, 820, 1271
BtgI CCRYGG 1 cut(s) 828
BtgZI GCGATG 2 cut(s) 382, 579
BtsI GCAGTG 2 cut(s) 714, 1030
BtsIMutI CAGTG 5 cut(s) 138, 547, 714, 1030, 1264
BtuMI TCGCGA 2 cut(s) 272, 558
BveI ACCTGC 1 cut(s) 710
Cac8I GCNNGC 2 cut(s) 523, 556
CaiI CAGNNNCTG 1 cut(s) 1278
CfoI GCGC 4 cut(s) 282, 347, 406, 444
Cfr13I GGNCC 5 cut(s) 259, 477, 818, 861, 1269
CseI GACGC 3 cut(s) 312, 642, 656
CviAII CATG 3 cut(s) 5, 263, 829
DdeI CTNAG 5 cut(s) 240, 255, 672, 726, 764
DpnI GATC 3 cut(s) 203, 367, 694
DpnII GATC 3 cut(s) 201, 365, 692
DriI GACNNNNNGTC 1 cut(s) 652
Eam1105I GACNNNNNGTC 1 cut(s) 652
EciI GGCGGA 3 cut(s) 324, 591, 633
Eco130I CCWWGG 3 cut(s) 828, 1071, 1105
Eco24I GRGCYC 1 cut(s) 556
Eco31I GGTCTC 1 cut(s) 395
Eco47I GGWCC 1 cut(s) 861
EcoNI CCTNNNNNAGG 1 cut(s) 239
EcoO109I RGGNCCY 1 cut(s) 861
EcoRII CCWGG 2 cut(s) 571, 982
EcoT14I CCWWGG 3 cut(s) 828, 1071, 1105
EcoT22I ATGCAT 2 cut(s) 6, 877
EcoT38I GRGCYC 1 cut(s) 556
ErhI CCWWGG 3 cut(s) 828, 1071, 1105
FaeI CATG 3 cut(s) 8, 266, 832
FaqI GGGAC 3 cut(s) 558, 874, 891
FatI CATG 3 cut(s) 4, 262, 828
FauI CCCGC 4 cut(s) 467, 484, 527, 584
FblI GTMKAC 1 cut(s) 222
FriOI GRGCYC 1 cut(s) 556
GlaI GCGC 4 cut(s) 281, 346, 405, 443
HaeII RGCGCY 2 cut(s) 283, 407
HaeIII GGCC 4 cut(s) 260, 479, 820, 1271
HapII CCGG 2 cut(s) 192, 1202
HgaI GACGC 3 cut(s) 312, 642, 656
HhaI GCGC 4 cut(s) 282, 347, 406, 444
Hin1II CATG 3 cut(s) 8, 266, 832
Hin6I GCGC 4 cut(s) 280, 345, 404, 442
HinP1I GCGC 4 cut(s) 280, 345, 404, 442
HinfI GANTC 8 cut(s) 32, 352, 371, 468, 733, 881, 930, 1065
HpaII CCGG 2 cut(s) 192, 1202
HphI GGTGA 1 cut(s) 527
Hpy166II GTNNAC 2 cut(s) 223, 1061
Hpy188I TCNGA 7 cut(s) 166, 201, 357, 370, 376, 433, 880
Hpy188III TCNNGA 7 cut(s) 59, 271, 543, 557, 671, 696, 899
Hpy8I GTNNAC 2 cut(s) 223, 1061
Hpy99I CGWCG 8 cut(s) 215, 218, 221, 230, 323, 328, 503, 650
HpyAV CCTTC 4 cut(s) 352, 1151, 1197, 1293
HpyCH4III ACNGT 5 cut(s) 142, 641, 1036, 1221, 1280
HpyCH4IV ACGT 1 cut(s) 219
HpyCH4V TGCA 7 cut(s) 4, 101, 158, 719, 875, 1023, 1061
HpyF10VI GCNNNNNNNGC 6 cut(s) 257, 510, 531, 656, 1098, 1110
HpyF3I CTNAG 5 cut(s) 240, 255, 672, 726, 764
HpySE526I ACGT 1 cut(s) 219
Hsp92II CATG 3 cut(s) 8, 266, 832
HspAI GCGC 4 cut(s) 280, 345, 404, 442
KflI GGGWCCC 1 cut(s) 861
Kzo9I GATC 3 cut(s) 201, 365, 692
LmnI GCTCC 3 cut(s) 1110, 1184, 1204
Lsp1109I GCAGC 8 cut(s) 359, 637, 668, 975, 1052, 1113, 1226, 1248
LweI GCATC 3 cut(s) 508, 556, 884
MaeII ACGT 1 cut(s) 219
MaeIII GTNAC 1 cut(s) 1139
MalI GATC 3 cut(s) 203, 367, 694
MboI GATC 3 cut(s) 201, 365, 692
MboII GAAGA 4 cut(s) 190, 742, 1003, 1125
MflI RGATCY 2 cut(s) 365, 692
MhlI GDGCHC 4 cut(s) 556, 714, 1063, 1266
MluCI AATT 9 cut(s) 112, 123, 130, 159, 607, 634, 746, 968, 1208
MlyI GAGTC 3 cut(s) 26, 365, 477
MmeI TCCRAC 1 cut(s) 393
Mph1103I ATGCAT 2 cut(s) 6, 877
MseI TTAA 2 cut(s) 935, 1291
MspA1I CMGCKG 3 cut(s) 254, 1043, 1239
MspI CCGG 2 cut(s) 192, 1202
MspR9I CCNGG 3 cut(s) 192, 573, 984
MvaI CCWGG 2 cut(s) 573, 984
MvnI CGCG 8 cut(s) 272, 323, 345, 401, 442, 444, 558, 659
MwoI GCNNNNNNNGC 6 cut(s) 257, 510, 531, 656, 1098, 1110
NciI CCSGG 1 cut(s) 192
NcoI CCATGG 1 cut(s) 828
NdeII GATC 3 cut(s) 201, 365, 692
NlaIII CATG 3 cut(s) 8, 266, 832
NlaIV GGNNCC 5 cut(s) 330, 478, 700, 862, 863
NruI TCGCGA 2 cut(s) 272, 558
NsiI ATGCAT 2 cut(s) 6, 877
NspI RCATGY 1 cut(s) 8
NspV TTCGAA 1 cut(s) 10
PcsI WCGNNNNNNNCGW 4 cut(s) 216, 222, 225, 477
PfeI GAWTC 5 cut(s) 352, 733, 881, 930, 1065
PfoI TCCNGGA 1 cut(s) 982
PleI GAGTC 3 cut(s) 26, 365, 476
PpsI GAGTC 3 cut(s) 26, 365, 476
PpuMI RGGWCCY 1 cut(s) 861
Psp5II RGGWCCY 1 cut(s) 861
Psp6I CCWGG 2 cut(s) 571, 982
PspGI CCWGG 2 cut(s) 571, 982
PspN4I GGNNCC 5 cut(s) 330, 478, 700, 862, 863
PspPI GGNCC 5 cut(s) 259, 477, 818, 861, 1269
PspPPI RGGWCCY 1 cut(s) 861
PstNI CAGNNNCTG 1 cut(s) 1278
PsuI RGATCY 2 cut(s) 365, 692
PvuII CAGCTG 2 cut(s) 1043, 1239
RruI TCGCGA 2 cut(s) 272, 558
SaqAI TTAA 2 cut(s) 935, 1291
Sau3AI GATC 3 cut(s) 201, 365, 692
Sau96I GGNCC 5 cut(s) 259, 477, 818, 861, 1269
SchI GAGTC 3 cut(s) 26, 365, 477
ScrFI CCNGG 3 cut(s) 192, 573, 984
SduI GDGCHC 4 cut(s) 556, 714, 1063, 1266
SfaNI GCATC 3 cut(s) 508, 556, 884
SfuI TTCGAA 1 cut(s) 10
SinI GGWCC 1 cut(s) 861
SmlI CTYRAG 1 cut(s) 59
SmoI CTYRAG 1 cut(s) 59
Sse9I AATT 9 cut(s) 112, 123, 130, 159, 607, 634, 746, 968, 1208
SspI AATATT 1 cut(s) 76
StyD4I CCNGG 3 cut(s) 190, 571, 982
StyI CCWWGG 3 cut(s) 828, 1071, 1105
TaaI ACNGT 5 cut(s) 142, 641, 1036, 1221, 1280
TaiI ACGT 1 cut(s) 222
TaqI TCGA 5 cut(s) 10, 116, 210, 736, 742
TasI AATT 9 cut(s) 112, 123, 130, 159, 607, 634, 746, 968, 1208
TauI GCSGC 6 cut(s) 251, 254, 285, 404, 447, 618
TfiI GAWTC 5 cut(s) 352, 733, 881, 930, 1065
Tru1I TTAA 2 cut(s) 935, 1291
Tru9I TTAA 2 cut(s) 935, 1291
TscAI CASTG 5 cut(s) 145, 554, 721, 1030, 1271
TseI GCWGC 8 cut(s) 347, 650, 681, 963, 1040, 1101, 1236, 1239
TspDTI ATGAA 2 cut(s) 139, 191
TspGWI ACGGA 2 cut(s) 197, 1171
TspRI CASTG 5 cut(s) 145, 554, 721, 1030, 1271
VneI GTGCAC 1 cut(s) 1059
VpaK11BI GGWCC 1 cut(s) 861
XagI CCTNNNNNAGG 1 cut(s) 239
XapI RAATTY 3 cut(s) 112, 746, 1208
XceI RCATGY 1 cut(s) 8
XcmI CCANNNNNNNNNTGG 1 cut(s) 1112
XmiI GTMKAC 1 cut(s) 222
Zsp2I ATGCAT 2 cut(s) 6, 877
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.