Rorug01G0387300

Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0001532
Physical Location & Seq
Reverse (-)
49869440 .. 49873609
4170 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0387300.1

Sequence Viewer

Length: 930 bp
ATGGATGTGATTAAAACGCAGCAAATCTCAGCGAGGCCGATCGAGAAGGTGATAGTTCACCCTCTGGTTCTGCTCAGCATCGTCGACAACTACAACAGGGTCGCCAAGGACACTCGCAAGCGCGTCGTTGGGGTTCTCCTCGGTTCCTCTTACCGCGGCACCGTTGACGTCAGCAACAGCTACGCCGTGCCCTTTGAAGAAGATGACAAGGACCCAAGTATCTGGTTTCTTGATCACAACTACCATGAAGCCATGTATTCCATGTCGAAGAGAATTAATGCAAAGGAGCATGTTGTGGGATGGTACAGCACGGGCCCAAAGTTGCGAGAAAATGACTTAGACGTTCACAGTTTGTTTACTGACTATGTTCCAAATCCTGTCCTGGTCATAATTGATGTCCAACCTAAGGAGCTGGGAATACCCACAAAAGCTTACTGTGCTGTTGAAGAGGTTAAAGAGAATGCTACCCAGAAAAGCCAGAAGGTGTTCGTTCATGTACCCTCTGAAATTGCTGCGCATGAAGTTGAGGAGATCGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATCAGCACTCTTGCAACAGAGGTTACTGGGAAGCTCACAGCTTTGAAGGGGTTGGATGCTAGGCTCCGCGAGATCCGGAGTTATCTTGACCTCGTTATTGATGAGAAGCTCCCATTGAACCATGAGATTTTGTACCACCTACAGGATGTGTTCAATTTACTCCCCAATCTGAATGTTTCGGAGTTGATCAAGGGCTTTGCAGTGAAAACAAATGATATGATGCTGGTTATATATCTTTCTTCCCTCATCCGAAGTGTTATTGCTCTTCACAACTTGATCAACAACAAGATGCAGAATAAGGAGCAAGAAAAGGCAGAAGACTCCAAACCAGTTCCCGTACCGGCTGCAGCCAGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko01524 map01524
Pfam Domains
Protein Families
DNA_gyraseB DNA_topoisoIV HATPase_c TOPRIM_C Toprim

Protein Analysis

309

Amino Acids

34.83

Weight (kDa)

5.79

Isoelectric Point (pI)

40.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
JAB PF01398 14 - 125 1.9e-34 JAB1/Mov34/MPN/PAD-1 ubiquitin protease
MitMem_reg PF13012 174 - 285 7.1e-39 Maintenance of mitochondrial structure and function
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 171
Acc16I TGCGCA 1 cut(s) 516
AccB1I GGYRCC 1 cut(s) 158
AccI GTMKAC 1 cut(s) 84
AccII CGCG 3 cut(s) 123, 156, 642
AccIII TCCGGA 1 cut(s) 648
AciI CCGC 3 cut(s) 154, 156, 640
AclWI GGATC 1 cut(s) 640
AcyI GRCGYC 1 cut(s) 168
AfaI GTAC 4 cut(s) 305, 498, 707, 912
AfiI CCNNNNNNNGG 2 cut(s) 406, 715
AgsI TTSAA 5 cut(s) 197, 446, 619, 691, 727
AjnI CCWGG 1 cut(s) 381
AluBI AGCT 7 cut(s) 180, 412, 431, 607, 614, 682, 927
AluI AGCT 7 cut(s) 180, 412, 431, 607, 614, 682, 927
AlwI GGATC 1 cut(s) 640
Aor13HI TCCGGA 1 cut(s) 648
AoxI GGCC 2 cut(s) 35, 313
ApaI GGGCCC 1 cut(s) 317
ApeKI GCWGC 4 cut(s) 19, 512, 917, 920
AseI ATTAAT 1 cut(s) 276
Asp700I GAANNNNTTC 1 cut(s) 485
AspLEI GCGC 2 cut(s) 123, 517
AspS9I GGNCC 3 cut(s) 211, 313, 314
AsuHPI GGTGA 2 cut(s) 50, 61
AvaII GGWCC 1 cut(s) 211
AxyI CCTNAGG 1 cut(s) 405
BaeGI GKGCMC 2 cut(s) 192, 317
BaeI ACNNNNGTAYC 2 cut(s) 202, 235
BanI GGYRCC 1 cut(s) 158
BanII GRGCYC 1 cut(s) 317
BbsI GAAGAC 1 cut(s) 897
BbvI GCAGC 3 cut(s) 31, 499, 904
BccI CCATC 2 cut(s) 294, 581
BceAI ACGGC 1 cut(s) 170
BcgI CGANNNNNNTGC 2 cut(s) 106, 140
BciT130I CCWGG 1 cut(s) 383
BciVI GTATCC 1 cut(s) 559
BclI TGATCA 3 cut(s) 232, 759, 849
BfaI CTAG 2 cut(s) 633, 928
BfmI CTRYAG 2 cut(s) 713, 918
BfuI GTATCC 1 cut(s) 559
BisI GCNGC 5 cut(s) 20, 157, 513, 918, 921
BlpI GCTNAGC 1 cut(s) 74
BlsI GCNGC 5 cut(s) 21, 158, 514, 919, 922
Bme1390I CCNGG 1 cut(s) 383
Bme18I GGWCC 1 cut(s) 211
BmgT120I GGNCC 3 cut(s) 211, 313, 314
BmiI GGNNCC 5 cut(s) 145, 160, 213, 315, 638
BmrFI CCNGG 1 cut(s) 383
BmrI ACTGGG 1 cut(s) 609
BmsI GCATC 4 cut(s) 87, 619, 783, 852
BmuI ACTGGG 1 cut(s) 609
BpiI GAAGAC 1 cut(s) 897
Bpu1102I GCTNAGC 1 cut(s) 74
BsaHI GRCGYC 1 cut(s) 168
BsaJI CCNNGG 3 cut(s) 105, 139, 154
BsaWI WCCGGW 1 cut(s) 648
Bsc4I CCNNNNNNNGG 2 cut(s) 406, 715
Bse118I RCCGGY 1 cut(s) 913
Bse1I ACTGG 2 cut(s) 604, 902
Bse21I CCTNAGG 1 cut(s) 405
BseAI TCCGGA 1 cut(s) 648
BseBI CCWGG 1 cut(s) 383
BseDI CCNNGG 3 cut(s) 105, 139, 154
BseGI GGATG 5 cut(s) 10, 305, 634, 724, 819
BseLI CCNNNNNNNGG 2 cut(s) 406, 715
BseMII CTCAG 2 cut(s) 42, 88
BseNI ACTGG 2 cut(s) 604, 902
BseRI GAGGAG 2 cut(s) 128, 542
BseSI GKGCMC 2 cut(s) 192, 317
BseXI GCAGC 3 cut(s) 31, 499, 904
BseYI CCCAGC 1 cut(s) 412
Bsh1236I CGCG 3 cut(s) 123, 156, 642
Bsh1285I CGRYCG 1 cut(s) 42
BshFI GGCC 2 cut(s) 37, 315
BshNI GGYRCC 1 cut(s) 158
BsiEI CGRYCG 1 cut(s) 42
BsiSI CCGG 2 cut(s) 649, 914
BslI CCNNNNNNNGG 2 cut(s) 406, 715
BsmI GAATGC 1 cut(s) 466
BsnI GGCC 2 cut(s) 37, 315
Bsp120I GGGCCC 1 cut(s) 313
Bsp1286I GDGCHC 2 cut(s) 192, 317
Bsp13I TCCGGA 1 cut(s) 648
Bsp143I GATC 6 cut(s) 39, 232, 531, 645, 759, 849
Bsp1720I GCTNAGC 1 cut(s) 74
BspACI CCGC 3 cut(s) 154, 156, 640
BspANI GGCC 2 cut(s) 37, 315
BspCNI CTCAG 2 cut(s) 41, 87
BspEI TCCGGA 1 cut(s) 648
BspFNI CGCG 3 cut(s) 123, 156, 642
BspLI GGNNCC 5 cut(s) 145, 160, 213, 315, 638
BspMAI CTGCAG 1 cut(s) 922
BspPI GGATC 1 cut(s) 640
BspQI GCTCTTC 1 cut(s) 843
BspT107I GGYRCC 1 cut(s) 158
BsrFI RCCGGY 1 cut(s) 913
BsrI ACTGG 2 cut(s) 604, 902
BssAI RCCGGY 1 cut(s) 913
BssECI CCNNGG 3 cut(s) 105, 139, 154
BssMI GATC 6 cut(s) 39, 232, 531, 645, 759, 849
BssNI GRCGYC 1 cut(s) 168
BssT1I CCWWGG 1 cut(s) 105
Bst2UI CCWGG 1 cut(s) 383
Bst4CI ACNGT 3 cut(s) 163, 350, 437
Bst6I CTCTTC 3 cut(s) 263, 441, 843
BstACI GRCGYC 1 cut(s) 168
BstC8I GCNNGC 2 cut(s) 119, 925
BstDEI CTNAG 5 cut(s) 28, 74, 337, 405, 551
BstDSI CCRYGG 1 cut(s) 154
BstF5I GGATG 5 cut(s) 10, 305, 634, 724, 819
BstFNI CGCG 3 cut(s) 123, 156, 642
BstHHI GCGC 2 cut(s) 123, 517
BstKTI GATC 6 cut(s) 42, 235, 534, 648, 762, 852
BstMBI GATC 6 cut(s) 39, 232, 531, 645, 759, 849
BstMCI CGRYCG 1 cut(s) 42
BstMWI GCNNNNNNNGC 1 cut(s) 437
BstNI CCWGG 1 cut(s) 383
BstNSI RCATGY 1 cut(s) 293
BstSCI CCNGG 1 cut(s) 381
BstSFI CTRYAG 2 cut(s) 713, 918
BstSLI GKGCMC 2 cut(s) 192, 317
BstUI CGCG 3 cut(s) 123, 156, 642
BstV1I GCAGC 3 cut(s) 31, 499, 904
BstV2I GAAGAC 1 cut(s) 897
BstX2I RGATCY 1 cut(s) 645
BstXI CCANNNNNNTGG 1 cut(s) 222
BstYI RGATCY 1 cut(s) 645
Bsu36I CCTNAGG 1 cut(s) 405
BsuI GTATCC 1 cut(s) 559
BsuRI GGCC 2 cut(s) 37, 315
BtgI CCRYGG 1 cut(s) 154
BtsCI GGATG 5 cut(s) 10, 305, 634, 724, 819
BtsI GCAGTG 1 cut(s) 780
BtsIMutI CAGTG 1 cut(s) 780
Cac8I GCNNGC 2 cut(s) 119, 925
CfoI GCGC 2 cut(s) 123, 517
Cfr10I RCCGGY 1 cut(s) 913
Cfr13I GGNCC 3 cut(s) 211, 313, 314
Cfr42I CCGCGG 1 cut(s) 157
CseI GACGC 1 cut(s) 112
Csp6I GTAC 4 cut(s) 304, 497, 706, 911
CviAII CATG 7 cut(s) 245, 253, 262, 290, 494, 518, 695
CviQI GTAC 4 cut(s) 304, 497, 706, 911
DdeI CTNAG 5 cut(s) 28, 74, 337, 405, 551
DpnI GATC 6 cut(s) 41, 234, 533, 647, 761, 851
DpnII GATC 6 cut(s) 39, 232, 531, 645, 759, 849
Eam1104I CTCTTC 3 cut(s) 263, 441, 843
EarI CTCTTC 3 cut(s) 263, 441, 843
Eco130I CCWWGG 1 cut(s) 105
Eco24I GRGCYC 1 cut(s) 317
Eco47I GGWCC 1 cut(s) 211
Eco81I CCTNAGG 1 cut(s) 405
EcoO109I RGGNCCY 1 cut(s) 211
EcoRII CCWGG 1 cut(s) 381
EcoT14I CCWWGG 1 cut(s) 105
EcoT38I GRGCYC 1 cut(s) 317
ErhI CCWWGG 1 cut(s) 105
FaeI CATG 7 cut(s) 248, 256, 265, 293, 497, 521, 698
FatI CATG 7 cut(s) 244, 252, 261, 289, 493, 517, 694
FbaI TGATCA 3 cut(s) 232, 759, 849
FblI GTMKAC 1 cut(s) 84
Fnu4HI GCNGC 5 cut(s) 20, 157, 513, 918, 921
FokI GGATG 5 cut(s) 17, 312, 641, 731, 806
FriOI GRGCYC 1 cut(s) 317
Fsp4HI GCNGC 5 cut(s) 20, 157, 513, 918, 921
FspBI CTAG 2 cut(s) 633, 928
FspI TGCGCA 1 cut(s) 516
GlaI GCGC 2 cut(s) 122, 516
GluI GCNGC 5 cut(s) 20, 157, 513, 918, 921
GsaI CCCAGC 1 cut(s) 416
HaeIII GGCC 2 cut(s) 37, 315
HapII CCGG 2 cut(s) 649, 914
HgaI GACGC 1 cut(s) 112
HhaI GCGC 2 cut(s) 123, 517
Hin1I GRCGYC 1 cut(s) 168
Hin1II CATG 7 cut(s) 248, 256, 265, 293, 497, 521, 698
Hin6I GCGC 2 cut(s) 121, 515
HinP1I GCGC 2 cut(s) 121, 515
HincII GTYRAC 2 cut(s) 85, 166
HindII GTYRAC 2 cut(s) 85, 166
HindIII AAGCTT 1 cut(s) 429
HinfI GANTC 1 cut(s) 893
HpaII CCGG 2 cut(s) 649, 914
HphI GGTGA 2 cut(s) 50, 61
Hpy166II GTNNAC 5 cut(s) 58, 85, 166, 346, 357
Hpy188I TCNGA 5 cut(s) 505, 536, 744, 754, 824
Hpy188III TCNNGA 4 cut(s) 43, 230, 649, 659
Hpy8I GTNNAC 5 cut(s) 58, 85, 166, 346, 357
Hpy99I CGWCG 2 cut(s) 86, 128
HpyAV CCTTC 4 cut(s) 40, 475, 556, 613
HpyCH4III ACNGT 3 cut(s) 163, 350, 437
HpyCH4IV ACGT 2 cut(s) 168, 342
HpyCH4V TGCA 5 cut(s) 281, 587, 773, 865, 920
HpyF10VI GCNNNNNNNGC 1 cut(s) 437
HpyF3I CTNAG 5 cut(s) 28, 74, 337, 405, 551
HpySE526I ACGT 2 cut(s) 168, 342
Hsp92I GRCGYC 1 cut(s) 168
Hsp92II CATG 7 cut(s) 248, 256, 265, 293, 497, 521, 698
HspAI GCGC 2 cut(s) 121, 515
Kpn2I TCCGGA 1 cut(s) 648
Ksp22I TGATCA 3 cut(s) 232, 759, 849
KspI CCGCGG 1 cut(s) 157
Kzo9I GATC 6 cut(s) 39, 232, 531, 645, 759, 849
LguI GCTCTTC 1 cut(s) 843
LmnI GCTCC 5 cut(s) 286, 409, 642, 687, 874
Lsp1109I GCAGC 3 cut(s) 31, 499, 904
LweI GCATC 4 cut(s) 87, 619, 783, 852
MaeI CTAG 2 cut(s) 633, 928
MaeII ACGT 2 cut(s) 168, 342
MaeIII GTNAC 1 cut(s) 595
MalI GATC 6 cut(s) 41, 234, 533, 647, 761, 851
MboI GATC 6 cut(s) 39, 232, 531, 645, 759, 849
MboII GAAGA 7 cut(s) 209, 212, 280, 458, 804, 830, 902
MflI RGATCY 1 cut(s) 645
MhlI GDGCHC 2 cut(s) 192, 317
MluCI AATT 4 cut(s) 273, 390, 507, 727
MlyI GAGTC 1 cut(s) 887
MmeI TCCRAC 2 cut(s) 424, 606
MroI TCCGGA 1 cut(s) 648
MroXI GAANNNNTTC 1 cut(s) 485
MseI TTAA 3 cut(s) 12, 276, 453
MspA1I CMGCKG 1 cut(s) 156
MspI CCGG 2 cut(s) 649, 914
MspR9I CCNGG 1 cut(s) 383
Mva1269I GAATGC 1 cut(s) 466
MvaI CCWGG 1 cut(s) 383
MvnI CGCG 3 cut(s) 123, 156, 642
MwoI GCNNNNNNNGC 1 cut(s) 437
NdeII GATC 6 cut(s) 39, 232, 531, 645, 759, 849
NlaIII CATG 7 cut(s) 248, 256, 265, 293, 497, 521, 698
NlaIV GGNNCC 5 cut(s) 145, 160, 213, 315, 638
NsbI TGCGCA 1 cut(s) 516
NspI RCATGY 1 cut(s) 293
PciSI GCTCTTC 1 cut(s) 843
PctI GAATGC 1 cut(s) 466
PdmI GAANNNNTTC 1 cut(s) 485
PkrI GCNGC 5 cut(s) 21, 158, 514, 919, 922
Ple19I CGATCG 1 cut(s) 42
PleI GAGTC 1 cut(s) 887
PpsI GAGTC 1 cut(s) 887
PpuMI RGGWCCY 1 cut(s) 211
PshBI ATTAAT 1 cut(s) 276
Psp5II RGGWCCY 1 cut(s) 211
Psp6I CCWGG 1 cut(s) 381
PspFI CCCAGC 1 cut(s) 412
PspGI CCWGG 1 cut(s) 381
PspN4I GGNNCC 5 cut(s) 145, 160, 213, 315, 638
PspOMI GGGCCC 1 cut(s) 313
PspPI GGNCC 3 cut(s) 211, 313, 314
PspPPI RGGWCCY 1 cut(s) 211
PstI CTGCAG 1 cut(s) 922
PsuI RGATCY 1 cut(s) 645
PvuI CGATCG 1 cut(s) 42
RsaI GTAC 4 cut(s) 305, 498, 707, 912
RsaNI GTAC 4 cut(s) 304, 497, 706, 911
SacII CCGCGG 1 cut(s) 157
SalI GTCGAC 1 cut(s) 83
SapI GCTCTTC 1 cut(s) 843
SaqAI TTAA 3 cut(s) 12, 276, 453
SatI GCNGC 5 cut(s) 20, 157, 513, 918, 921
Sau3AI GATC 6 cut(s) 39, 232, 531, 645, 759, 849
Sau96I GGNCC 3 cut(s) 211, 313, 314
SchI GAGTC 1 cut(s) 887
ScrFI CCNGG 1 cut(s) 383
SduI GDGCHC 2 cut(s) 192, 317
SfaNI GCATC 4 cut(s) 87, 619, 783, 852
SfcI CTRYAG 2 cut(s) 713, 918
Sfr303I CCGCGG 1 cut(s) 157
SgrBI CCGCGG 1 cut(s) 157
SinI GGWCC 1 cut(s) 211
Sse9I AATT 4 cut(s) 273, 390, 507, 727
SsiI CCGC 3 cut(s) 154, 156, 640
SspMI CTAG 2 cut(s) 633, 928
StyD4I CCNGG 1 cut(s) 381
StyI CCWWGG 1 cut(s) 105
TaaI ACNGT 3 cut(s) 163, 350, 437
TaiI ACGT 2 cut(s) 171, 345
TaqI TCGA 3 cut(s) 42, 84, 266
TasI AATT 4 cut(s) 273, 390, 507, 727
TauI GCSGC 1 cut(s) 159
Tru1I TTAA 3 cut(s) 12, 276, 453
Tru9I TTAA 3 cut(s) 12, 276, 453
TscAI CASTG 1 cut(s) 780
TseI GCWGC 4 cut(s) 19, 512, 917, 920
TspDTI ATGAA 3 cut(s) 261, 482, 534
TspRI CASTG 1 cut(s) 780
VpaK11BI GGWCC 1 cut(s) 211
VspI ATTAAT 1 cut(s) 276
XceI RCATGY 1 cut(s) 293
XmiI GTMKAC 1 cut(s) 84
XmnI GAANNNNTTC 1 cut(s) 485
XspI CTAG 2 cut(s) 633, 928
ZraI GACGTC 1 cut(s) 169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.