Rw1G038960

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_wichuraiana
Chr1
OG0001532
Physical Location & Seq
Reverse (-)
66482968 .. 66484394
1427 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G038960.1

Sequence Viewer

Length: 1140 bp
ATGCAGAAGAAAGATTTTGTTTGGGTAGATGAACGTGATGATGAGGCAATTGAGCTTGCTTTCAGCAACAAGTTTGAGGTGGGAAGTTTGCAGTCTGGTATGCATCTTGATCATGAGGAGAAACTTGTAACTTATAGTGACTTTGTTGACAAGGAGCTTATACCCTTTTCCATGCTTGCTGTTCTGCAACGCTCAATTCCGTCAATGGTTGATGGCTTGAAGCCTCATCAAAGAAAGGTTCTATTCAGCTCTTTTAAGAGGGACGACTTTATCAAGGAAGAAATAGTTGCCAACTTTGCTAATTATGTGGCTGAACACTCGGCTCGTCCTGTGTGCGAGCCCTCAGCGTACCACCATGATGAGCAGAGTCTTGACAGTACAATCATTGAAATGGCCCAGGCTTATGTTGGCAGCAACAACATTAATCTTCTTTTACCAAGAGGTCTATTTGGAAGCCGCCGATTGGTGAGATACCAAGATTTCATCATGCAATGCAACTTTATTTTGTTCCTATTTCCAAAGGATGATGACAGGCTTCTGGACTACTTGCATGAAGATGGCAAATCTATTGAGCCAACTTGGTATTTACCAATTATCCCAACGGTTCTTGTTAATGGTAGCGAAGGTATTGGGCCTGCTGGGTGGATCTCTTACATCCCTAGTTATAACCCAAGAGACATTGTGGAAAACGTGAAGCGTTTGATTAGTGATGATAGAATGGTGCCCATGGATCCTTGGTACAGAGGCTTTACCGGAACTACTGAGAAAACTGTTACAGATTCTGGCGTGTGCTACAGTACTAGTGGGATCATAAAGAAAGAAGATGAGTCAACACTCAGGATTTCGGAGCTGCCAATTGGTACTTGCATTAAAGATTATTTGGAATTTCTTGACTCTATCTCGGAAGTGAATGGAGAGGCCAAGGATCATTGGATTAAGGATTACGAAGATTTTTCCTACATAGATGTTGATATTCTCATCCACTTGTCTGATACTGTGAAGAGCTTGACAGAAGCCAGTGAAGAGGATCTGTGTAAGAAGTTTAAACTGACAAGTAGCAGAAGCATAAGTGAGATGCACCTGTTTGATCCAACAGGCGAGATTAAGAAATATGACACTCCAGAACAAAGTATGGGTTAA
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

379

Amino Acids

43.42

Weight (kDa)

4.74

Isoelectric Point (pI)

39.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOPRIM_C PF16898 3 - 59 6.8e-08 C-terminal associated domain of TOPRIM
DNA_topoisoIV PF00521 64 - 376 4.2e-66 DNA gyrase/topoisomerase IV, subunit A
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 666
AccB1I GGYRCC 1 cut(s) 721
AciI CCGC 1 cut(s) 457
AclWI GGATC 7 cut(s) 653, 725, 738, 815, 933, 1035, 1082
AcsI RAATTY 1 cut(s) 884
AfaI GTAC 5 cut(s) 350, 379, 740, 799, 862
AfiI CCNNNNNNNGG 1 cut(s) 463
AgsI TTSAA 2 cut(s) 220, 389
AhlI ACTAGT 1 cut(s) 800
AjnI CCWGG 1 cut(s) 396
AluBI AGCT 5 cut(s) 55, 157, 249, 850, 1005
AluI AGCT 5 cut(s) 55, 157, 249, 850, 1005
Alw26I GTCTC 1 cut(s) 669
AlwI GGATC 7 cut(s) 653, 725, 738, 815, 933, 1035, 1082
AlwNI CAGNNNCTG 1 cut(s) 782
AoxI GGCC 3 cut(s) 393, 632, 918
ApeKI GCWGC 2 cut(s) 411, 850
ApoI RAATTY 1 cut(s) 884
AseI ATTAAT 1 cut(s) 423
AspS9I GGNCC 2 cut(s) 394, 632
AsuHPI GGTGA 1 cut(s) 478
BaeGI GKGCMC 1 cut(s) 726
BamHI GGATCC 1 cut(s) 730
BanI GGYRCC 1 cut(s) 721
BanII GRGCYC 1 cut(s) 342
BbvCI CCTCAGC 1 cut(s) 343
BbvI GCAGC 2 cut(s) 423, 837
BccI CCATC 2 cut(s) 206, 551
BciT130I CCWGG 1 cut(s) 398
BclI TGATCA 1 cut(s) 109
BcoDI GTCTC 1 cut(s) 669
BcuI ACTAGT 1 cut(s) 800
BfaI CTAG 2 cut(s) 660, 801
BfmI CTRYAG 1 cut(s) 793
BisI GCNGC 3 cut(s) 412, 457, 851
BlsI GCNGC 3 cut(s) 413, 458, 852
BmcAI AGTACT 1 cut(s) 799
Bme1390I CCNGG 1 cut(s) 398
BmgT120I GGNCC 2 cut(s) 394, 632
BmiI GGNNCC 2 cut(s) 723, 732
BmrFI CCNGG 1 cut(s) 398
BmsI GCATC 2 cut(s) 112, 1065
BpmI CTGGAG 1 cut(s) 1104
Bpu10I CCTNAGC 1 cut(s) 343
BsaJI CCNNGG 4 cut(s) 396, 726, 734, 921
BsaWI WCCGGW 1 cut(s) 752
Bsc4I CCNNNNNNNGG 1 cut(s) 463
Bse1I ACTGG 1 cut(s) 1017
Bse3DI GCAATG 1 cut(s) 497
BseBI CCWGG 1 cut(s) 398
BseDI CCNNGG 4 cut(s) 396, 726, 734, 921
BseGI GGATG 3 cut(s) 529, 654, 978
BseLI CCNNNNNNNGG 1 cut(s) 463
BseMI GCAATG 1 cut(s) 497
BseMII CTCAG 3 cut(s) 357, 753, 850
BseNI ACTGG 1 cut(s) 1017
BseRI GAGGAG 1 cut(s) 131
BseSI GKGCMC 1 cut(s) 726
BseXI GCAGC 2 cut(s) 423, 837
BseYI CCCAGC 1 cut(s) 638
BshFI GGCC 3 cut(s) 395, 634, 920
BshNI GGYRCC 1 cut(s) 721
BsiSI CCGG 1 cut(s) 753
BslFI GGGAC 1 cut(s) 275
BslI CCNNNNNNNGG 1 cut(s) 463
BsmAI GTCTC 1 cut(s) 669
BsmFI GGGAC 1 cut(s) 275
BsnI GGCC 3 cut(s) 395, 634, 920
Bsp1286I GDGCHC 2 cut(s) 342, 726
Bsp143I GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
Bsp19I CCATGG 1 cut(s) 726
BspACI CCGC 1 cut(s) 457
BspANI GGCC 3 cut(s) 395, 634, 920
BspCNI CTCAG 3 cut(s) 356, 754, 849
BspHI TCATGA 1 cut(s) 112
BspLI GGNNCC 2 cut(s) 723, 732
BspPI GGATC 7 cut(s) 653, 725, 738, 815, 933, 1035, 1082
BspQI GCTCTTC 1 cut(s) 995
BspT107I GGYRCC 1 cut(s) 721
BsrDI GCAATG 1 cut(s) 497
BsrI ACTGG 1 cut(s) 1017
BssECI CCNNGG 4 cut(s) 396, 726, 734, 921
BssMI GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
BssT1I CCWWGG 3 cut(s) 726, 734, 921
Bst2UI CCWGG 1 cut(s) 398
Bst4CI ACNGT 5 cut(s) 377, 604, 772, 797, 997
Bst6I CTCTTC 2 cut(s) 995, 1017
BstC8I GCNNGC 4 cut(s) 57, 177, 338, 636
BstDEI CTNAG 3 cut(s) 343, 762, 836
BstDSI CCRYGG 1 cut(s) 726
BstF5I GGATG 3 cut(s) 529, 654, 978
BstKTI GATC 7 cut(s) 112, 648, 733, 810, 928, 1030, 1090
BstMAI GTCTC 1 cut(s) 669
BstMBI GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
BstMWI GCNNNNNNNGC 1 cut(s) 296
BstNI CCWGG 1 cut(s) 398
BstSCI CCNGG 1 cut(s) 396
BstSFI CTRYAG 1 cut(s) 793
BstSLI GKGCMC 1 cut(s) 726
BstV1I GCAGC 2 cut(s) 423, 837
BstX2I RGATCY 3 cut(s) 645, 730, 1027
BstYI RGATCY 3 cut(s) 645, 730, 1027
BsuRI GGCC 3 cut(s) 395, 634, 920
BtgI CCRYGG 1 cut(s) 726
BtsCI GGATG 3 cut(s) 529, 654, 978
BtsIMutI CAGTG 1 cut(s) 1024
Cac8I GCNNGC 4 cut(s) 57, 177, 338, 636
CaiI CAGNNNCTG 1 cut(s) 782
CciI TCATGA 1 cut(s) 112
Cfr13I GGNCC 2 cut(s) 394, 632
Csp6I GTAC 5 cut(s) 349, 378, 739, 798, 861
CviAII CATG 6 cut(s) 113, 172, 356, 487, 551, 727
CviQI GTAC 5 cut(s) 349, 378, 739, 798, 861
DdeI CTNAG 3 cut(s) 343, 762, 836
DpnI GATC 7 cut(s) 111, 647, 732, 809, 927, 1029, 1089
DpnII GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
DraI TTTAAA 1 cut(s) 1045
Eam1104I CTCTTC 2 cut(s) 995, 1017
EarI CTCTTC 2 cut(s) 995, 1017
Eco130I CCWWGG 3 cut(s) 726, 734, 921
Eco24I GRGCYC 1 cut(s) 342
EcoRII CCWGG 1 cut(s) 396
EcoT14I CCWWGG 3 cut(s) 726, 734, 921
EcoT22I ATGCAT 1 cut(s) 105
EcoT38I GRGCYC 1 cut(s) 342
ErhI CCWWGG 3 cut(s) 726, 734, 921
FaeI CATG 6 cut(s) 116, 175, 359, 490, 554, 730
FaqI GGGAC 1 cut(s) 275
FatI CATG 6 cut(s) 112, 171, 355, 486, 550, 726
FbaI TGATCA 1 cut(s) 109
Fnu4HI GCNGC 3 cut(s) 412, 457, 851
FokI GGATG 3 cut(s) 536, 641, 965
FriOI GRGCYC 1 cut(s) 342
Fsp4HI GCNGC 3 cut(s) 412, 457, 851
FspBI CTAG 2 cut(s) 660, 801
GluI GCNGC 3 cut(s) 412, 457, 851
GsaI CCCAGC 1 cut(s) 642
GsuI CTGGAG 1 cut(s) 1104
HaeIII GGCC 3 cut(s) 395, 634, 920
HapII CCGG 1 cut(s) 753
Hin1II CATG 6 cut(s) 116, 175, 359, 490, 554, 730
HincII GTYRAC 2 cut(s) 148, 831
HindII GTYRAC 2 cut(s) 148, 831
HinfI GANTC 4 cut(s) 367, 779, 827, 893
HpaII CCGG 1 cut(s) 753
HphI GGTGA 1 cut(s) 478
Hpy166II GTNNAC 2 cut(s) 148, 831
Hpy188I TCNGA 3 cut(s) 847, 904, 991
Hpy188III TCNNGA 7 cut(s) 107, 113, 371, 539, 838, 890, 1121
Hpy8I GTNNAC 2 cut(s) 148, 831
HpyAV CCTTC 1 cut(s) 617
HpyCH4III ACNGT 5 cut(s) 377, 604, 772, 797, 997
HpyCH4IV ACGT 2 cut(s) 34, 690
HpyCH4V TGCA 9 cut(s) 4, 91, 103, 187, 490, 495, 550, 867, 1078
HpyF10VI GCNNNNNNNGC 1 cut(s) 296
HpyF3I CTNAG 3 cut(s) 343, 762, 836
HpySE526I ACGT 2 cut(s) 34, 690
Hsp92II CATG 6 cut(s) 116, 175, 359, 490, 554, 730
Ksp22I TGATCA 1 cut(s) 109
Kzo9I GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
LguI GCTCTTC 1 cut(s) 995
LmnI GCTCC 2 cut(s) 154, 847
Lsp1109I GCAGC 2 cut(s) 423, 837
LweI GCATC 2 cut(s) 112, 1065
MaeI CTAG 2 cut(s) 660, 801
MaeII ACGT 2 cut(s) 34, 690
MaeIII GTNAC 3 cut(s) 127, 137, 772
MalI GATC 7 cut(s) 111, 647, 732, 809, 927, 1029, 1089
MboI GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
MboII GAAGA 8 cut(s) 19, 290, 419, 566, 833, 959, 1012, 1034
MfeI CAATTG 2 cut(s) 48, 855
MflI RGATCY 3 cut(s) 645, 730, 1027
MhlI GDGCHC 2 cut(s) 342, 726
MluCI AATT 6 cut(s) 48, 195, 301, 591, 855, 884
MlyI GAGTC 3 cut(s) 376, 836, 887
MmeI TCCRAC 1 cut(s) 1115
Mph1103I ATGCAT 1 cut(s) 105
MseI TTAA 8 cut(s) 255, 423, 612, 870, 936, 1044, 1104, 1138
MslI CAYNNNNRTG 3 cut(s) 357, 389, 555
MspI CCGG 1 cut(s) 753
MspR9I CCNGG 1 cut(s) 398
MssI GTTTAAAC 1 cut(s) 1045
MunI CAATTG 2 cut(s) 48, 855
MvaI CCWGG 1 cut(s) 398
MwoI GCNNNNNNNGC 1 cut(s) 296
NcoI CCATGG 1 cut(s) 726
NdeII GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
NlaIII CATG 6 cut(s) 116, 175, 359, 490, 554, 730
NlaIV GGNNCC 2 cut(s) 723, 732
NmeAIII GCCGAG 1 cut(s) 299
NmuCI GTSAC 1 cut(s) 137
NsiI ATGCAT 1 cut(s) 105
PagI TCATGA 1 cut(s) 112
PciSI GCTCTTC 1 cut(s) 995
PfeI GAWTC 1 cut(s) 779
PkrI GCNGC 3 cut(s) 413, 458, 852
PleI GAGTC 3 cut(s) 375, 835, 887
PmeI GTTTAAAC 1 cut(s) 1045
PpsI GAGTC 3 cut(s) 375, 835, 887
PshBI ATTAAT 1 cut(s) 423
PsiI TTATAA 1 cut(s) 666
Psp6I CCWGG 1 cut(s) 396
PspFI CCCAGC 1 cut(s) 638
PspGI CCWGG 1 cut(s) 396
PspN4I GGNNCC 2 cut(s) 723, 732
PspPI GGNCC 2 cut(s) 394, 632
PstNI CAGNNNCTG 1 cut(s) 782
PsuI RGATCY 3 cut(s) 645, 730, 1027
RsaI GTAC 5 cut(s) 350, 379, 740, 799, 862
RsaNI GTAC 5 cut(s) 349, 378, 739, 798, 861
RseI CAYNNNNRTG 3 cut(s) 357, 389, 555
SapI GCTCTTC 1 cut(s) 995
SaqAI TTAA 8 cut(s) 255, 423, 612, 870, 936, 1044, 1104, 1138
SatI GCNGC 3 cut(s) 412, 457, 851
Sau3AI GATC 7 cut(s) 109, 645, 730, 807, 925, 1027, 1087
Sau96I GGNCC 2 cut(s) 394, 632
ScaI AGTACT 1 cut(s) 799
SchI GAGTC 3 cut(s) 376, 836, 887
ScrFI CCNGG 1 cut(s) 398
SduI GDGCHC 2 cut(s) 342, 726
SfaNI GCATC 2 cut(s) 112, 1065
SfcI CTRYAG 1 cut(s) 793
SmiMI CAYNNNNRTG 3 cut(s) 357, 389, 555
SpeI ACTAGT 1 cut(s) 800
Sse9I AATT 6 cut(s) 48, 195, 301, 591, 855, 884
SsiI CCGC 1 cut(s) 457
SspMI CTAG 2 cut(s) 660, 801
StyD4I CCNGG 1 cut(s) 396
StyI CCWWGG 3 cut(s) 726, 734, 921
TaaI ACNGT 5 cut(s) 377, 604, 772, 797, 997
TaiI ACGT 2 cut(s) 37, 693
TasI AATT 6 cut(s) 48, 195, 301, 591, 855, 884
TatI WGTACW 2 cut(s) 377, 797
TauI GCSGC 1 cut(s) 459
TfiI GAWTC 1 cut(s) 779
Tru1I TTAA 8 cut(s) 255, 423, 612, 870, 936, 1044, 1104, 1138
Tru9I TTAA 8 cut(s) 255, 423, 612, 870, 936, 1044, 1104, 1138
TscAI CASTG 1 cut(s) 1024
TseFI GTSAC 1 cut(s) 137
TseI GCWGC 2 cut(s) 411, 850
Tsp45I GTSAC 1 cut(s) 137
TspDTI ATGAA 3 cut(s) 45, 472, 567
TspGWI ACGGA 1 cut(s) 189
TspRI CASTG 1 cut(s) 1024
VspI ATTAAT 1 cut(s) 423
XapI RAATTY 1 cut(s) 884
XcmI CCANNNNNNNNNTGG 1 cut(s) 404
XspI CTAG 2 cut(s) 660, 801
ZrmI AGTACT 1 cut(s) 799
Zsp2I ATGCAT 1 cut(s) 105
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.