Rh1BG403000

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_samantha
Chr1B
OG0001532
Physical Location & Seq
Reverse (-)
52644091 .. 52645944
1854 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG403000.1

Sequence Viewer

Length: 1176 bp
ATGGCGGTGGAGGTCCCGGAGGACGCCCCCGCCCCGGGAGTCGACGGCGACATCGCCGCAGACCTCGATATGCAAGTCTCAGACGACGACGACGACACCTCAGACGGCGAACGCGACGACGAGAACGGCACCTCAGGCGATGAGAACGACGACATCGAGATCACAGAAGCTGACGAGAACGACGACGACGCCGAGAATCCAGACGACGACGACGACGGCGACGAGCTCATCCACGAAGTCGACAACGACGAGTCGTCGGAGGAAGAGGTGGAGTGCGATGAGACGTGGCTAGAGGAAGCTGAATTCGCCGGAGGGCGCAAGTCCCAAGAGTGTACTTTGATTTTGACACAAGGAATGTCAACTTCAAGTCTCGCACTAAACGACGTTGTTTCCATGAAGGGTTGGGAAAGGTATGGTGTTTACCCACTGGTAGGTGAATTGCTGAACGTGAGAGAAGCTGGCTTCTTTGAGGTCATGTATAATCCGATTTTCAAGACGATTATGAAGACTCTCGGACTTGAGCTAGATGAAGAATTTACCAGTACCGAATCTTTGAGATATGGCCGGGTCGTTATTATGACTGCTGAACAGGATCATTATGGTAGTTACATCAAAGGGTTGTTGATCAATTTTCTTCATATGTTCTGGCCATCATTGCTAAAGCTTCCGTCATTTTTGGCCGAGCTTATAGCTCCTCTTACCATCAAGGCAACAAAAGAGAGTGAGGAAGGGAAAGGAAAACGTGTATTCTATTCCCTGCAAGAGTATGAAGCTTGGAGGGAAAGTTTGAGGGGCAATGCGAGTGGCTGGGCCATTGAGAAGGATGTAGCATGCGTTTATGATGAAGGGAAGGATTATTTTGAAAATCTTTTAATGCAGAAGAAAGATTTTGTTTGGGTAGATGAACGTGATGATGAGGCAATTGAGCTTGCTTTCAGCAAGAAGTTTGAGGTGGGAAGTTTGCAGTCTGGTATGCATCTTGATCATGAGGAGAAACTTGTAACTTATAGTGACTTTGTTGACAAGGAGCTTATACCCTTTTCCATGCTTGCTGTTCTGCAACGCTCAATTCCGTCAATGGTTGATGGCTTGAAGCCTCATCAAAGAAAGGTTCTATTCAGCTCTTTTAAGAGGGACGACTTTATCAAGGAAGAATTTTGGAAAAGCCTCGCCTGA
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

391

Amino Acids

44.37

Weight (kDa)

4.16

Isoelectric Point (pI)

39.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOPRIM_C PF16898 235 - 350 8.1e-19 C-terminal associated domain of TOPRIM
DNA_topoisoIV PF00521 355 - 378 6.2e-07 DNA gyrase/topoisomerase IV, subunit A
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)
AccB1I GGYRCC 1 cut(s) 128
AccI GTMKAC 2 cut(s) 42, 240
AccII CGCG 1 cut(s) 114
AciI CCGC 3 cut(s) 5, 30, 57
AclWI GGATC 1 cut(s) 600
AcoI YGGCCR 3 cut(s) 562, 647, 678
AcsI RAATTY 3 cut(s) 302, 533, 1154
AcyI GRCGYC 2 cut(s) 24, 189
AfaI GTAC 2 cut(s) 334, 544
AfiI CCNNNNNNNGG 3 cut(s) 34, 35, 431
AflIII ACRYGT 1 cut(s) 742
AgsI TTSAA 4 cut(s) 366, 493, 863, 1093
AhdI GACNNNNNGTC 1 cut(s) 253
AjiI CACGTC 1 cut(s) 285
Alw21I GWGCWC 1 cut(s) 228
Alw26I GTCTC 3 cut(s) 82, 275, 374
AlwI GGATC 1 cut(s) 600
AlwNI CAGNNNCTG 1 cut(s) 170
Ama87I CYCGRG 1 cut(s) 34
AoxI GGCC 4 cut(s) 562, 647, 678, 810
ApoI RAATTY 3 cut(s) 302, 533, 1154
AspLEI GCGC 1 cut(s) 318
AspS9I GGNCC 2 cut(s) 13, 810
AsuC2I CCSGG 4 cut(s) 17, 35, 36, 566
AsuHPI GGTGA 1 cut(s) 446
AvaI CYCGRG 1 cut(s) 34
AvaII GGWCC 1 cut(s) 13
AxyI CCTNAGG 1 cut(s) 133
BalI TGGCCA 1 cut(s) 649
BanI GGYRCC 1 cut(s) 128
BanII GRGCYC 1 cut(s) 228
BbsI GAAGAC 1 cut(s) 512
Bbv12I GWGCWC 1 cut(s) 228
BccI CCATC 3 cut(s) 658, 710, 1079
BceAI ACGGC 4 cut(s) 61, 121, 142, 232
BclI TGATCA 2 cut(s) 624, 982
BcnI CCSGG 4 cut(s) 17, 35, 36, 566
BcoDI GTCTC 3 cut(s) 82, 275, 374
BfaI CTAG 2 cut(s) 290, 524
BisI GCNGC 1 cut(s) 57
BlsI GCNGC 1 cut(s) 58
Bme1390I CCNGG 4 cut(s) 17, 35, 36, 566
Bme18I GGWCC 1 cut(s) 13
BmeRI GACNNNNNGTC 1 cut(s) 253
BmeT110I CYCGRG 1 cut(s) 34
BmgBI CACGTC 1 cut(s) 285
BmgT120I GGNCC 2 cut(s) 13, 810
BmiI GGNNCC 2 cut(s) 15, 130
BmrFI CCNGG 4 cut(s) 17, 35, 36, 566
BmsI GCATC 1 cut(s) 985
BpiI GAAGAC 1 cut(s) 512
BpuEI CTTGAG 1 cut(s) 539
BpuMI CCSGG 4 cut(s) 17, 35, 36, 566
BsaHI GRCGYC 2 cut(s) 24, 189
BsaJI CCNNGG 2 cut(s) 33, 34
BsaXI ACNNNNNCTCC 2 cut(s) 769, 799
Bsc4I CCNNNNNNNGG 3 cut(s) 34, 35, 431
Bse1I ACTGG 2 cut(s) 432, 540
Bse21I CCTNAGG 1 cut(s) 133
Bse3DI GCAATG 2 cut(s) 653, 802
BseDI CCNNGG 2 cut(s) 33, 34
BseGI GGATG 2 cut(s) 228, 829
BseLI CCNNNNNNNGG 3 cut(s) 34, 35, 431
BseMI GCAATG 2 cut(s) 653, 802
BseMII CTCAG 3 cut(s) 93, 114, 147
BseNI ACTGG 2 cut(s) 432, 540
BseRI GAGGAG 2 cut(s) 684, 1004
BseYI CCCAGC 1 cut(s) 807
Bsh1236I CGCG 1 cut(s) 114
BshFI GGCC 4 cut(s) 564, 649, 680, 812
BshNI GGYRCC 1 cut(s) 128
BsiHKAI GWGCWC 1 cut(s) 228
BsiHKCI CYCGRG 1 cut(s) 34
BsiSI CCGG 4 cut(s) 17, 35, 309, 565
BslFI GGGAC 2 cut(s) 307, 1148
BslI CCNNNNNNNGG 3 cut(s) 34, 35, 431
BsmAI GTCTC 3 cut(s) 82, 275, 374
BsmBI CGTCTC 1 cut(s) 275
BsmFI GGGAC 2 cut(s) 307, 1148
BsnI GGCC 4 cut(s) 564, 649, 680, 812
BsoBI CYCGRG 1 cut(s) 34
Bsp1286I GDGCHC 1 cut(s) 228
Bsp143I GATC 4 cut(s) 159, 592, 624, 982
BspACI CCGC 3 cut(s) 5, 30, 57
BspANI GGCC 4 cut(s) 564, 649, 680, 812
BspCNI CTCAG 3 cut(s) 92, 113, 146
BspFNI CGCG 1 cut(s) 114
BspHI TCATGA 1 cut(s) 985
BspLI GGNNCC 2 cut(s) 15, 130
BspPI GGATC 1 cut(s) 600
BspT107I GGYRCC 1 cut(s) 128
BsrDI GCAATG 2 cut(s) 653, 802
BsrI ACTGG 2 cut(s) 432, 540
BssECI CCNNGG 2 cut(s) 33, 34
BssMI GATC 4 cut(s) 159, 592, 624, 982
BssNI GRCGYC 2 cut(s) 24, 189
Bst6I CTCTTC 1 cut(s) 258
BstACI GRCGYC 2 cut(s) 24, 189
BstC8I GCNNGC 4 cut(s) 460, 832, 930, 1050
BstDEI CTNAG 3 cut(s) 79, 100, 133
BstF5I GGATG 2 cut(s) 228, 829
BstFNI CGCG 1 cut(s) 114
BstHHI GCGC 1 cut(s) 318
BstKTI GATC 4 cut(s) 162, 595, 627, 985
BstMAI GTCTC 3 cut(s) 82, 275, 374
BstMBI GATC 4 cut(s) 159, 592, 624, 982
BstMWI GCNNNNNNNGC 3 cut(s) 135, 305, 655
BstNSI RCATGY 1 cut(s) 834
BstSCI CCNGG 4 cut(s) 15, 33, 34, 564
BstUI CGCG 1 cut(s) 114
BstV2I GAAGAC 1 cut(s) 512
Bsu36I CCTNAGG 1 cut(s) 133
BsuRI GGCC 4 cut(s) 564, 649, 680, 812
BtgZI GCGATG 3 cut(s) 37, 153, 291
BtrI CACGTC 1 cut(s) 285
BtsCI GGATG 2 cut(s) 228, 829
BtsIMutI CAGTG 1 cut(s) 425
Cac8I GCNNGC 4 cut(s) 460, 832, 930, 1050
CaiI CAGNNNCTG 1 cut(s) 170
CciI TCATGA 1 cut(s) 985
CfoI GCGC 1 cut(s) 318
Cfr13I GGNCC 2 cut(s) 13, 810
Cfr9I CCCGGG 1 cut(s) 34
CseI GACGC 2 cut(s) 32, 197
Csp6I GTAC 2 cut(s) 333, 543
CspCI CAANNNNNGTGG 2 cut(s) 784, 819
CviAII CATG 5 cut(s) 394, 475, 831, 986, 1045
CviQI GTAC 2 cut(s) 333, 543
DdeI CTNAG 3 cut(s) 79, 100, 133
DpnI GATC 4 cut(s) 161, 594, 626, 984
DpnII GATC 4 cut(s) 159, 592, 624, 982
DriI GACNNNNNGTC 1 cut(s) 253
EaeI YGGCCR 3 cut(s) 562, 647, 678
Eam1104I CTCTTC 1 cut(s) 258
Eam1105I GACNNNNNGTC 1 cut(s) 253
EarI CTCTTC 1 cut(s) 258
Ecl136II GAGCTC 1 cut(s) 226
Eco24I GRGCYC 1 cut(s) 228
Eco47I GGWCC 1 cut(s) 13
Eco53kI GAGCTC 1 cut(s) 226
Eco81I CCTNAGG 1 cut(s) 133
Eco88I CYCGRG 1 cut(s) 34
EcoICRI GAGCTC 1 cut(s) 226
EcoO109I RGGNCCY 1 cut(s) 13
EcoRI GAATTC 1 cut(s) 302
EcoT22I ATGCAT 1 cut(s) 978
EcoT38I GRGCYC 1 cut(s) 228
Esp3I CGTCTC 1 cut(s) 275
FaeI CATG 5 cut(s) 397, 478, 834, 989, 1048
FaqI GGGAC 2 cut(s) 307, 1148
FatI CATG 5 cut(s) 393, 474, 830, 985, 1044
FauI CCCGC 1 cut(s) 37
FauNDI CATATG 1 cut(s) 639
FbaI TGATCA 2 cut(s) 624, 982
FblI GTMKAC 2 cut(s) 42, 240
Fnu4HI GCNGC 1 cut(s) 57
FokI GGATG 2 cut(s) 215, 836
FriOI GRGCYC 1 cut(s) 228
Fsp4HI GCNGC 1 cut(s) 57
FspBI CTAG 2 cut(s) 290, 524
GlaI GCGC 1 cut(s) 317
GluI GCNGC 1 cut(s) 57
GsaI CCCAGC 1 cut(s) 811
HaeIII GGCC 4 cut(s) 564, 649, 680, 812
HapII CCGG 4 cut(s) 17, 35, 309, 565
HgaI GACGC 2 cut(s) 32, 197
HhaI GCGC 1 cut(s) 318
Hin1I GRCGYC 2 cut(s) 24, 189
Hin1II CATG 5 cut(s) 397, 478, 834, 989, 1048
Hin6I GCGC 1 cut(s) 316
HinP1I GCGC 1 cut(s) 316
HincII GTYRAC 4 cut(s) 43, 241, 360, 1021
HindII GTYRAC 4 cut(s) 43, 241, 360, 1021
HindIII AAGCTT 2 cut(s) 662, 771
HinfI GANTC 5 cut(s) 39, 196, 251, 508, 548
HpaII CCGG 4 cut(s) 17, 35, 309, 565
HphI GGTGA 1 cut(s) 446
Hpy166II GTNNAC 6 cut(s) 43, 241, 333, 360, 421, 1021
Hpy188I TCNGA 5 cut(s) 82, 103, 259, 486, 515
Hpy188III TCNNGA 5 cut(s) 157, 200, 493, 980, 986
Hpy8I GTNNAC 6 cut(s) 43, 241, 333, 360, 421, 1021
HpyAV CCTTC 5 cut(s) 391, 722, 814, 839, 844
HpyCH4IV ACGT 5 cut(s) 284, 384, 447, 742, 907
HpyCH4V TGCA 6 cut(s) 73, 760, 877, 964, 976, 1060
HpyF10VI GCNNNNNNNGC 3 cut(s) 135, 305, 655
HpyF3I CTNAG 3 cut(s) 79, 100, 133
HpySE526I ACGT 5 cut(s) 284, 384, 447, 742, 907
Hsp92I GRCGYC 2 cut(s) 24, 189
Hsp92II CATG 5 cut(s) 397, 478, 834, 989, 1048
HspAI GCGC 1 cut(s) 316
Ksp22I TGATCA 2 cut(s) 624, 982
Kzo9I GATC 4 cut(s) 159, 592, 624, 982
LmnI GCTCC 2 cut(s) 697, 1027
LweI GCATC 1 cut(s) 985
MaeI CTAG 2 cut(s) 290, 524
MaeII ACGT 5 cut(s) 284, 384, 447, 742, 907
MaeIII GTNAC 3 cut(s) 605, 1000, 1010
MalI GATC 4 cut(s) 161, 594, 626, 984
MboI GATC 4 cut(s) 159, 592, 624, 982
MboII GAAGA 6 cut(s) 275, 517, 542, 626, 892, 1163
MfeI CAATTG 1 cut(s) 921
MhlI GDGCHC 1 cut(s) 228
MlsI TGGCCA 1 cut(s) 649
MluCI AATT 7 cut(s) 302, 437, 533, 628, 921, 1068, 1154
MluNI TGGCCA 1 cut(s) 649
MlyI GAGTC 3 cut(s) 48, 260, 502
MmeI TCCRAC 1 cut(s) 237
Mox20I TGGCCA 1 cut(s) 649
Mph1103I ATGCAT 1 cut(s) 978
MscI TGGCCA 1 cut(s) 649
MseI TTAA 2 cut(s) 872, 1128
Msp20I TGGCCA 1 cut(s) 649
MspI CCGG 4 cut(s) 17, 35, 309, 565
MspR9I CCNGG 4 cut(s) 17, 35, 36, 566
MunI CAATTG 1 cut(s) 921
MvnI CGCG 1 cut(s) 114
MwoI GCNNNNNNNGC 3 cut(s) 135, 305, 655
NciI CCSGG 4 cut(s) 17, 35, 36, 566
NdeI CATATG 1 cut(s) 639
NdeII GATC 4 cut(s) 159, 592, 624, 982
NlaIII CATG 5 cut(s) 397, 478, 834, 989, 1048
NlaIV GGNNCC 2 cut(s) 15, 130
NmeAIII GCCGAG 2 cut(s) 217, 706
NmuCI GTSAC 1 cut(s) 1010
NsiI ATGCAT 1 cut(s) 978
NspI RCATGY 1 cut(s) 834
PaeI GCATGC 1 cut(s) 834
PagI TCATGA 1 cut(s) 985
PfeI GAWTC 2 cut(s) 196, 548
PfoI TCCNGGA 1 cut(s) 15
PkrI GCNGC 1 cut(s) 58
PleI GAGTC 3 cut(s) 47, 259, 502
PpsI GAGTC 3 cut(s) 47, 259, 502
PpuMI RGGWCCY 1 cut(s) 13
Psp124BI GAGCTC 1 cut(s) 228
Psp5II RGGWCCY 1 cut(s) 13
PspFI CCCAGC 1 cut(s) 807
PspN4I GGNNCC 2 cut(s) 15, 130
PspPI GGNCC 2 cut(s) 13, 810
PspPPI RGGWCCY 1 cut(s) 13
PstNI CAGNNNCTG 1 cut(s) 170
RsaI GTAC 2 cut(s) 334, 544
RsaNI GTAC 2 cut(s) 333, 543
SacI GAGCTC 1 cut(s) 228
SalI GTCGAC 2 cut(s) 41, 239
SaqAI TTAA 2 cut(s) 872, 1128
SatI GCNGC 1 cut(s) 57
Sau3AI GATC 4 cut(s) 159, 592, 624, 982
Sau96I GGNCC 2 cut(s) 13, 810
SchI GAGTC 3 cut(s) 48, 260, 502
ScrFI CCNGG 4 cut(s) 17, 35, 36, 566
SduI GDGCHC 1 cut(s) 228
SfaNI GCATC 1 cut(s) 985
SinI GGWCC 1 cut(s) 13
SmaI CCCGGG 1 cut(s) 36
SmlI CTYRAG 1 cut(s) 518
SmoI CTYRAG 1 cut(s) 518
SphI GCATGC 1 cut(s) 834
Sse9I AATT 7 cut(s) 302, 437, 533, 628, 921, 1068, 1154
SsiI CCGC 3 cut(s) 5, 30, 57
SspMI CTAG 2 cut(s) 290, 524
SstI GAGCTC 1 cut(s) 228
StyD4I CCNGG 4 cut(s) 15, 33, 34, 564
TaiI ACGT 5 cut(s) 287, 387, 450, 745, 910
TaqI TCGA 4 cut(s) 42, 66, 156, 240
TasI AATT 7 cut(s) 302, 437, 533, 628, 921, 1068, 1154
TatI WGTACW 1 cut(s) 332
TauI GCSGC 1 cut(s) 59
TfiI GAWTC 2 cut(s) 196, 548
Tru1I TTAA 2 cut(s) 872, 1128
Tru9I TTAA 2 cut(s) 872, 1128
TscAI CASTG 1 cut(s) 432
TseFI GTSAC 1 cut(s) 1010
Tsp45I GTSAC 1 cut(s) 1010
TspDTI ATGAA 7 cut(s) 410, 518, 543, 626, 783, 858, 918
TspGWI ACGGA 2 cut(s) 657, 1062
TspMI CCCGGG 1 cut(s) 34
TspRI CASTG 1 cut(s) 432
VpaK11BI GGWCC 1 cut(s) 13
XapI RAATTY 3 cut(s) 302, 533, 1154
XceI RCATGY 1 cut(s) 834
XmaI CCCGGG 1 cut(s) 34
XmiI GTMKAC 2 cut(s) 42, 240
XspI CTAG 2 cut(s) 290, 524
Zsp2I ATGCAT 1 cut(s) 978
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.