Rw3G004140

Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles. Relaxes both positive and negative superturns and exhibits a strong decatenase activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0006264
Physical Location & Seq
Reverse (-)
3584054 .. 3585099
1046 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G004140.1

Sequence Viewer

Length: 1011 bp
ATGTCTAAGGAAGTGATTAAAATAAGACTATATGAGCTTTTGTCGGAGCAGGAAAAACAGGGATATGGGTACCGTTTTGAATTGGAAAAGGAAAAAGAAATTTTCTTTGTTGAAGAGTTAGAATGCTATGTATTGAAAGGCCGAACCACCTACTACTGCGAATATGATAACGAACAAACCAGGAACGTATTTATTAGGATGGATTGTCTTCTTGTTCTGATATACAAAATTTTAATGGAAGACATGACGGTCAACATACGTTGGGTTCAGTATGCATTTAGAGACATATTTGCCAATACTAACCAAGTTGACTATGTGTTGGACTACATATGTAAAAGGATAGGCTGCAACAGGGACAGCTTAAATATCTTTGCATTGGCTAAAGGGAGGATTGCTGGTGATATTAGTTTTAAAGGCACCACCAAAGGAGGAAGAAAGCCTCGTGATGTAACTAATAGGCTCGAGTTTGATACCTCGAGCAAGGAAGAGCTCTTGCTCATATTGGTTGTTGAAAAGGACACAATTTTTCTAAGACTCGTGGAGGAAAAAATTCATAAGAGATTCCGTTGCATTATTATCACCGGTTGCGGAATGCCAAATGTTGCAACTCGGACTCTCTTAAGAAAGATGCAGCGGAAGTTAAATCTTCCAGTAGTTGCCCTTGGAGATCACAATGCCGGTGGCTTTAATATTTATTTGACCTATTTGTGCGGGAGTGAGAATATGACGTACGACTCCTTAAACTTAAGCACACCAGATATTAAGTGGTTGGGTTTGAGTCCTTCAGACCTCCTCGAACATGATATACCCAATGGGAATGAGAAGGTGCAAGGACTTGAAACAATCATGAAAAAGGATTTTGTCAAGAAAACTCCGAAATTGGTCGAGGAGGTAAGAAAAATGGAAACTAAAGTCGACATTGAGGGTATGATGAGAAAGCACCTCAAATATTTGACCGAGATATATCTCCCACTAAAATTCCAAAGGTTGGGCATGAGTGATTCGGTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04113 map04113
Pfam Domains
Protein Families
TP6A_N

Protein Analysis

336

Amino Acids

39.25

Weight (kDa)

8.45

Isoelectric Point (pI)

37.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 167 - 326 6.2e-45 Topoisomerase 6 subunit A/Spo11, Toprim domain
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)
AasI GACNNNNNNGTC 1 cut(s) 248
Acc65I GGTACC 1 cut(s) 69
AccB1I GGYRCC 2 cut(s) 69, 416
AccB7I CCANNNNNTGG 1 cut(s) 988
AccI GTMKAC 1 cut(s) 915
AciI CCGC 3 cut(s) 588, 634, 711
AcsI RAATTY 4 cut(s) 99, 228, 549, 977
AcuI CTGAAG 1 cut(s) 768
AfaI GTAC 2 cut(s) 71, 731
AfiI CCNNNNNNNGG 1 cut(s) 988
AflII CTTAAG 2 cut(s) 619, 745
AgeI ACCGGT 1 cut(s) 581
AgsI TTSAA 5 cut(s) 80, 113, 136, 512, 839
AjnI CCWGG 1 cut(s) 179
AluBI AGCT 3 cut(s) 37, 360, 490
AluI AGCT 3 cut(s) 37, 360, 490
Alw21I GWGCWC 1 cut(s) 492
Alw26I GTCTC 1 cut(s) 276
Ama87I CYCGRG 2 cut(s) 461, 475
AoxI GGCC 1 cut(s) 139
ApeKI GCWGC 2 cut(s) 345, 631
ApoI RAATTY 4 cut(s) 99, 228, 549, 977
AsiGI ACCGGT 1 cut(s) 581
Asp700I GAANNNNTTC 1 cut(s) 549
Asp718I GGTACC 1 cut(s) 69
AsuHPI GGTGA 2 cut(s) 410, 571
AvaI CYCGRG 2 cut(s) 461, 475
BanI GGYRCC 2 cut(s) 69, 416
BanII GRGCYC 1 cut(s) 492
BauI CACGAG 2 cut(s) 441, 536
BbsI GAAGAC 2 cut(s) 200, 246
Bbv12I GWGCWC 1 cut(s) 492
BbvI GCAGC 2 cut(s) 332, 643
BccI CCATC 1 cut(s) 193
BciT130I CCWGG 1 cut(s) 181
BcoDI GTCTC 1 cut(s) 276
BfrI CTTAAG 2 cut(s) 619, 745
BisI GCNGC 2 cut(s) 346, 632
BlsI GCNGC 2 cut(s) 347, 633
Bme1390I CCNGG 1 cut(s) 181
BmeT110I CYCGRG 2 cut(s) 461, 475
BmiI GGNNCC 2 cut(s) 71, 418
BmrFI CCNGG 1 cut(s) 181
BmsI GCATC 1 cut(s) 618
BpiI GAAGAC 2 cut(s) 200, 246
BsaJI CCNNGG 1 cut(s) 661
BsaWI WCCGGW 1 cut(s) 581
Bsc4I CCNNNNNNNGG 1 cut(s) 988
Bse118I RCCGGY 2 cut(s) 581, 677
Bse1I ACTGG 1 cut(s) 650
BseBI CCWGG 1 cut(s) 181
BseDI CCNNGG 1 cut(s) 661
BseGI GGATG 1 cut(s) 204
BseLI CCNNNNNNNGG 1 cut(s) 988
BseNI ACTGG 1 cut(s) 650
BseRI GAGGAG 2 cut(s) 782, 902
BseXI GCAGC 2 cut(s) 332, 643
BshFI GGCC 1 cut(s) 141
BshNI GGYRCC 2 cut(s) 69, 416
BshTI ACCGGT 1 cut(s) 581
BsiHKAI GWGCWC 1 cut(s) 492
BsiHKCI CYCGRG 2 cut(s) 461, 475
BsiSI CCGG 2 cut(s) 582, 678
BsiWI CGTACG 1 cut(s) 729
BslFI GGGAC 1 cut(s) 368
BslI CCNNNNNNNGG 1 cut(s) 988
BsmAI GTCTC 1 cut(s) 276
BsmFI GGGAC 1 cut(s) 368
BsmI GAATGC 2 cut(s) 128, 597
BsnI GGCC 1 cut(s) 141
BsoBI CYCGRG 2 cut(s) 461, 475
Bsp1286I GDGCHC 1 cut(s) 492
Bsp143I GATC 1 cut(s) 667
BspACI CCGC 3 cut(s) 588, 634, 711
BspANI GGCC 1 cut(s) 141
BspHI TCATGA 1 cut(s) 846
BspLI GGNNCC 2 cut(s) 71, 418
BspQI GCTCTTC 1 cut(s) 480
BspT107I GGYRCC 2 cut(s) 69, 416
BspTI CTTAAG 2 cut(s) 619, 745
BsrFI RCCGGY 2 cut(s) 581, 677
BsrI ACTGG 1 cut(s) 650
BssAI RCCGGY 2 cut(s) 581, 677
BssECI CCNNGG 1 cut(s) 661
BssMI GATC 1 cut(s) 667
BssSI CACGAG 2 cut(s) 441, 536
BssT1I CCWWGG 1 cut(s) 661
Bst2BI CACGAG 2 cut(s) 441, 536
Bst2UI CCWGG 1 cut(s) 181
Bst4CI ACNGT 2 cut(s) 74, 250
Bst6I CTCTTC 2 cut(s) 108, 480
BstAFI CTTAAG 2 cut(s) 619, 745
BstDEI CTNAG 2 cut(s) 6, 530
BstF5I GGATG 1 cut(s) 204
BstKTI GATC 1 cut(s) 670
BstMAI GTCTC 1 cut(s) 276
BstMBI GATC 1 cut(s) 667
BstNI CCWGG 1 cut(s) 181
BstSCI CCNGG 1 cut(s) 179
BstV1I GCAGC 2 cut(s) 332, 643
BstV2I GAAGAC 2 cut(s) 200, 246
BsuRI GGCC 1 cut(s) 141
BtsCI GGATG 1 cut(s) 204
CciI TCATGA 1 cut(s) 846
Cfr10I RCCGGY 2 cut(s) 581, 677
Csp6I GTAC 2 cut(s) 70, 730
CspAI ACCGGT 1 cut(s) 581
CspCI CAANNNNNGTGG 2 cut(s) 661, 696
CviAII CATG 4 cut(s) 244, 800, 847, 994
CviJI RGCY 9 cut(s) 37, 141, 345, 360, 380, 439, 460, 490, 684
CviKI_1 RGCY 9 cut(s) 37, 141, 345, 360, 380, 439, 460, 490, 684
CviQI GTAC 2 cut(s) 70, 730
DdeI CTNAG 2 cut(s) 6, 530
DpnI GATC 1 cut(s) 669
DpnII GATC 1 cut(s) 667
DraI TTTAAA 1 cut(s) 412
DrdI GACNNNNNNGTC 1 cut(s) 248
DseDI GACNNNNNNGTC 1 cut(s) 248
Eam1104I CTCTTC 2 cut(s) 108, 480
EarI CTCTTC 2 cut(s) 108, 480
Ecl136II GAGCTC 1 cut(s) 490
Eco130I CCWWGG 1 cut(s) 661
Eco24I GRGCYC 1 cut(s) 492
Eco53kI GAGCTC 1 cut(s) 490
Eco57I CTGAAG 1 cut(s) 768
Eco88I CYCGRG 2 cut(s) 461, 475
EcoICRI GAGCTC 1 cut(s) 490
EcoRII CCWGG 1 cut(s) 179
EcoT14I CCWWGG 1 cut(s) 661
EcoT22I ATGCAT 1 cut(s) 277
EcoT38I GRGCYC 1 cut(s) 492
ErhI CCWWGG 1 cut(s) 661
FaeI CATG 4 cut(s) 247, 803, 850, 997
FaqI GGGAC 1 cut(s) 368
FatI CATG 4 cut(s) 243, 799, 846, 993
FauI CCCGC 1 cut(s) 704
FauNDI CATATG 1 cut(s) 329
FblI GTMKAC 1 cut(s) 915
Fnu4HI GCNGC 2 cut(s) 346, 632
FokI GGATG 1 cut(s) 211
FriOI GRGCYC 1 cut(s) 492
Fsp4HI GCNGC 2 cut(s) 346, 632
GluI GCNGC 2 cut(s) 346, 632
HaeIII GGCC 1 cut(s) 141
HapII CCGG 2 cut(s) 582, 678
Hin1II CATG 4 cut(s) 247, 803, 850, 997
HincII GTYRAC 3 cut(s) 253, 310, 916
HindII GTYRAC 3 cut(s) 253, 310, 916
HinfI GANTC 6 cut(s) 534, 561, 613, 734, 778, 1001
HpaII CCGG 2 cut(s) 582, 678
HphI GGTGA 2 cut(s) 410, 571
Hpy166II GTNNAC 3 cut(s) 253, 310, 916
Hpy188I TCNGA 5 cut(s) 46, 219, 612, 787, 876
Hpy188III TCNNGA 3 cut(s) 443, 847, 865
Hpy8I GTNNAC 3 cut(s) 253, 310, 916
HpyAV CCTTC 2 cut(s) 792, 817
HpyCH4III ACNGT 2 cut(s) 74, 250
HpyCH4IV ACGT 3 cut(s) 186, 259, 728
HpyCH4V TGCA 7 cut(s) 275, 348, 374, 570, 605, 631, 829
HpyF3I CTNAG 2 cut(s) 6, 530
HpySE526I ACGT 3 cut(s) 186, 259, 728
Hsp92II CATG 4 cut(s) 247, 803, 850, 997
KpnI GGTACC 1 cut(s) 73
Kzo9I GATC 1 cut(s) 667
LguI GCTCTTC 1 cut(s) 480
LmnI GCTCC 1 cut(s) 46
Lsp1109I GCAGC 2 cut(s) 332, 643
LweI GCATC 1 cut(s) 618
MaeII ACGT 3 cut(s) 186, 259, 728
MaeIII GTNAC 1 cut(s) 448
MalI GATC 1 cut(s) 669
MboI GATC 1 cut(s) 667
MboII GAAGA 6 cut(s) 125, 200, 251, 444, 497, 638
MhlI GDGCHC 1 cut(s) 492
MluCI AATT 7 cut(s) 80, 99, 228, 522, 549, 878, 977
MlyI GAGTC 4 cut(s) 528, 607, 728, 787
MmeI TCCRAC 2 cut(s) 24, 300
Mph1103I ATGCAT 1 cut(s) 277
MroXI GAANNNNTTC 1 cut(s) 549
MspA1I CMGCKG 1 cut(s) 634
MspCI CTTAAG 2 cut(s) 619, 745
MspI CCGG 2 cut(s) 582, 678
MspR9I CCNGG 1 cut(s) 181
Mva1269I GAATGC 2 cut(s) 128, 597
MvaI CCWGG 1 cut(s) 181
NdeI CATATG 1 cut(s) 329
NdeII GATC 1 cut(s) 667
NlaIII CATG 4 cut(s) 247, 803, 850, 997
NlaIV GGNNCC 2 cut(s) 71, 418
NsiI ATGCAT 1 cut(s) 277
PaeR7I CTCGAG 2 cut(s) 461, 475
PagI TCATGA 1 cut(s) 846
PciSI GCTCTTC 1 cut(s) 480
PctI GAATGC 2 cut(s) 128, 597
PdmI GAANNNNTTC 1 cut(s) 549
PfeI GAWTC 2 cut(s) 561, 1001
Pfl23II CGTACG 1 cut(s) 729
PflMI CCANNNNNTGG 1 cut(s) 988
PinAI ACCGGT 1 cut(s) 581
PkrI GCNGC 2 cut(s) 347, 633
PleI GAGTC 4 cut(s) 528, 607, 728, 786
PpsI GAGTC 4 cut(s) 528, 607, 728, 786
Psp124BI GAGCTC 1 cut(s) 492
Psp6I CCWGG 1 cut(s) 179
PspGI CCWGG 1 cut(s) 179
PspLI CGTACG 1 cut(s) 729
PspN4I GGNNCC 2 cut(s) 71, 418
PspXI VCTCGAGB 2 cut(s) 461, 475
PsrI GAACNNNNNNTAC 2 cut(s) 789, 821
RsaI GTAC 2 cut(s) 71, 731
RsaNI GTAC 2 cut(s) 70, 730
SacI GAGCTC 1 cut(s) 492
SalI GTCGAC 1 cut(s) 914
SapI GCTCTTC 1 cut(s) 480
SatI GCNGC 2 cut(s) 346, 632
Sau3AI GATC 1 cut(s) 667
SchI GAGTC 4 cut(s) 528, 607, 728, 787
ScrFI CCNGG 1 cut(s) 181
SduI GDGCHC 1 cut(s) 492
SfaNI GCATC 1 cut(s) 618
Sfr274I CTCGAG 2 cut(s) 461, 475
SlaI CTCGAG 2 cut(s) 461, 475
SmlI CTYRAG 4 cut(s) 461, 475, 619, 745
SmoI CTYRAG 4 cut(s) 461, 475, 619, 745
Sse9I AATT 7 cut(s) 80, 99, 228, 522, 549, 878, 977
SsiI CCGC 3 cut(s) 588, 634, 711
SspI AATATT 2 cut(s) 691, 950
SstI GAGCTC 1 cut(s) 492
StyD4I CCNGG 1 cut(s) 179
StyI CCWWGG 1 cut(s) 661
TaaI ACNGT 2 cut(s) 74, 250
TaiI ACGT 3 cut(s) 189, 262, 731
TaqI TCGA 5 cut(s) 462, 476, 795, 885, 915
TaqII GACCGA 1 cut(s) 971
TasI AATT 7 cut(s) 80, 99, 228, 522, 549, 878, 977
TfiI GAWTC 2 cut(s) 561, 1001
TseI GCWGC 2 cut(s) 345, 631
TspDTI ATGAA 2 cut(s) 542, 863
TspGWI ACGGA 1 cut(s) 554
Van91I CCANNNNNTGG 1 cut(s) 988
Vha464I CTTAAG 2 cut(s) 619, 745
XapI RAATTY 4 cut(s) 99, 228, 549, 977
XcmI CCANNNNNNNNNTGG 1 cut(s) 762
XhoI CTCGAG 2 cut(s) 461, 475
XmiI GTMKAC 1 cut(s) 915
XmnI GAANNNNTTC 1 cut(s) 549
Zsp2I ATGCAT 1 cut(s) 277
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.