RchiOBHm_Chr3g0453711

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_chinensis
3
OG0006264
Physical Location & Seq
Reverse (-)
4065367 .. 4066421
1055 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ42079

Sequence Viewer

Length: 831 bp
ATGTTTAAGAAAGAAGTATGTGCAATGATTAAAAGACTATATGAGCTTTTGTCGGAGCAGGAAAAACAGGGATATGGGTACCGTTTTGAATTGGAAAAGGAAAAAGAAATTTTCTTTGTTGAAGAGTTAGAATGCTATGTATTGAAAGGCCGAACCACCTACTACTGCGAATATGATAACGAACAAACCAGGAACGTATTTATTAGGATGGATTGTCTTCTTGTTCTGATATACAAAATTTTAATGGAAGACATGACGGTCAACATACGTTGGGTTCAGCTCGAGTTTGATACTTCGAGCAAGGAAGAGCTCTTGCTTATATTGGTTGTTGAAAAGGACACAATTTTTCAAAGACTCGTGGAGGAAAAAATTCATAAGAGATTCCGTTGCATTATTATCACCGGTTGCGGAATGCCAAATGTTGCAACTCGGACTCTCTTAAGAAAGATGCAGCGGAAGTTAAATCTTCCAGTAGTTGCCCTTGGAGATCACAATGCCGGTGGCTTTAATATTTATTTGACCTATTTGTGCGGGAGTGAGAATATGGCGTACGACTCCTTAAACTTAAGCACACCAGATATTAAGTGGTTGGGTTTGAGTCCTTCAGACCTCATCGAACGTGATATACCCAATGGGAATGAGAAGGTGCAAGGACTTGAAACAATCATGAAAAAGGATTTTGTCAAGAAAACTCCGAAATTGGTCGAGGAGGTAAGAAAAATGGAAACTAAAGTCGACGTTGAGGGTATGATGAGAAAGCACCTCAAATATTTGACCGAGATATATCTGCCACTAAAATTCCAAAGGTTGGGCATGAGTGATTCGGTATAA
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

276

Amino Acids

32.52

Weight (kDa)

6.85

Isoelectric Point (pI)

43.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 107 - 266 5.7e-46 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) 257
Acc65I GGTACC 1 cut(s) 78
AccB1I GGYRCC 1 cut(s) 78
AccB7I CCANNNNNTGG 1 cut(s) 808
AccI GTMKAC 1 cut(s) 735
AciI CCGC 3 cut(s) 408, 454, 531
AcsI RAATTY 4 cut(s) 108, 237, 369, 797
AcuI CTGAAG 1 cut(s) 588
AfaI GTAC 2 cut(s) 80, 551
AfiI CCNNNNNNNGG 1 cut(s) 808
AflII CTTAAG 2 cut(s) 439, 565
AgeI ACCGGT 1 cut(s) 401
AgsI TTSAA 6 cut(s) 89, 122, 145, 332, 350, 659
AjnI CCWGG 1 cut(s) 188
AluBI AGCT 3 cut(s) 46, 280, 310
AluI AGCT 3 cut(s) 46, 280, 310
Alw21I GWGCWC 1 cut(s) 312
Ama87I CYCGRG 1 cut(s) 281
AoxI GGCC 1 cut(s) 148
ApeKI GCWGC 1 cut(s) 451
ApoI RAATTY 4 cut(s) 108, 237, 369, 797
AsiGI ACCGGT 1 cut(s) 401
Asp700I GAANNNNTTC 1 cut(s) 369
Asp718I GGTACC 1 cut(s) 78
AsuHPI GGTGA 1 cut(s) 391
AvaI CYCGRG 1 cut(s) 281
BanI GGYRCC 1 cut(s) 78
BanII GRGCYC 1 cut(s) 312
BauI CACGAG 1 cut(s) 356
BbsI GAAGAC 2 cut(s) 209, 255
Bbv12I GWGCWC 1 cut(s) 312
BbvI GCAGC 1 cut(s) 463
BccI CCATC 1 cut(s) 202
BciT130I CCWGG 1 cut(s) 190
BfrI CTTAAG 2 cut(s) 439, 565
BisI GCNGC 1 cut(s) 452
BlsI GCNGC 1 cut(s) 453
Bme1390I CCNGG 1 cut(s) 190
BmeT110I CYCGRG 1 cut(s) 281
BmiI GGNNCC 1 cut(s) 80
BmrFI CCNGG 1 cut(s) 190
BmsI GCATC 1 cut(s) 438
BpiI GAAGAC 2 cut(s) 209, 255
BsaJI CCNNGG 1 cut(s) 481
BsaWI WCCGGW 1 cut(s) 401
Bsc4I CCNNNNNNNGG 1 cut(s) 808
Bse118I RCCGGY 2 cut(s) 401, 497
Bse1I ACTGG 1 cut(s) 470
Bse3DI GCAATG 1 cut(s) 30
BseBI CCWGG 1 cut(s) 190
BseDI CCNNGG 1 cut(s) 481
BseGI GGATG 1 cut(s) 213
BseLI CCNNNNNNNGG 1 cut(s) 808
BseMI GCAATG 1 cut(s) 30
BseNI ACTGG 1 cut(s) 470
BseRI GAGGAG 1 cut(s) 722
BseXI GCAGC 1 cut(s) 463
BshFI GGCC 1 cut(s) 150
BshNI GGYRCC 1 cut(s) 78
BshTI ACCGGT 1 cut(s) 401
BsiHKAI GWGCWC 1 cut(s) 312
BsiHKCI CYCGRG 1 cut(s) 281
BsiSI CCGG 2 cut(s) 402, 498
BsiWI CGTACG 1 cut(s) 549
BslI CCNNNNNNNGG 1 cut(s) 808
BsmI GAATGC 2 cut(s) 137, 417
BsnI GGCC 1 cut(s) 150
BsoBI CYCGRG 1 cut(s) 281
Bsp1286I GDGCHC 1 cut(s) 312
Bsp143I GATC 1 cut(s) 487
BspACI CCGC 3 cut(s) 408, 454, 531
BspANI GGCC 1 cut(s) 150
BspHI TCATGA 1 cut(s) 666
BspLI GGNNCC 1 cut(s) 80
BspQI GCTCTTC 1 cut(s) 300
BspT107I GGYRCC 1 cut(s) 78
BspTI CTTAAG 2 cut(s) 439, 565
BsrDI GCAATG 1 cut(s) 30
BsrFI RCCGGY 2 cut(s) 401, 497
BsrI ACTGG 1 cut(s) 470
BssAI RCCGGY 2 cut(s) 401, 497
BssECI CCNNGG 1 cut(s) 481
BssMI GATC 1 cut(s) 487
BssSI CACGAG 1 cut(s) 356
BssT1I CCWWGG 1 cut(s) 481
Bst2BI CACGAG 1 cut(s) 356
Bst2UI CCWGG 1 cut(s) 190
Bst4CI ACNGT 2 cut(s) 83, 259
Bst6I CTCTTC 2 cut(s) 117, 300
BstAFI CTTAAG 2 cut(s) 439, 565
BstF5I GGATG 1 cut(s) 213
BstKTI GATC 1 cut(s) 490
BstMBI GATC 1 cut(s) 487
BstNI CCWGG 1 cut(s) 190
BstSCI CCNGG 1 cut(s) 188
BstV1I GCAGC 1 cut(s) 463
BstV2I GAAGAC 2 cut(s) 209, 255
BsuRI GGCC 1 cut(s) 150
BtsCI GGATG 1 cut(s) 213
CciI TCATGA 1 cut(s) 666
Cfr10I RCCGGY 2 cut(s) 401, 497
Csp6I GTAC 2 cut(s) 79, 550
CspAI ACCGGT 1 cut(s) 401
CspCI CAANNNNNGTGG 2 cut(s) 481, 516
CviAII CATG 3 cut(s) 253, 667, 814
CviJI RGCY 5 cut(s) 46, 150, 280, 310, 504
CviKI_1 RGCY 5 cut(s) 46, 150, 280, 310, 504
CviQI GTAC 2 cut(s) 79, 550
DpnI GATC 1 cut(s) 489
DpnII GATC 1 cut(s) 487
DrdI GACNNNNNNGTC 1 cut(s) 257
DseDI GACNNNNNNGTC 1 cut(s) 257
Eam1104I CTCTTC 2 cut(s) 117, 300
EarI CTCTTC 2 cut(s) 117, 300
Ecl136II GAGCTC 1 cut(s) 310
Eco130I CCWWGG 1 cut(s) 481
Eco24I GRGCYC 1 cut(s) 312
Eco53kI GAGCTC 1 cut(s) 310
Eco57I CTGAAG 1 cut(s) 588
Eco88I CYCGRG 1 cut(s) 281
EcoICRI GAGCTC 1 cut(s) 310
EcoRII CCWGG 1 cut(s) 188
EcoT14I CCWWGG 1 cut(s) 481
EcoT38I GRGCYC 1 cut(s) 312
ErhI CCWWGG 1 cut(s) 481
FaeI CATG 3 cut(s) 256, 670, 817
FatI CATG 3 cut(s) 252, 666, 813
FauI CCCGC 1 cut(s) 524
FblI GTMKAC 1 cut(s) 735
Fnu4HI GCNGC 1 cut(s) 452
FokI GGATG 1 cut(s) 220
FriOI GRGCYC 1 cut(s) 312
Fsp4HI GCNGC 1 cut(s) 452
GluI GCNGC 1 cut(s) 452
HaeIII GGCC 1 cut(s) 150
HapII CCGG 2 cut(s) 402, 498
Hin1II CATG 3 cut(s) 256, 670, 817
HincII GTYRAC 2 cut(s) 262, 736
HindII GTYRAC 2 cut(s) 262, 736
HinfI GANTC 6 cut(s) 354, 381, 433, 554, 598, 821
HpaII CCGG 2 cut(s) 402, 498
HphI GGTGA 1 cut(s) 391
Hpy166II GTNNAC 2 cut(s) 262, 736
Hpy188I TCNGA 5 cut(s) 55, 228, 432, 607, 696
Hpy188III TCNNGA 2 cut(s) 667, 685
Hpy8I GTNNAC 2 cut(s) 262, 736
Hpy99I CGWCG 1 cut(s) 740
HpyAV CCTTC 2 cut(s) 612, 637
HpyCH4III ACNGT 2 cut(s) 83, 259
HpyCH4IV ACGT 4 cut(s) 195, 268, 619, 738
HpyCH4V TGCA 5 cut(s) 23, 390, 425, 451, 649
HpySE526I ACGT 4 cut(s) 195, 268, 619, 738
Hsp92II CATG 3 cut(s) 256, 670, 817
KpnI GGTACC 1 cut(s) 82
Kzo9I GATC 1 cut(s) 487
LguI GCTCTTC 1 cut(s) 300
LmnI GCTCC 1 cut(s) 55
LpnPI CCDG 8 cut(s) 44, 53, 175, 202, 415, 483, 511, 588
Lsp1109I GCAGC 1 cut(s) 463
LweI GCATC 1 cut(s) 438
MaeII ACGT 4 cut(s) 195, 268, 619, 738
MalI GATC 1 cut(s) 489
MboI GATC 1 cut(s) 487
MboII GAAGA 5 cut(s) 134, 209, 260, 317, 458
MhlI GDGCHC 1 cut(s) 312
MluCI AATT 7 cut(s) 89, 108, 237, 342, 369, 698, 797
MlyI GAGTC 4 cut(s) 348, 427, 548, 607
MmeI TCCRAC 1 cut(s) 33
MnlI CCTC 6 cut(s) 355, 620, 700, 703, 736, 773
MroXI GAANNNNTTC 1 cut(s) 369
MseI TTAA 9 cut(s) 6, 30, 242, 440, 461, 507, 560, 566, 582
MspA1I CMGCKG 1 cut(s) 454
MspCI CTTAAG 2 cut(s) 439, 565
MspI CCGG 2 cut(s) 402, 498
MspR9I CCNGG 1 cut(s) 190
Mva1269I GAATGC 2 cut(s) 137, 417
MvaI CCWGG 1 cut(s) 190
NdeII GATC 1 cut(s) 487
NlaIII CATG 3 cut(s) 256, 670, 817
NlaIV GGNNCC 1 cut(s) 80
PaeR7I CTCGAG 1 cut(s) 281
PagI TCATGA 1 cut(s) 666
PciSI GCTCTTC 1 cut(s) 300
PctI GAATGC 2 cut(s) 137, 417
PdmI GAANNNNTTC 1 cut(s) 369
PfeI GAWTC 2 cut(s) 381, 821
Pfl23II CGTACG 1 cut(s) 549
PflMI CCANNNNNTGG 1 cut(s) 808
PinAI ACCGGT 1 cut(s) 401
PkrI GCNGC 1 cut(s) 453
PleI GAGTC 4 cut(s) 348, 427, 548, 606
PpsI GAGTC 4 cut(s) 348, 427, 548, 606
Psp124BI GAGCTC 1 cut(s) 312
Psp6I CCWGG 1 cut(s) 188
PspGI CCWGG 1 cut(s) 188
PspLI CGTACG 1 cut(s) 549
PspN4I GGNNCC 1 cut(s) 80
PspXI VCTCGAGB 1 cut(s) 281
PsrI GAACNNNNNNTAC 2 cut(s) 609, 641
RsaI GTAC 2 cut(s) 80, 551
RsaNI GTAC 2 cut(s) 79, 550
SacI GAGCTC 1 cut(s) 312
SalI GTCGAC 1 cut(s) 734
SapI GCTCTTC 1 cut(s) 300
SaqAI TTAA 9 cut(s) 6, 30, 242, 440, 461, 507, 560, 566, 582
SatI GCNGC 1 cut(s) 452
Sau3AI GATC 1 cut(s) 487
SchI GAGTC 4 cut(s) 348, 427, 548, 607
ScrFI CCNGG 1 cut(s) 190
SduI GDGCHC 1 cut(s) 312
SfaNI GCATC 1 cut(s) 438
Sfr274I CTCGAG 1 cut(s) 281
SlaI CTCGAG 1 cut(s) 281
SmlI CTYRAG 3 cut(s) 281, 439, 565
SmoI CTYRAG 3 cut(s) 281, 439, 565
Sse9I AATT 7 cut(s) 89, 108, 237, 342, 369, 698, 797
SsiI CCGC 3 cut(s) 408, 454, 531
SspI AATATT 2 cut(s) 511, 770
SstI GAGCTC 1 cut(s) 312
StyD4I CCNGG 1 cut(s) 188
StyI CCWWGG 1 cut(s) 481
TaaI ACNGT 2 cut(s) 83, 259
TaiI ACGT 4 cut(s) 198, 271, 622, 741
TaqI TCGA 5 cut(s) 282, 296, 615, 705, 735
TaqII GACCGA 1 cut(s) 791
TasI AATT 7 cut(s) 89, 108, 237, 342, 369, 698, 797
TfiI GAWTC 2 cut(s) 381, 821
Tru1I TTAA 9 cut(s) 6, 30, 242, 440, 461, 507, 560, 566, 582
Tru9I TTAA 9 cut(s) 6, 30, 242, 440, 461, 507, 560, 566, 582
TseI GCWGC 1 cut(s) 451
TspDTI ATGAA 2 cut(s) 362, 683
TspGWI ACGGA 1 cut(s) 374
Van91I CCANNNNNTGG 1 cut(s) 808
Vha464I CTTAAG 2 cut(s) 439, 565
XapI RAATTY 4 cut(s) 108, 237, 369, 797
XcmI CCANNNNNNNNNTGG 1 cut(s) 582
XhoI CTCGAG 1 cut(s) 281
XmiI GTMKAC 1 cut(s) 735
XmnI GAANNNNTTC 1 cut(s) 369
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.