Rmu_sc0002080.1_g000036

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_multiflora
Rmu_sc0002080.1
OG0009658
Physical Location & Seq
Reverse (-)
155801 .. 156472
672 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 672 bp
atgaagtacatatataatggcaaggaagttgattgttcgagtgacgagtttggacaaccgatcccggcaaggacagacttgcttactagtatgagcactgacgacgaggatttggcatttgtcatagtagtggagaaacacagcgtgtttatgcggttggctcaagatttattttggaagaaatttaaatgtatcatgatcaccgccagtggaatgccagatgtgggctctaggtattttctaagaatggcagagacgacgttcaagagacccgtgtatgctctttttgattcaaatccatatggggctaggattctatgtacttatcgttatgggtcagacaacatgtcatatgatagtaagagtttggccaccccgggcataatctggttgggtgtaaggacaaaagacatggagacttacgaaatacctcaagatgacaagtatagggtaaagatgactgaaacagattacaacgagtgtcggtgtttgttaaaagcaaaatatttggtgaacaatgtagaatggcggaacgagctggaagctatgttggaagttggcacgaaaactgaaatcgaggcattgtatgtccatggttacaaatttttggccgaggtctatttaccacataaattgcagaggtacgggatggctttgcagagcattgaataa
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

223

Amino Acids

25.94

Weight (kDa)

5.55

Isoelectric Point (pI)

40.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 40 - 212 3.3e-57 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)
AciI CCGC 3 cut(s) 154, 204, 529
AclWI GGATC 1 cut(s) 55
AcoI YGGCCR 2 cut(s) 369, 609
AcsI RAATTY 2 cut(s) 182, 602
AdeI CACNNNGTG 1 cut(s) 145
AfaI GTAC 3 cut(s) 8, 322, 644
AfiI CCNNNNNNNGG 1 cut(s) 224
AflIII ACRYGT 1 cut(s) 345
AgsI TTSAA 3 cut(s) 265, 294, 668
AhdI GACNNNNNGTC 1 cut(s) 346
AhlI ACTAGT 1 cut(s) 86
AluBI AGCT 2 cut(s) 538, 545
AluI AGCT 2 cut(s) 538, 545
Alw21I GWGCWC 1 cut(s) 98
Alw26I GTCTC 3 cut(s) 248, 262, 410
AlwI GGATC 1 cut(s) 55
Ama87I CYCGRG 1 cut(s) 376
AoxI GGCC 2 cut(s) 369, 609
ApoI RAATTY 2 cut(s) 182, 602
AsuC2I CCSGG 3 cut(s) 65, 377, 378
AsuHPI GGTGA 2 cut(s) 193, 523
AvaI CYCGRG 1 cut(s) 376
BalI TGGCCA 1 cut(s) 371
BanII GRGCYC 1 cut(s) 230
Bbv12I GWGCWC 1 cut(s) 98
BccI CCATC 1 cut(s) 643
BclI TGATCA 1 cut(s) 198
BcnI CCSGG 3 cut(s) 65, 377, 378
BcoDI GTCTC 3 cut(s) 248, 262, 410
BcuI ACTAGT 1 cut(s) 86
BfaI CTAG 3 cut(s) 87, 231, 309
Bme1390I CCNGG 3 cut(s) 65, 377, 378
BmeRI GACNNNNNGTC 1 cut(s) 346
BmeT110I CYCGRG 1 cut(s) 376
BmrFI CCNGG 3 cut(s) 65, 377, 378
BpuEI CTTGAG 2 cut(s) 147, 417
BpuMI CCSGG 3 cut(s) 65, 377, 378
BsaBI GATNNNNATC 1 cut(s) 294
BsaI GGTCTC 1 cut(s) 262
BsaJI CCNNGG 4 cut(s) 375, 376, 592, 612
Bsc4I CCNNNNNNNGG 1 cut(s) 224
Bse1I ACTGG 1 cut(s) 207
Bse8I GATNNNNATC 1 cut(s) 294
BseDI CCNNGG 4 cut(s) 375, 376, 592, 612
BseGI GGATG 1 cut(s) 654
BseJI GATNNNNATC 1 cut(s) 294
BseLI CCNNNNNNNGG 1 cut(s) 224
BseNI ACTGG 1 cut(s) 207
BshFI GGCC 2 cut(s) 371, 611
BsiHKAI GWGCWC 1 cut(s) 98
BsiHKCI CYCGRG 1 cut(s) 376
BsiSI CCGG 2 cut(s) 65, 377
BslI CCNNNNNNNGG 1 cut(s) 224
BsmAI GTCTC 3 cut(s) 248, 262, 410
BsmBI CGTCTC 1 cut(s) 248
BsmI GAATGC 1 cut(s) 219
BsnI GGCC 2 cut(s) 371, 611
Bso31I GGTCTC 1 cut(s) 262
BsoBI CYCGRG 1 cut(s) 376
Bsp1286I GDGCHC 2 cut(s) 98, 230
Bsp143I GATC 2 cut(s) 60, 198
Bsp19I CCATGG 1 cut(s) 592
BspACI CCGC 3 cut(s) 154, 204, 529
BspANI GGCC 2 cut(s) 371, 611
BspHI TCATGA 1 cut(s) 195
BspPI GGATC 1 cut(s) 55
BspTNI GGTCTC 1 cut(s) 262
BsrI ACTGG 1 cut(s) 207
BssECI CCNNGG 4 cut(s) 375, 376, 592, 612
BssMI GATC 2 cut(s) 60, 198
BssT1I CCWWGG 1 cut(s) 592
BstDEI CTNAG 1 cut(s) 242
BstDSI CCRYGG 1 cut(s) 592
BstF5I GGATG 1 cut(s) 654
BstKTI GATC 2 cut(s) 63, 201
BstMAI GTCTC 3 cut(s) 248, 262, 410
BstMBI GATC 2 cut(s) 60, 198
BstMWI GCNNNNNNNGC 1 cut(s) 535
BstNSI RCATGY 1 cut(s) 349
BstSCI CCNGG 3 cut(s) 63, 375, 376
BsuRI GGCC 2 cut(s) 371, 611
BtgI CCRYGG 1 cut(s) 592
BtsCI GGATG 1 cut(s) 654
BtsIMutI CAGTG 2 cut(s) 96, 214
CciI TCATGA 1 cut(s) 195
Cfr9I CCCGGG 1 cut(s) 376
Csp6I GTAC 3 cut(s) 7, 321, 643
CspCI CAANNNNNGTGG 2 cut(s) 615, 650
CviAII CATG 4 cut(s) 196, 346, 412, 593
CviJI RGCY 8 cut(s) 161, 228, 308, 371, 538, 545, 611, 653
CviKI_1 RGCY 8 cut(s) 161, 228, 308, 371, 538, 545, 611, 653
CviQI GTAC 3 cut(s) 7, 321, 643
DdeI CTNAG 1 cut(s) 242
DpnI GATC 2 cut(s) 62, 200
DpnII GATC 2 cut(s) 60, 198
DraI TTTAAA 1 cut(s) 187
DraIII CACNNNGTG 1 cut(s) 145
DriI GACNNNNNGTC 1 cut(s) 346
EaeI YGGCCR 2 cut(s) 369, 609
Eam1105I GACNNNNNGTC 1 cut(s) 346
EciI GGCGGA 1 cut(s) 544
Eco130I CCWWGG 1 cut(s) 592
Eco24I GRGCYC 1 cut(s) 230
Eco31I GGTCTC 1 cut(s) 262
Eco88I CYCGRG 1 cut(s) 376
EcoT14I CCWWGG 1 cut(s) 592
EcoT38I GRGCYC 1 cut(s) 230
ErhI CCWWGG 1 cut(s) 592
Esp3I CGTCTC 1 cut(s) 248
FaeI CATG 4 cut(s) 199, 349, 415, 596
FatI CATG 4 cut(s) 195, 345, 411, 592
FauNDI CATATG 2 cut(s) 301, 352
FbaI TGATCA 1 cut(s) 198
FokI GGATG 1 cut(s) 661
FriOI GRGCYC 1 cut(s) 230
FspBI CTAG 3 cut(s) 87, 231, 309
HaeIII GGCC 2 cut(s) 371, 611
HapII CCGG 2 cut(s) 65, 377
Hin1II CATG 4 cut(s) 199, 349, 415, 596
HinfI GANTC 2 cut(s) 290, 313
HpaII CCGG 2 cut(s) 65, 377
HphI GGTGA 2 cut(s) 193, 523
Hpy166II GTNNAC 1 cut(s) 514
Hpy188I TCNGA 1 cut(s) 340
Hpy188III TCNNGA 4 cut(s) 164, 196, 265, 434
Hpy8I GTNNAC 1 cut(s) 514
Hpy99I CGWCG 2 cut(s) 107, 262
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 2 cut(s) 637, 658
HpyF10VI GCNNNNNNNGC 1 cut(s) 535
HpyF3I CTNAG 1 cut(s) 242
HpySE526I ACGT 1 cut(s) 260
Hsp92II CATG 4 cut(s) 199, 349, 415, 596
Ksp22I TGATCA 1 cut(s) 198
Kzo9I GATC 2 cut(s) 60, 198
LpnPI CCDG 6 cut(s) 78, 220, 231, 373, 390, 524
MaeI CTAG 3 cut(s) 87, 231, 309
MaeII ACGT 1 cut(s) 260
MaeIII GTNAC 2 cut(s) 41, 596
MalI GATC 2 cut(s) 62, 200
MboI GATC 2 cut(s) 60, 198
MboII GAAGA 1 cut(s) 190
MhlI GDGCHC 2 cut(s) 98, 230
MlsI TGGCCA 1 cut(s) 371
MluCI AATT 3 cut(s) 182, 602, 632
MluNI TGGCCA 1 cut(s) 371
MmeI TCCRAC 1 cut(s) 531
MnlI CCTC 5 cut(s) 100, 441, 571, 607, 633
Mox20I TGGCCA 1 cut(s) 371
MscI TGGCCA 1 cut(s) 371
MseI TTAA 2 cut(s) 186, 494
MslI CAYNNNNRTG 1 cut(s) 128
Msp20I TGGCCA 1 cut(s) 371
MspI CCGG 2 cut(s) 65, 377
MspR9I CCNGG 3 cut(s) 65, 377, 378
Mva1269I GAATGC 1 cut(s) 219
MwoI GCNNNNNNNGC 1 cut(s) 535
NciI CCSGG 3 cut(s) 65, 377, 378
NcoI CCATGG 1 cut(s) 592
NdeI CATATG 2 cut(s) 301, 352
NdeII GATC 2 cut(s) 60, 198
NlaIII CATG 4 cut(s) 199, 349, 415, 596
NmeAIII GCCGAG 1 cut(s) 637
NmuCI GTSAC 1 cut(s) 41
NspI RCATGY 1 cut(s) 349
PagI TCATGA 1 cut(s) 195
PciI ACATGT 1 cut(s) 345
PctI GAATGC 1 cut(s) 219
PfeI GAWTC 2 cut(s) 290, 313
PscI ACATGT 1 cut(s) 345
RsaI GTAC 3 cut(s) 8, 322, 644
RsaNI GTAC 3 cut(s) 7, 321, 643
RseI CAYNNNNRTG 1 cut(s) 128
SaqAI TTAA 2 cut(s) 186, 494
Sau3AI GATC 2 cut(s) 60, 198
ScrFI CCNGG 3 cut(s) 65, 377, 378
SduI GDGCHC 2 cut(s) 98, 230
SetI ASST 7 cut(s) 236, 263, 433, 540, 547, 618, 644
SmaI CCCGGG 1 cut(s) 378
SmiI ATTTAAAT 1 cut(s) 187
SmiMI CAYNNNNRTG 1 cut(s) 128
SmlI CTYRAG 2 cut(s) 162, 432
SmoI CTYRAG 2 cut(s) 162, 432
SpeI ACTAGT 1 cut(s) 86
Sse9I AATT 3 cut(s) 182, 602, 632
SsiI CCGC 3 cut(s) 154, 204, 529
SspI AATATT 1 cut(s) 506
SspMI CTAG 3 cut(s) 87, 231, 309
StyD4I CCNGG 3 cut(s) 63, 375, 376
StyI CCWWGG 1 cut(s) 592
SwaI ATTTAAAT 1 cut(s) 187
TaiI ACGT 1 cut(s) 263
TaqI TCGA 2 cut(s) 38, 576
TasI AATT 3 cut(s) 182, 602, 632
TatI WGTACW 2 cut(s) 6, 320
TfiI GAWTC 2 cut(s) 290, 313
Tru1I TTAA 2 cut(s) 186, 494
Tru9I TTAA 2 cut(s) 186, 494
TscAI CASTG 2 cut(s) 103, 214
TseFI GTSAC 1 cut(s) 41
Tsp45I GTSAC 1 cut(s) 41
TspDTI ATGAA 1 cut(s) 17
TspMI CCCGGG 1 cut(s) 376
TspRI CASTG 2 cut(s) 103, 214
XapI RAATTY 2 cut(s) 182, 602
XceI RCATGY 1 cut(s) 349
XmaI CCCGGG 1 cut(s) 376
XspI CTAG 3 cut(s) 87, 231, 309
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.