RchiOBHm_Chr2g0103111

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
2
OG0006264
Physical Location & Seq
Reverse (-)
14748057 .. 14748392
336 bp
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UTR
Exon/CDS
Intron
PRQ47750

Sequence Viewer

Length: 336 bp
ATGTACTATAGAACTTTCCGTAAGGAAGACATCATCCTTGGTTTTCTTCACCTTATTCTCATATTTTGCAATGGACATAAGCGCTGCACACTTCGCAGCCTGTATTATCTGGATACAAAGCTCTTTGAACAACAAACTTTGTCTGACAGTGCTTTGGATGACATTTGTTGCATCATTGGTTGCAGCTGCTCGAGTCTCAACGTGTTTGCCTCTGACAGAGGTTATGTGGGAGGTGTCCTCACTTTTAGGCTAGATGATCACCAATTTGATTGTCGTAGGATGGGACCATATGGCCAACCGATCCCTCCTTTTATTGATGATCGCTTAATGATGTAG
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

111

Amino Acids

12.89

Weight (kDa)

6.24

Isoelectric Point (pI)

47.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP6A_N PF04406 14 - 68 9.4e-14 Type IIB DNA topoisomerase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 295
AcoI YGGCCR 1 cut(s) 292
AfaI GTAC 1 cut(s) 5
AfeI AGCGCT 1 cut(s) 83
AflIII ACRYGT 1 cut(s) 201
AgsI TTSAA 1 cut(s) 128
AluBI AGCT 2 cut(s) 121, 186
AluI AGCT 2 cut(s) 121, 186
Alw26I GTCTC 1 cut(s) 200
AlwI GGATC 1 cut(s) 295
Ama87I CYCGRG 1 cut(s) 190
Aor51HI AGCGCT 1 cut(s) 83
AoxI GGCC 1 cut(s) 292
ApeKI GCWGC 4 cut(s) 84, 96, 183, 186
AspLEI GCGC 1 cut(s) 84
AspS9I GGNCC 1 cut(s) 284
AsuHPI GGTGA 2 cut(s) 41, 251
AvaI CYCGRG 1 cut(s) 190
AvaII GGWCC 1 cut(s) 284
BalI TGGCCA 1 cut(s) 294
BbsI GAAGAC 1 cut(s) 33
BbvI GCAGC 4 cut(s) 71, 108, 173, 195
BccI CCATC 1 cut(s) 274
BciVI GTATCC 1 cut(s) 106
BclI TGATCA 1 cut(s) 256
BcoDI GTCTC 1 cut(s) 200
BfaI CTAG 1 cut(s) 251
BfmI CTRYAG 1 cut(s) 7
BfoI RGCGCY 1 cut(s) 85
BfuI GTATCC 1 cut(s) 106
BisI GCNGC 4 cut(s) 85, 97, 184, 187
BlsI GCNGC 4 cut(s) 86, 98, 185, 188
Bme18I GGWCC 1 cut(s) 284
BmeT110I CYCGRG 1 cut(s) 190
BmgT120I GGNCC 1 cut(s) 284
BmiI GGNNCC 1 cut(s) 285
BmsI GCATC 1 cut(s) 180
BpiI GAAGAC 1 cut(s) 33
BplI GAGNNNNNCTC 2 cut(s) 222, 254
BsaJI CCNNGG 1 cut(s) 37
Bse3DI GCAATG 1 cut(s) 76
BseDI CCNNGG 1 cut(s) 37
BseGI GGATG 3 cut(s) 33, 163, 285
BseMI GCAATG 1 cut(s) 76
BseXI GCAGC 4 cut(s) 71, 108, 173, 195
BsgI GTGCAG 1 cut(s) 70
BshFI GGCC 1 cut(s) 294
BsiHKCI CYCGRG 1 cut(s) 190
BslFI GGGAC 1 cut(s) 297
BsmAI GTCTC 1 cut(s) 200
BsmFI GGGAC 1 cut(s) 297
BsnI GGCC 1 cut(s) 294
BsoBI CYCGRG 1 cut(s) 190
Bsp143I GATC 3 cut(s) 256, 300, 319
BspANI GGCC 1 cut(s) 294
BspLI GGNNCC 1 cut(s) 285
BspPI GGATC 1 cut(s) 295
BsrDI GCAATG 1 cut(s) 76
BssECI CCNNGG 1 cut(s) 37
BssMI GATC 3 cut(s) 256, 300, 319
BssT1I CCWWGG 1 cut(s) 37
Bst4CI ACNGT 1 cut(s) 149
BstF5I GGATG 3 cut(s) 33, 163, 285
BstH2I RGCGCY 1 cut(s) 85
BstHHI GCGC 1 cut(s) 84
BstKTI GATC 3 cut(s) 259, 303, 322
BstMAI GTCTC 1 cut(s) 200
BstMBI GATC 3 cut(s) 256, 300, 319
BstMWI GCNNNNNNNGC 1 cut(s) 93
BstSFI CTRYAG 1 cut(s) 7
BstV1I GCAGC 4 cut(s) 71, 108, 173, 195
BstV2I GAAGAC 1 cut(s) 33
BsuI GTATCC 1 cut(s) 106
BsuRI GGCC 1 cut(s) 294
BtsCI GGATG 3 cut(s) 33, 163, 285
BtsIMutI CAGTG 1 cut(s) 154
CfoI GCGC 1 cut(s) 84
Cfr13I GGNCC 1 cut(s) 284
Csp6I GTAC 1 cut(s) 4
CviJI RGCY 5 cut(s) 99, 121, 186, 250, 294
CviKI_1 RGCY 5 cut(s) 99, 121, 186, 250, 294
CviQI GTAC 1 cut(s) 4
DpnI GATC 3 cut(s) 258, 302, 321
DpnII GATC 3 cut(s) 256, 300, 319
EaeI YGGCCR 1 cut(s) 292
Eco130I CCWWGG 1 cut(s) 37
Eco47I GGWCC 1 cut(s) 284
Eco47III AGCGCT 1 cut(s) 83
Eco88I CYCGRG 1 cut(s) 190
EcoT14I CCWWGG 1 cut(s) 37
ErhI CCWWGG 1 cut(s) 37
FaiI YATR 6 cut(s) 9, 62, 78, 225, 289, 291
FaqI GGGAC 1 cut(s) 297
FauNDI CATATG 1 cut(s) 289
FbaI TGATCA 1 cut(s) 256
Fnu4HI GCNGC 4 cut(s) 85, 97, 184, 187
FokI GGATG 3 cut(s) 20, 170, 292
Fsp4HI GCNGC 4 cut(s) 85, 97, 184, 187
FspBI CTAG 1 cut(s) 251
GlaI GCGC 1 cut(s) 83
GluI GCNGC 4 cut(s) 85, 97, 184, 187
HaeII RGCGCY 1 cut(s) 85
HaeIII GGCC 1 cut(s) 294
HhaI GCGC 1 cut(s) 84
Hin6I GCGC 1 cut(s) 82
HinP1I GCGC 1 cut(s) 82
HinfI GANTC 1 cut(s) 193
HphI GGTGA 2 cut(s) 41, 251
Hpy188I TCNGA 2 cut(s) 145, 214
Hpy188III TCNNGA 1 cut(s) 110
HpyCH4III ACNGT 1 cut(s) 149
HpyCH4IV ACGT 1 cut(s) 201
HpyCH4V TGCA 4 cut(s) 69, 87, 171, 183
HpyF10VI GCNNNNNNNGC 1 cut(s) 93
HpySE526I ACGT 1 cut(s) 201
HspAI GCGC 1 cut(s) 82
Ksp22I TGATCA 1 cut(s) 256
Kzo9I GATC 3 cut(s) 256, 300, 319
LpnPI CCDG 2 cut(s) 95, 113
Lsp1109I GCAGC 4 cut(s) 71, 108, 173, 195
LweI GCATC 1 cut(s) 180
MaeI CTAG 1 cut(s) 251
MaeII ACGT 1 cut(s) 201
MalI GATC 3 cut(s) 258, 302, 321
MboI GATC 3 cut(s) 256, 300, 319
MboII GAAGA 2 cut(s) 38, 38
MlsI TGGCCA 1 cut(s) 294
MluCI AATT 1 cut(s) 263
MluNI TGGCCA 1 cut(s) 294
MlyI GAGTC 1 cut(s) 202
MnlI CCTC 5 cut(s) 212, 220, 224, 248, 315
Mox20I TGGCCA 1 cut(s) 294
MscI TGGCCA 1 cut(s) 294
MseI TTAA 1 cut(s) 326
Msp20I TGGCCA 1 cut(s) 294
MspA1I CMGCKG 1 cut(s) 186
MwoI GCNNNNNNNGC 1 cut(s) 93
NdeI CATATG 1 cut(s) 289
NdeII GATC 3 cut(s) 256, 300, 319
NlaIV GGNNCC 1 cut(s) 285
PaeR7I CTCGAG 1 cut(s) 190
PkrI GCNGC 4 cut(s) 86, 98, 185, 188
PleI GAGTC 1 cut(s) 201
PpsI GAGTC 1 cut(s) 201
PspN4I GGNNCC 1 cut(s) 285
PspPI GGNCC 1 cut(s) 284
PspXI VCTCGAGB 1 cut(s) 190
PvuII CAGCTG 1 cut(s) 186
RsaI GTAC 1 cut(s) 5
RsaNI GTAC 1 cut(s) 4
SaqAI TTAA 1 cut(s) 326
SatI GCNGC 4 cut(s) 85, 97, 184, 187
Sau3AI GATC 3 cut(s) 256, 300, 319
Sau96I GGNCC 1 cut(s) 284
SchI GAGTC 1 cut(s) 202
SetI ASST 6 cut(s) 54, 123, 188, 204, 223, 235
SfaNI GCATC 1 cut(s) 180
SfcI CTRYAG 1 cut(s) 7
Sfr274I CTCGAG 1 cut(s) 190
SgeI CNNG 7 cut(s) 50, 112, 122, 202, 204, 214, 263
SinI GGWCC 1 cut(s) 284
SlaI CTCGAG 1 cut(s) 190
SmlI CTYRAG 1 cut(s) 190
SmoI CTYRAG 1 cut(s) 190
Sse9I AATT 1 cut(s) 263
SspMI CTAG 1 cut(s) 251
StyI CCWWGG 1 cut(s) 37
TaaI ACNGT 1 cut(s) 149
TaiI ACGT 1 cut(s) 204
TaqI TCGA 1 cut(s) 191
TasI AATT 1 cut(s) 263
TatI WGTACW 1 cut(s) 3
Tru1I TTAA 1 cut(s) 326
Tru9I TTAA 1 cut(s) 326
TscAI CASTG 1 cut(s) 154
TseI GCWGC 4 cut(s) 84, 96, 183, 186
TspGWI ACGGA 1 cut(s) 8
TspRI CASTG 1 cut(s) 154
VpaK11BI GGWCC 1 cut(s) 284
XhoI CTCGAG 1 cut(s) 190
XspI CTAG 1 cut(s) 251
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.