Rh7CG243200

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_samantha
Chr7C
OG0017998
Physical Location & Seq
Reverse (-)
22710282 .. 22710905
624 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG243200.1

Sequence Viewer

Length: 624 bp
ATGGCTAATCACCAGAAACTGAAGGTGACACCAGAGTTCTCGAAACGTATAGAGTTATTCCTCTCCGACATGGACGACTGCCTGAAACTGCAATTATGCTCCTTCGTCCTTGAAAACCTGGAAGAATTCTGCCGTGGCCGCGCCACCAAAACATATTATCATTGCCCTATCCCCGCCTCCATTGAGGAACGGCGTGTCGTTGGGGGTCAACTTCAGTTCTCCGAAGACGGCCAAGAGGTCGACTGCACCAAAACGCAGGGGAGCAAAATCATCCCCAATGTCGACAAGGTTAGGGTCGATGATATGAAGAGTAGTTCTGGTAGGTTCATCTTGGTAGTCCAGAGGTATGAAACTTATCGGAGATTGGTGGTGCCTGCTAATGACAGTGATGTTGGTCACGTATTTTACGAGCGTCATCCGTGTATAGCTGTAAATGTTGAAGAGGAACTTGATTCGGTGATGAAGCTCTTTCTGTGTAAGCTGAAGATGGAGTTGAAGCTTCCGATGCTTGCAGTTGTGGACAGCAGTCCAGACGGGGTTAAGATTATTTCGACTGTGTCTCAAATCTCAATCCTGCGGATGCGATGTACATTGGCTTGGGATATTACCAAGCGAATTGGATAA
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

207

Amino Acids

23.65

Weight (kDa)

6.89

Isoelectric Point (pI)

47.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 109 - 191 6.3e-07 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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Orthologous Genes (Group: OG0017998)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g06051 FvH4_4g12771
rosa_laevigata RLG00000003317 RLG00000003318
rosa_multiflora Rmu_sc0003652.1_g000002 Rmu_sc0005065.1_g000016
rosa_roxburghii Rroxscaffold_3G00251590
rosa_samantha Rh7AG228500 Rh7BG224900 Rh7CG243100 Rh7CG243200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 370
AccI GTMKAC 2 cut(s) 240, 282
AccII CGCG 1 cut(s) 141
AciI CCGC 3 cut(s) 139, 174, 577
AcoI YGGCCR 2 cut(s) 136, 229
AcsI RAATTY 1 cut(s) 125
AcuI CTGAAG 3 cut(s) 41, 197, 503
AfaI GTAC 1 cut(s) 589
AgsI TTSAA 3 cut(s) 113, 440, 496
AjnI CCWGG 1 cut(s) 117
AluBI AGCT 4 cut(s) 428, 466, 481, 499
AluI AGCT 4 cut(s) 428, 466, 481, 499
Alw26I GTCTC 1 cut(s) 564
AlwNI CAGNNNCTG 1 cut(s) 19
AoxI GGCC 2 cut(s) 136, 229
ApoI RAATTY 1 cut(s) 125
AspLEI GCGC 1 cut(s) 143
AsuHPI GGTGA 2 cut(s) 37, 469
BanI GGYRCC 1 cut(s) 370
BbsI GAAGAC 1 cut(s) 231
BccI CCATC 1 cut(s) 481
BceAI ACGGC 3 cut(s) 117, 206, 244
BciT130I CCWGG 1 cut(s) 119
BcoDI GTCTC 1 cut(s) 564
BisI GCNGC 1 cut(s) 139
BlsI GCNGC 1 cut(s) 140
Bme1390I CCNGG 1 cut(s) 119
BmiI GGNNCC 1 cut(s) 372
BmrFI CCNGG 1 cut(s) 119
BmsI GCATC 2 cut(s) 495, 570
BoxI GACNNNNGTC 1 cut(s) 525
BpiI GAAGAC 1 cut(s) 231
BsaAI YACGTR 1 cut(s) 400
BsaJI CCNNGG 1 cut(s) 133
Bse3DI GCAATG 1 cut(s) 160
BseBI CCWGG 1 cut(s) 119
BseDI CCNNGG 1 cut(s) 133
BseGI GGATG 3 cut(s) 270, 415, 585
BseMI GCAATG 1 cut(s) 160
BsgI GTGCAG 1 cut(s) 229
Bsh1236I CGCG 1 cut(s) 141
BshFI GGCC 2 cut(s) 138, 231
BshNI GGYRCC 1 cut(s) 370
BsmAI GTCTC 1 cut(s) 564
BsnI GGCC 2 cut(s) 138, 231
Bsp1407I TGTACA 1 cut(s) 587
BspACI CCGC 3 cut(s) 139, 174, 577
BspANI GGCC 2 cut(s) 138, 231
BspFNI CGCG 1 cut(s) 141
BspLI GGNNCC 1 cut(s) 372
BspT107I GGYRCC 1 cut(s) 370
BsrDI GCAATG 1 cut(s) 160
BsrGI TGTACA 1 cut(s) 587
BssECI CCNNGG 1 cut(s) 133
Bst2UI CCWGG 1 cut(s) 119
Bst4CI ACNGT 2 cut(s) 386, 556
Bst6I CTCTTC 2 cut(s) 302, 435
BstAUI TGTACA 1 cut(s) 587
BstBAI YACGTR 1 cut(s) 400
BstC8I GCNNGC 2 cut(s) 375, 510
BstDSI CCRYGG 1 cut(s) 133
BstF5I GGATG 3 cut(s) 270, 415, 585
BstFNI CGCG 1 cut(s) 141
BstHHI GCGC 1 cut(s) 143
BstMAI GTCTC 1 cut(s) 564
BstMWI GCNNNNNNNGC 2 cut(s) 138, 505
BstNI CCWGG 1 cut(s) 119
BstPAI GACNNNNGTC 1 cut(s) 525
BstSCI CCNGG 1 cut(s) 117
BstUI CGCG 1 cut(s) 141
BstV2I GAAGAC 1 cut(s) 231
BsuRI GGCC 2 cut(s) 138, 231
BtgI CCRYGG 1 cut(s) 133
BtgZI GCGATG 1 cut(s) 598
BtsCI GGATG 3 cut(s) 270, 415, 585
BtsIMutI CAGTG 1 cut(s) 391
Cac8I GCNNGC 2 cut(s) 375, 510
CaiI CAGNNNCTG 1 cut(s) 19
CfoI GCGC 1 cut(s) 143
CseI GACGC 1 cut(s) 401
Csp6I GTAC 1 cut(s) 588
CviAII CATG 1 cut(s) 70
CviJI RGCY 8 cut(s) 5, 138, 231, 428, 466, 481, 499, 596
CviKI_1 RGCY 8 cut(s) 5, 138, 231, 428, 466, 481, 499, 596
CviQI GTAC 1 cut(s) 588
EaeI YGGCCR 2 cut(s) 136, 229
Eam1104I CTCTTC 2 cut(s) 302, 435
EarI CTCTTC 2 cut(s) 302, 435
Eco57I CTGAAG 3 cut(s) 41, 197, 503
EcoRI GAATTC 1 cut(s) 125
EcoRII CCWGG 1 cut(s) 117
FaeI CATG 1 cut(s) 73
FaiI YATR 7 cut(s) 50, 71, 97, 154, 305, 348, 425
FalI AAGNNNNNCTT 2 cut(s) 432, 464
FatI CATG 1 cut(s) 69
FauI CCCGC 1 cut(s) 181
FblI GTMKAC 2 cut(s) 240, 282
Fnu4HI GCNGC 1 cut(s) 139
FokI GGATG 3 cut(s) 257, 402, 592
Fsp4HI GCNGC 1 cut(s) 139
GlaI GCGC 1 cut(s) 142
GluI GCNGC 1 cut(s) 139
HaeIII GGCC 2 cut(s) 138, 231
HgaI GACGC 1 cut(s) 401
HhaI GCGC 1 cut(s) 143
Hin1II CATG 1 cut(s) 73
Hin6I GCGC 1 cut(s) 141
HinP1I GCGC 1 cut(s) 141
HincII GTYRAC 3 cut(s) 209, 241, 283
HindII GTYRAC 3 cut(s) 209, 241, 283
HindIII AAGCTT 1 cut(s) 497
HinfI GANTC 1 cut(s) 452
HphI GGTGA 2 cut(s) 37, 469
Hpy166II GTNNAC 4 cut(s) 209, 241, 283, 520
Hpy188I TCNGA 4 cut(s) 67, 223, 360, 504
Hpy188III TCNNGA 3 cut(s) 40, 340, 530
Hpy8I GTNNAC 4 cut(s) 209, 241, 283, 520
HpyAV CCTTC 2 cut(s) 16, 112
HpyCH4III ACNGT 2 cut(s) 386, 556
HpyCH4IV ACGT 2 cut(s) 46, 399
HpyCH4V TGCA 3 cut(s) 91, 246, 512
HpyF10VI GCNNNNNNNGC 2 cut(s) 138, 505
HpySE526I ACGT 2 cut(s) 46, 399
Hsp92II CATG 1 cut(s) 73
HspAI GCGC 1 cut(s) 141
LmnI GCTCC 2 cut(s) 104, 261
LweI GCATC 2 cut(s) 495, 570
MaeII ACGT 2 cut(s) 46, 399
MaeIII GTNAC 2 cut(s) 25, 395
MboII GAAGA 5 cut(s) 134, 236, 319, 452, 496
MluCI AATT 3 cut(s) 92, 125, 615
MmeI TCCRAC 1 cut(s) 90
MnlI CCTC 6 cut(s) 71, 178, 187, 229, 336, 436
MseI TTAA 1 cut(s) 540
MspR9I CCNGG 1 cut(s) 119
MvaI CCWGG 1 cut(s) 119
MvnI CGCG 1 cut(s) 141
MwoI GCNNNNNNNGC 2 cut(s) 138, 505
NlaIII CATG 1 cut(s) 73
NlaIV GGNNCC 1 cut(s) 372
NmuCI GTSAC 2 cut(s) 25, 395
PcsI WCGNNNNNNNCGW 1 cut(s) 405
PfeI GAWTC 1 cut(s) 452
PflFI GACNNNGTC 1 cut(s) 556
PkrI GCNGC 1 cut(s) 140
Ppu21I YACGTR 1 cut(s) 400
PshAI GACNNNNGTC 1 cut(s) 525
Psp6I CCWGG 1 cut(s) 117
PspGI CCWGG 1 cut(s) 117
PspN4I GGNNCC 1 cut(s) 372
PstNI CAGNNNCTG 1 cut(s) 19
PsyI GACNNNGTC 1 cut(s) 556
RsaI GTAC 1 cut(s) 589
RsaNI GTAC 1 cut(s) 588
SalI GTCGAC 2 cut(s) 239, 281
SaqAI TTAA 1 cut(s) 540
SatI GCNGC 1 cut(s) 139
ScrFI CCNGG 1 cut(s) 119
SfaNI GCATC 2 cut(s) 495, 570
Sse9I AATT 3 cut(s) 92, 125, 615
SsiI CCGC 3 cut(s) 139, 174, 577
StyD4I CCNGG 1 cut(s) 117
TaaI ACNGT 2 cut(s) 386, 556
TaiI ACGT 2 cut(s) 49, 402
TaqI TCGA 5 cut(s) 41, 240, 282, 297, 551
TasI AATT 3 cut(s) 92, 125, 615
TatI WGTACW 1 cut(s) 587
TauI GCSGC 1 cut(s) 141
TfiI GAWTC 1 cut(s) 452
Tru1I TTAA 1 cut(s) 540
Tru9I TTAA 1 cut(s) 540
TscAI CASTG 1 cut(s) 391
TseFI GTSAC 2 cut(s) 25, 395
Tsp45I GTSAC 2 cut(s) 25, 395
TspDTI ATGAA 4 cut(s) 316, 320, 363, 476
TspGWI ACGGA 1 cut(s) 408
TspRI CASTG 1 cut(s) 391
Tth111I GACNNNGTC 1 cut(s) 556
XapI RAATTY 1 cut(s) 125
XmiI GTMKAC 2 cut(s) 240, 282
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.