RchiOBHm_Chr2g0108981

Introduces a single-strand break via transesterification at a target site in duplex DNA. Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0029744
Physical Location & Seq
Reverse (-)
20391711 .. 20396732
5022 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ48284

Sequence Viewer

Length: 861 bp
ATGAACGCTTGTATACTCAAGGCTTCATCAGGTTTCTATCCGTGTACCGAGAGCACATCCTATCCTTCTTCTTTTGACTTTAGAGGCACGCTTGGTGCACAAGTAAATAATCCCGTATGGGGTAGTTATGTACAGAGGCTGCTCACTGATGGTTATCAAAAACCACGATCTGGGACAGATGCAGGTGATCATCCTCCTGTTACTCCATTGAGGTCTGCCACTGAGGATATGCTGGGAAATGATGCGTGGAGATTATACGAGTATGTCTGTAAACACTTCATAGGGACTGTATCTCCTGACTGCAAGTATGTAAGAACAAAGGCAGAATTTTCAATTGGTGGAGAGTTCTTCCATTATGTAGGACAACATATTTTGGTGAAGGGATTTACTTCTATTATGCCATGGTTAGCAGTAAATGAGAAAAATCTTCCTCAATTTACAGAAGGCGAGAAAATAGAAATTGCCAGAGTGGACCTTCATGAGACTTGTATGACCTCACCTCCAGAATATTTAAGTGAGAGTGAGCTAATTTTGCTTATGGAGAAGAATGGAATCGACACAGATGCATCAATATCTGTTCATATTAACAACATATGTGAGCGCAATTATGTGCAAGTTTCTATTCTCTTTCCTCTCTCTGCTGAAAATTTGTTAATATCATTTAAACTGGTTTTTACGAGACTTTTGTTTTGCTTTACATTTAACTGGCAGGTACAATCTGGCAGGAAGTTGGTTCCAACTGCCTTAGGTATTACTCTAATAAGAGGCTATCAATGTATTGATCCAGATCTCTGTTTGCCAGATATCCGCAGTTTATTGAGCAGTAGATTACTCTTGTTGCTAAGGGTCAAGCAGATCTGA

Protein Analysis

286

Amino Acids

32.23

Weight (kDa)

6.09

Isoelectric Point (pI)

44.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Topoisom_bac PF01131 13 - 211 9.3e-40 DNA topoisomerase
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: OG0029744)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0108981
rosa_samantha Rh2AG341600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 173
Acc36I ACCTGC 2 cut(s) 173, 700
AccB7I CCANNNNNTGG 1 cut(s) 170
AccI GTMKAC 1 cut(s) 13
AciI CCGC 1 cut(s) 808
AclWI GGATC 1 cut(s) 776
AcsI RAATTY 2 cut(s) 326, 646
AfaI GTAC 3 cut(s) 46, 132, 714
AfiI CCNNNNNNNGG 2 cut(s) 119, 170
AgsI TTSAA 1 cut(s) 333
AjuI GAANNNNNNNTTGG 2 cut(s) 318, 350
AluBI AGCT 1 cut(s) 526
AluI AGCT 1 cut(s) 526
Alw21I GWGCWC 2 cut(s) 56, 100
Alw26I GTCTC 2 cut(s) 476, 673
Alw44I GTGCAC 1 cut(s) 96
AlwI GGATC 1 cut(s) 776
AlwNI CAGNNNCTG 1 cut(s) 139
ApaLI GTGCAC 1 cut(s) 96
ApeKI GCWGC 1 cut(s) 139
ApoI RAATTY 2 cut(s) 326, 646
ArsI GACNNNNNNTTYG 2 cut(s) 672, 704
AspLEI GCGC 1 cut(s) 603
AspS9I GGNCC 1 cut(s) 472
AsuHPI GGTGA 3 cut(s) 197, 388, 489
AvaII GGWCC 1 cut(s) 472
AxyI CCTNAGG 1 cut(s) 745
BaeGI GKGCMC 1 cut(s) 100
Bbv12I GWGCWC 2 cut(s) 56, 100
BbvI GCAGC 1 cut(s) 126
BccI CCATC 1 cut(s) 143
BcgI CGANNNNNNTGC 2 cut(s) 545, 579
BclI TGATCA 1 cut(s) 187
BcoDI GTCTC 2 cut(s) 476, 673
BfuAI ACCTGC 2 cut(s) 173, 700
BglII AGATCT 2 cut(s) 787, 855
BisI GCNGC 1 cut(s) 140
BlsI GCNGC 1 cut(s) 141
Bme18I GGWCC 1 cut(s) 472
BmgT120I GGNCC 1 cut(s) 472
BmiI GGNNCC 1 cut(s) 735
BmsI GCATC 4 cut(s) 169, 232, 553, 575
BpmI CTGGAG 1 cut(s) 486
Bpu10I CCTNAGC 1 cut(s) 842
BsaBI GATNNNNATC 2 cut(s) 153, 786
BsaJI CCNNGG 1 cut(s) 401
BsaXI ACNNNNNCTCC 4 cut(s) 277, 307, 484, 514
Bsc4I CCNNNNNNNGG 2 cut(s) 119, 170
Bse1I ACTGG 2 cut(s) 672, 710
Bse21I CCTNAGG 1 cut(s) 745
Bse8I GATNNNNATC 2 cut(s) 153, 786
BseDI CCNNGG 1 cut(s) 401
BseGI GGATG 2 cut(s) 56, 190
BseJI GATNNNNATC 2 cut(s) 153, 786
BseLI CCNNNNNNNGG 2 cut(s) 119, 170
BseMII CTCAG 1 cut(s) 213
BseNI ACTGG 2 cut(s) 672, 710
BseSI GKGCMC 1 cut(s) 100
BseXI GCAGC 1 cut(s) 126
BseYI CCCAGC 1 cut(s) 232
BsiHKAI GWGCWC 2 cut(s) 56, 100
BslFI GGGAC 2 cut(s) 187, 298
BslI CCNNNNNNNGG 2 cut(s) 119, 170
BsmAI GTCTC 2 cut(s) 476, 673
BsmFI GGGAC 2 cut(s) 187, 298
Bsp1286I GDGCHC 2 cut(s) 56, 100
Bsp1407I TGTACA 1 cut(s) 130
Bsp143I GATC 5 cut(s) 167, 187, 781, 787, 855
Bsp19I CCATGG 1 cut(s) 401
BspACI CCGC 1 cut(s) 808
BspCNI CTCAG 1 cut(s) 214
BspHI TCATGA 1 cut(s) 478
BspLI GGNNCC 1 cut(s) 735
BspMI ACCTGC 2 cut(s) 173, 700
BspPI GGATC 1 cut(s) 776
BsrGI TGTACA 1 cut(s) 130
BsrI ACTGG 2 cut(s) 672, 710
BssECI CCNNGG 1 cut(s) 401
BssMI GATC 5 cut(s) 167, 187, 781, 787, 855
BssNAI GTATAC 1 cut(s) 14
BssT1I CCWWGG 1 cut(s) 401
Bst1107I GTATAC 1 cut(s) 14
Bst4CI ACNGT 1 cut(s) 289
BstAUI TGTACA 1 cut(s) 130
BstC8I GCNNGC 1 cut(s) 89
BstDEI CTNAG 3 cut(s) 222, 745, 842
BstDSI CCRYGG 1 cut(s) 401
BstF5I GGATG 2 cut(s) 56, 190
BstHHI GCGC 1 cut(s) 603
BstKTI GATC 5 cut(s) 170, 190, 784, 790, 858
BstMAI GTCTC 2 cut(s) 476, 673
BstMBI GATC 5 cut(s) 167, 187, 781, 787, 855
BstMWI GCNNNNNNNGC 1 cut(s) 532
BstSLI GKGCMC 1 cut(s) 100
BstV1I GCAGC 1 cut(s) 126
BstX2I RGATCY 2 cut(s) 787, 855
BstYI RGATCY 2 cut(s) 787, 855
BstZ17I GTATAC 1 cut(s) 14
Bsu36I CCTNAGG 1 cut(s) 745
BtgI CCRYGG 1 cut(s) 401
BtsCI GGATG 2 cut(s) 56, 190
BtsIMutI CAGTG 2 cut(s) 144, 219
BveI ACCTGC 2 cut(s) 173, 700
Cac8I GCNNGC 1 cut(s) 89
CaiI CAGNNNCTG 1 cut(s) 139
CciI TCATGA 1 cut(s) 478
CfoI GCGC 1 cut(s) 603
Cfr13I GGNCC 1 cut(s) 472
Csp6I GTAC 3 cut(s) 45, 131, 713
CviAII CATG 2 cut(s) 402, 479
CviJI RGCY 4 cut(s) 23, 139, 526, 768
CviKI_1 RGCY 4 cut(s) 23, 139, 526, 768
CviQI GTAC 3 cut(s) 45, 131, 713
DdeI CTNAG 3 cut(s) 222, 745, 842
DpnI GATC 5 cut(s) 169, 189, 783, 789, 857
DpnII GATC 5 cut(s) 167, 187, 781, 787, 855
DraI TTTAAA 1 cut(s) 664
Eco130I CCWWGG 1 cut(s) 401
Eco32I GATATC 1 cut(s) 805
Eco47I GGWCC 1 cut(s) 472
Eco81I CCTNAGG 1 cut(s) 745
EcoRV GATATC 1 cut(s) 805
EcoT14I CCWWGG 1 cut(s) 401
EcoT22I ATGCAT 1 cut(s) 568
ErhI CCWWGG 1 cut(s) 401
FaeI CATG 2 cut(s) 405, 482
FaqI GGGAC 2 cut(s) 187, 298
FatI CATG 2 cut(s) 401, 478
FauNDI CATATG 1 cut(s) 593
FbaI TGATCA 1 cut(s) 187
FblI GTMKAC 1 cut(s) 13
Fnu4HI GCNGC 1 cut(s) 140
FokI GGATG 2 cut(s) 43, 177
Fsp4HI GCNGC 1 cut(s) 140
GlaI GCGC 1 cut(s) 602
GluI GCNGC 1 cut(s) 140
GsaI CCCAGC 1 cut(s) 236
GsuI CTGGAG 1 cut(s) 486
HhaI GCGC 1 cut(s) 603
Hin1II CATG 2 cut(s) 405, 482
Hin6I GCGC 1 cut(s) 601
HinP1I GCGC 1 cut(s) 601
HinfI GANTC 1 cut(s) 552
HphI GGTGA 3 cut(s) 197, 388, 489
Hpy166II GTNNAC 5 cut(s) 14, 45, 98, 272, 472
Hpy188I TCNGA 1 cut(s) 860
Hpy188III TCNNGA 4 cut(s) 296, 479, 503, 785
Hpy8I GTNNAC 5 cut(s) 14, 45, 98, 272, 472
HpyAV CCTTC 4 cut(s) 75, 373, 437, 485
HpyCH4III ACNGT 1 cut(s) 289
HpyCH4V TGCA 5 cut(s) 98, 182, 303, 566, 613
HpyF10VI GCNNNNNNNGC 1 cut(s) 532
HpyF3I CTNAG 3 cut(s) 222, 745, 842
Hsp92II CATG 2 cut(s) 405, 482
HspAI GCGC 1 cut(s) 601
Ksp22I TGATCA 1 cut(s) 187
Kzo9I GATC 5 cut(s) 167, 187, 781, 787, 855
Lsp1109I GCAGC 1 cut(s) 126
LweI GCATC 4 cut(s) 169, 232, 553, 575
MaeIII GTNAC 1 cut(s) 199
MalI GATC 5 cut(s) 169, 189, 783, 789, 857
MboI GATC 5 cut(s) 167, 187, 781, 787, 855
MboII GAAGA 4 cut(s) 60, 340, 419, 556
MfeI CAATTG 1 cut(s) 333
MflI RGATCY 2 cut(s) 787, 855
MhlI GDGCHC 2 cut(s) 56, 100
MluCI AATT 7 cut(s) 326, 333, 434, 459, 528, 604, 646
MmeI TCCRAC 1 cut(s) 761
Mph1103I ATGCAT 1 cut(s) 568
MseI TTAA 5 cut(s) 512, 585, 653, 663, 702
MunI CAATTG 1 cut(s) 333
MwoI GCNNNNNNNGC 1 cut(s) 532
NcoI CCATGG 1 cut(s) 401
NdeI CATATG 1 cut(s) 593
NdeII GATC 5 cut(s) 167, 187, 781, 787, 855
NlaIII CATG 2 cut(s) 405, 482
NlaIV GGNNCC 1 cut(s) 735
NsiI ATGCAT 1 cut(s) 568
PagI TCATGA 1 cut(s) 478
PaqCI CACCTGC 1 cut(s) 173
PfeI GAWTC 1 cut(s) 552
PflMI CCANNNNNTGG 1 cut(s) 170
PkrI GCNGC 1 cut(s) 141
PspFI CCCAGC 1 cut(s) 232
PspN4I GGNNCC 1 cut(s) 735
PspPI GGNCC 1 cut(s) 472
PstNI CAGNNNCTG 1 cut(s) 139
PsuI RGATCY 2 cut(s) 787, 855
RsaI GTAC 3 cut(s) 46, 132, 714
RsaNI GTAC 3 cut(s) 45, 131, 713
SaqAI TTAA 5 cut(s) 512, 585, 653, 663, 702
SatI GCNGC 1 cut(s) 140
Sau3AI GATC 5 cut(s) 167, 187, 781, 787, 855
Sau96I GGNCC 1 cut(s) 472
SduI GDGCHC 2 cut(s) 56, 100
SetI ASST 9 cut(s) 34, 187, 215, 477, 497, 502, 528, 714, 751
SfaNI GCATC 4 cut(s) 169, 232, 553, 575
SinI GGWCC 1 cut(s) 472
SmlI CTYRAG 1 cut(s) 17
SmoI CTYRAG 1 cut(s) 17
Sse9I AATT 7 cut(s) 326, 333, 434, 459, 528, 604, 646
SsiI CCGC 1 cut(s) 808
SspI AATATT 1 cut(s) 509
StyI CCWWGG 1 cut(s) 401
TaaI ACNGT 1 cut(s) 289
TaqI TCGA 1 cut(s) 555
TasI AATT 7 cut(s) 326, 333, 434, 459, 528, 604, 646
TatI WGTACW 1 cut(s) 130
TfiI GAWTC 1 cut(s) 552
Tru1I TTAA 5 cut(s) 512, 585, 653, 663, 702
Tru9I TTAA 5 cut(s) 512, 585, 653, 663, 702
TscAI CASTG 2 cut(s) 151, 226
TseI GCWGC 1 cut(s) 139
TspDTI ATGAA 5 cut(s) 15, 17, 268, 467, 569
TspGWI ACGGA 1 cut(s) 30
TspRI CASTG 2 cut(s) 151, 226
Van91I CCANNNNNTGG 1 cut(s) 170
VneI GTGCAC 1 cut(s) 96
VpaK11BI GGWCC 1 cut(s) 472
XapI RAATTY 2 cut(s) 326, 646
XmiI GTMKAC 1 cut(s) 13
Zsp2I ATGCAT 1 cut(s) 568
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.