pycom02g25930

Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr2
OG0029228
Physical Location & Seq
Forward (+)
23817010 .. 23818668
1659 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 915 bp
ATGCGACAGAAGAAGTATAAGCAGGTGTTCACCAACAACATGGGGAACAAAACTACGCCAGTCATCACAAAGTGCAAAGAGAGTGAGAACTGGACCAGGGTTACGTATAAGCCTGACCTGTCAAAGTTTAATATGACCCATCTGGAAGAAGATGTGGTGGCGTTGATGCAAAAGAGAGTAATTGACTTGGCTGGATGCCTTGGAAAGACAGTGAAGGTTGAGCTGAACGGAACGAGGGTCCCTGTAAAGTCATTTCTTGATTACGTTGACCTCTACTTACAATCTGCTGGAAAATCTAGAGATACTCCCCTTCTAAGGATGACAGAGAAAGTCAATGATAGGTGGGAGATTTGCGTGAGTCTCAGCGACGGCCAGTTTCAACAGGTCAGCTTTGCGAATGGAATTGCAACAATCAAGGGCGGAACTCATGTAAATTATGTAACAGATCAGATCACGAACCATGTGATGAATGTTGTAAATAAGAAGAACAAGAATGCCAACCTCAAAGCCCATAATGTGAAGAATTATCTATGGGTCTTTGTCAATGCTCTTATTGACAACCCTGCATTTGATTCCCAAACAAAGGAAACTCTCACGATTCGCCCAAATAGTTTTGGATCTAAATGTGAACTTACACCAGCCTTCTTAAATAAAGTTGCAAAATCTGGAATTGTGGATAGTCTTCTCTCTTGGGCAAATTTTAAACAGAACAAAGACCTGAAGAAAACTGATGGAACTAAAACAGAGAGGGTTCATAATATCAACAAGCTTGAGGATGCTAACCATGCTGGAGGAAAGAATTCTGAGAAGTGTACTTTGATATTGACAGAAGGAGATTCAGCTAAGGCTCTTGCCATGGCTGGTCTTGCTGTTGTGGGTAGAGATCGATTACGGTGTTTTTCCGTTGAGAGGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko01524 map01524
Pfam Domains
Protein Families
DNA_gyraseB DNA_topoisoIV HATPase_c TOPRIM_C Toprim

Protein Analysis

305

Amino Acids

34.09

Weight (kDa)

9.5

Isoelectric Point (pI)

30.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_gyraseB PF00204 86 - 242 4.4e-25 DNA gyrase B
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: OG0029228)

Species Orthologous Gene IDs
pyrus_communis pycom02g25930
rosa_multiflora Rmu_co8254497.1_g000001

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 13
Acc36I ACCTGC 1 cut(s) 13
AciI CCGC 1 cut(s) 420
AclWI GGATC 1 cut(s) 625
AcoI YGGCCR 1 cut(s) 370
AcsI RAATTY 2 cut(s) 697, 799
AcuI CTGAAG 1 cut(s) 740
AdeI CACNNNGTG 1 cut(s) 72
AfaI GTAC 1 cut(s) 814
AfiI CCNNNNNNNGG 3 cut(s) 315, 583, 909
AgsI TTSAA 1 cut(s) 380
AjnI CCWGG 1 cut(s) 95
AluBI AGCT 4 cut(s) 223, 390, 769, 842
AluI AGCT 4 cut(s) 223, 390, 769, 842
Alw26I GTCTC 1 cut(s) 365
AlwI GGATC 1 cut(s) 625
AoxI GGCC 1 cut(s) 370
ApoI RAATTY 2 cut(s) 697, 799
Asp700I GAANNNNTTC 1 cut(s) 799
AspS9I GGNCC 2 cut(s) 93, 238
AsuHPI GGTGA 1 cut(s) 22
AvaII GGWCC 2 cut(s) 93, 238
BbsI GAAGAC 1 cut(s) 674
BccI CCATC 2 cut(s) 147, 725
BceAI ACGGC 1 cut(s) 385
BciT130I CCWGG 1 cut(s) 97
BcoDI GTCTC 1 cut(s) 365
BfaI CTAG 1 cut(s) 297
BfuAI ACCTGC 1 cut(s) 13
Bme1390I CCNGG 1 cut(s) 97
Bme18I GGWCC 2 cut(s) 93, 238
BmgT120I GGNCC 2 cut(s) 93, 238
BmiI GGNNCC 2 cut(s) 239, 240
BmrFI CCNGG 1 cut(s) 97
BmsI GCATC 3 cut(s) 156, 185, 766
BpiI GAAGAC 1 cut(s) 674
BpmI CTGGAG 1 cut(s) 810
Bpu10I CCTNAGC 1 cut(s) 843
BpuEI CTTGAG 1 cut(s) 791
Bsa29I ATCGAT 1 cut(s) 886
BsaAI YACGTR 1 cut(s) 105
BsaJI CCNNGG 3 cut(s) 96, 199, 855
Bsc4I CCNNNNNNNGG 3 cut(s) 315, 583, 909
Bse1I ACTGG 3 cut(s) 59, 95, 373
BseBI CCWGG 1 cut(s) 97
BseCI ATCGAT 1 cut(s) 886
BseDI CCNNGG 3 cut(s) 96, 199, 855
BseGI GGATG 3 cut(s) 200, 324, 781
BseLI CCNNNNNNNGG 3 cut(s) 315, 583, 909
BseMII CTCAG 2 cut(s) 376, 795
BseNI ACTGG 3 cut(s) 59, 95, 373
BshFI GGCC 1 cut(s) 372
BshVI ATCGAT 1 cut(s) 886
BslFI GGGAC 1 cut(s) 224
BslI CCNNNNNNNGG 3 cut(s) 315, 583, 909
BsmAI GTCTC 1 cut(s) 365
BsmFI GGGAC 1 cut(s) 224
BsmI GAATGC 1 cut(s) 499
BsnI GGCC 1 cut(s) 372
Bsp143I GATC 4 cut(s) 445, 450, 617, 883
Bsp19I CCATGG 1 cut(s) 855
BspACI CCGC 1 cut(s) 420
BspANI GGCC 1 cut(s) 372
BspCNI CTCAG 2 cut(s) 375, 796
BspDI ATCGAT 1 cut(s) 886
BspLI GGNNCC 2 cut(s) 239, 240
BspMI ACCTGC 1 cut(s) 13
BspPI GGATC 1 cut(s) 625
BsrI ACTGG 3 cut(s) 59, 95, 373
BssECI CCNNGG 3 cut(s) 96, 199, 855
BssMI GATC 4 cut(s) 445, 450, 617, 883
BssT1I CCWWGG 2 cut(s) 199, 855
Bst2UI CCWGG 1 cut(s) 97
Bst4CI ACNGT 2 cut(s) 211, 894
BstBAI YACGTR 1 cut(s) 105
BstDEI CTNAG 4 cut(s) 314, 362, 804, 843
BstDSI CCRYGG 1 cut(s) 855
BstF5I GGATG 3 cut(s) 200, 324, 781
BstKTI GATC 4 cut(s) 448, 453, 620, 886
BstMAI GTCTC 1 cut(s) 365
BstMBI GATC 4 cut(s) 445, 450, 617, 883
BstMWI GCNNNNNNNGC 2 cut(s) 785, 866
BstNI CCWGG 1 cut(s) 97
BstSCI CCNGG 1 cut(s) 95
BstSNI TACGTA 1 cut(s) 105
BstV2I GAAGAC 1 cut(s) 674
BstX2I RGATCY 1 cut(s) 617
BstXI CCANNNNNNTGG 1 cut(s) 40
BstYI RGATCY 1 cut(s) 617
Bsu15I ATCGAT 1 cut(s) 886
BsuRI GGCC 1 cut(s) 372
BsuTUI ATCGAT 1 cut(s) 886
BtgI CCRYGG 1 cut(s) 855
BtsCI GGATG 3 cut(s) 200, 324, 781
BtsIMutI CAGTG 1 cut(s) 216
BveI ACCTGC 1 cut(s) 13
Cfr13I GGNCC 2 cut(s) 93, 238
ClaI ATCGAT 1 cut(s) 886
Csp6I GTAC 1 cut(s) 813
CviAII CATG 5 cut(s) 40, 428, 461, 785, 856
CviQI GTAC 1 cut(s) 813
DdeI CTNAG 4 cut(s) 314, 362, 804, 843
DpnI GATC 4 cut(s) 447, 452, 619, 885
DpnII GATC 4 cut(s) 445, 450, 617, 883
DraI TTTAAA 1 cut(s) 703
DraIII CACNNNGTG 1 cut(s) 72
EaeI YGGCCR 1 cut(s) 370
EciI GGCGGA 1 cut(s) 435
Eco105I TACGTA 1 cut(s) 105
Eco130I CCWWGG 2 cut(s) 199, 855
Eco47I GGWCC 2 cut(s) 93, 238
Eco57I CTGAAG 1 cut(s) 740
EcoO109I RGGNCCY 1 cut(s) 238
EcoRI GAATTC 1 cut(s) 799
EcoRII CCWGG 1 cut(s) 95
EcoT14I CCWWGG 2 cut(s) 199, 855
ErhI CCWWGG 2 cut(s) 199, 855
FaeI CATG 5 cut(s) 43, 431, 464, 788, 859
FaqI GGGAC 1 cut(s) 224
FatI CATG 5 cut(s) 39, 427, 460, 784, 855
FokI GGATG 3 cut(s) 207, 331, 788
FspBI CTAG 1 cut(s) 297
GsuI CTGGAG 1 cut(s) 810
HaeIII GGCC 1 cut(s) 372
Hin1II CATG 5 cut(s) 43, 431, 464, 788, 859
HincII GTYRAC 1 cut(s) 268
HindII GTYRAC 1 cut(s) 268
HindIII AAGCTT 1 cut(s) 767
HinfI GANTC 4 cut(s) 358, 572, 598, 836
HphI GGTGA 1 cut(s) 22
Hpy166II GTNNAC 4 cut(s) 30, 268, 629, 813
Hpy188I TCNGA 2 cut(s) 450, 805
Hpy188III TCNNGA 6 cut(s) 143, 257, 297, 454, 595, 666
Hpy8I GTNNAC 4 cut(s) 30, 268, 629, 813
Hpy99I CGWCG 1 cut(s) 371
HpyAV CCTTC 4 cut(s) 208, 320, 652, 824
HpyCH4III ACNGT 2 cut(s) 211, 894
HpyCH4IV ACGT 2 cut(s) 104, 264
HpyCH4V TGCA 5 cut(s) 75, 169, 407, 566, 659
HpyF10VI GCNNNNNNNGC 2 cut(s) 785, 866
HpyF3I CTNAG 4 cut(s) 314, 362, 804, 843
HpySE526I ACGT 2 cut(s) 104, 264
Hsp92II CATG 5 cut(s) 43, 431, 464, 788, 859
KflI GGGWCCC 1 cut(s) 238
Kzo9I GATC 4 cut(s) 445, 450, 617, 883
LweI GCATC 3 cut(s) 156, 185, 766
MaeI CTAG 1 cut(s) 297
MaeII ACGT 2 cut(s) 104, 264
MaeIII GTNAC 2 cut(s) 100, 439
MalI GATC 4 cut(s) 447, 452, 619, 885
MboI GATC 4 cut(s) 445, 450, 617, 883
MboII GAAGA 7 cut(s) 22, 158, 161, 496, 532, 674, 733
MflI RGATCY 1 cut(s) 617
MluCI AATT 7 cut(s) 180, 402, 433, 523, 669, 697, 799
MlyI GAGTC 1 cut(s) 367
MnlI CCTC 7 cut(s) 228, 281, 512, 741, 766, 785, 903
MroXI GAANNNNTTC 1 cut(s) 799
MseI TTAA 3 cut(s) 129, 647, 702
MspR9I CCNGG 1 cut(s) 97
Mva1269I GAATGC 1 cut(s) 499
MvaI CCWGG 1 cut(s) 97
MwoI GCNNNNNNNGC 2 cut(s) 785, 866
NcoI CCATGG 1 cut(s) 855
NdeII GATC 4 cut(s) 445, 450, 617, 883
NlaIII CATG 5 cut(s) 43, 431, 464, 788, 859
NlaIV GGNNCC 2 cut(s) 239, 240
PaqCI CACCTGC 1 cut(s) 13
PctI GAATGC 1 cut(s) 499
PdmI GAANNNNTTC 1 cut(s) 799
PfeI GAWTC 3 cut(s) 572, 598, 836
PleI GAGTC 1 cut(s) 366
PpsI GAGTC 1 cut(s) 366
Ppu21I YACGTR 1 cut(s) 105
PpuMI RGGWCCY 1 cut(s) 238
Psp5II RGGWCCY 1 cut(s) 238
Psp6I CCWGG 1 cut(s) 95
PspGI CCWGG 1 cut(s) 95
PspN4I GGNNCC 2 cut(s) 239, 240
PspPI GGNCC 2 cut(s) 93, 238
PspPPI RGGWCCY 1 cut(s) 238
PsuI RGATCY 1 cut(s) 617
RsaI GTAC 1 cut(s) 814
RsaNI GTAC 1 cut(s) 813
SaqAI TTAA 3 cut(s) 129, 647, 702
Sau3AI GATC 4 cut(s) 445, 450, 617, 883
Sau96I GGNCC 2 cut(s) 93, 238
SchI GAGTC 1 cut(s) 367
ScrFI CCNGG 1 cut(s) 97
SfaNI GCATC 3 cut(s) 156, 185, 766
SinI GGWCC 2 cut(s) 93, 238
SmlI CTYRAG 1 cut(s) 770
SmoI CTYRAG 1 cut(s) 770
SnaBI TACGTA 1 cut(s) 105
Sse9I AATT 7 cut(s) 180, 402, 433, 523, 669, 697, 799
SsiI CCGC 1 cut(s) 420
SspMI CTAG 1 cut(s) 297
StyD4I CCNGG 1 cut(s) 95
StyI CCWWGG 2 cut(s) 199, 855
TaaI ACNGT 2 cut(s) 211, 894
TaiI ACGT 2 cut(s) 107, 267
TaqI TCGA 1 cut(s) 886
TasI AATT 7 cut(s) 180, 402, 433, 523, 669, 697, 799
TatI WGTACW 1 cut(s) 812
TfiI GAWTC 3 cut(s) 572, 598, 836
Tru1I TTAA 3 cut(s) 129, 647, 702
Tru9I TTAA 3 cut(s) 129, 647, 702
TscAI CASTG 1 cut(s) 216
TspDTI ATGAA 2 cut(s) 482, 743
TspGWI ACGGA 2 cut(s) 243, 892
TspRI CASTG 1 cut(s) 216
VpaK11BI GGWCC 2 cut(s) 93, 238
XapI RAATTY 2 cut(s) 697, 799
XbaI TCTAGA 1 cut(s) 296
XmnI GAANNNNTTC 1 cut(s) 799
XspI CTAG 1 cut(s) 297
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.