pycom11g13880

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
Chr11
OG0020383
Physical Location & Seq
Forward (+)
13697660 .. 13700117
2458 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom11g13880.7

Sequence Viewer

Length: 1665 bp
ATGGAAAGTGAAAATAATCAATTTTCGTTAAAAACCAACCATGCCAGTGAAATCGATGAAATTTTTAGTTGTGACGGAAACACGAATGATACAGCACGTATTTTTATTTATATAAAAACATATAATGTATCTCGCTCTTGTACTGGCCAGCCATTGTACAAACCTGCCGCAAAGTCGATGAAACAAGACTCGAAAAATCTAGCTTTATCAAAACCCCTAATAAACAGAATGGAGGGTCAGAAATACAGTGAACCCAAAACAACAGCAGAATTTAAGATGAAAATAACTTTAACATTTTCAATTTTAACCAAAAATCATATTATAATTTTATTTAATGCCTTCCAAAACTCTTTGCTACGCTCTGTCGCCCCCCTCTCTATCTCCTCTTCCGTTGCTCCGTCGCCCCAACAGTACTACCGTCACTCACTTCCTCATTGTCTCCGCCCATTGACGCCGAACAGCACTGCATCAGCGTCTACAACAACACCGTTGGAGTTTCCCGTCGAGATTCACCAAGAGGAGAGGGTCTACATCTCGGAGTTGATCTTCGGACACCTCCTGACCAGTATCAACTATGATGATACGGTGAAGAAGACCACCGGTGGACGCAAAGGCTACGGCGCCAAGCTTACGAACATTTTCTCCACCGATATAAGTAGGTATAAAATTGGTTTTTGTGTTTCGTGGAATTTAGGAATTAGGATTTGGTCTTCTATTTTAGGGTTTGGTGTGTATAAAATTGTGAATTTTTGGGTTTCAATGTTTGGTGGAATTGCAGAATTAGGATTTCGTCTTCCATTTTGTGATTGTTCGTTTTATGGACTTAAAAGTATGTTTATCTTGAGCCCAACAGAAGAGAATTTTCAAAGAATTTTGAGATTTCATTTTAAGAATCCACACACACACACACACACACACACACACATATATATATATATGCACACATTTAATCAGAAATATGAATATATACTAGCTAGTATGCATATAGACAGAAACTTGGCAACGTCAAACCAAAAGTATACTTTAACAGAAGTGAAGAACTTTACCCCGATCCCTGATTTTTTTTTTTTTTTTTCTTTTGAAGTCCAGTGTCCATACAACCAAATTCTTAGACTTTTCCTTTTAAGAGTTATTGTCAAATTATATTGGAAAGTGGTCTTGTTATCGCATCATGAAACTAGAATAAATATCTGCTCTCATTCTTCCCACCTAATAACCTTGTGTGAAGCTATTTTGACAAAGGACCGGAAAGAAAAAGGGAGACACACTTGTTACATATATACTCGATCCTTATTCGATGGAATTTATAGGATCCTGAAACAAAAAAGCCTTGTACACACATGTTACATATATACGAAGGTAACAATGCTTTTTGTTACTTATGCTCCCAAGCAATCGAAACCGTCGGATGATTATGAAAATTTAGAGATTTTCCCTGGCATTACTATTGATTTTAATCATAGTAATTATCTTGAAAATATCCTTAAAGCTTATAGACGGAATGTAGAGAAATTAAAGGAGATTACACAGTTGGCTGCTTGCCAACCCCTTAGAATCAACACGGCAATAAGGAGACTAGTCAGTTGCATGGATTCCAAATTTGAATGGGTTTGCATGCAGAACCATGTTGAACAATGGTACAAGGATGTAACTTTGGATGATTAG
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

555

Amino Acids

64.46

Weight (kDa)

9.13

Isoelectric Point (pI)

42.64

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0020383)

Species Orthologous Gene IDs
malus_domestica MD01G1165800.v1.1
prunus_persica Prupe.2G018500_v2.0.a1
pyrus_communis pycom11g13880
rosa_multiflora Rmu_co8187766.1_g000001
rosa_samantha Rh1CG375500 Rh1DG393000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 323
Acc36I ACCTGC 1 cut(s) 172
AccB1I GGYRCC 1 cut(s) 620
AccI GTMKAC 3 cut(s) 476, 528, 1019
AciI CCGC 2 cut(s) 168, 442
AclWI GGATC 4 cut(s) 1045, 1281, 1306, 1319
AcoI YGGCCR 1 cut(s) 145
AcyI GRCGYC 2 cut(s) 452, 621
AfaI GTAC 5 cut(s) 142, 158, 413, 1335, 1640
AflIII ACRYGT 1 cut(s) 1340
AgeI ACCGGT 1 cut(s) 599
AgsI TTSAA 7 cut(s) 300, 759, 866, 1082, 1475, 1604, 1631
AhlI ACTAGT 1 cut(s) 1576
AjnI CCWGG 1 cut(s) 1435
AjuI GAANNNNNNNTTGG 2 cut(s) 688, 720
AloI GAACNNNNNNTCC 2 cut(s) 626, 658
AluBI AGCT 5 cut(s) 203, 628, 974, 1229, 1490
AluI AGCT 5 cut(s) 203, 628, 974, 1229, 1490
Alw26I GTCTC 3 cut(s) 443, 1255, 1567
AlwI GGATC 4 cut(s) 1045, 1281, 1306, 1319
AoxI GGCC 1 cut(s) 145
ApeKI GCWGC 1 cut(s) 1535
AsiGI ACCGGT 1 cut(s) 599
Asp700I GAANNNNTTC 1 cut(s) 638
AspLEI GCGC 1 cut(s) 623
AspS9I GGNCC 1 cut(s) 1243
AsuHPI GGTGA 2 cut(s) 503, 598
AvaII GGWCC 1 cut(s) 1243
BalI TGGCCA 1 cut(s) 147
BamHI GGATCC 1 cut(s) 1311
BanI GGYRCC 1 cut(s) 620
BanII GRGCYC 1 cut(s) 848
BbsI GAAGAC 3 cut(s) 599, 702, 785
BbvI GCAGC 1 cut(s) 1522
BccI CCATC 1 cut(s) 1292
BceAI ACGGC 2 cut(s) 634, 1578
BciT130I CCWGG 1 cut(s) 1437
BcoDI GTCTC 3 cut(s) 443, 1255, 1567
BcuI ACTAGT 1 cut(s) 1576
BfaI CTAG 5 cut(s) 200, 971, 975, 1179, 1577
BfoI RGCGCY 1 cut(s) 624
BfuAI ACCTGC 1 cut(s) 172
BisI GCNGC 2 cut(s) 168, 1536
BlsI GCNGC 2 cut(s) 169, 1537
BmcAI AGTACT 1 cut(s) 413
Bme1390I CCNGG 1 cut(s) 1437
Bme18I GGWCC 1 cut(s) 1243
BmgT120I GGNCC 1 cut(s) 1243
BmiI GGNNCC 2 cut(s) 622, 1313
BmrFI CCNGG 1 cut(s) 1437
BmsI GCATC 2 cut(s) 476, 1177
BpiI GAAGAC 3 cut(s) 599, 702, 785
BpuEI CTTGAG 1 cut(s) 862
Bsa29I ATCGAT 1 cut(s) 54
BsaAI YACGTR 1 cut(s) 98
BsaBI GATNNNNATC 1 cut(s) 1455
BsaHI GRCGYC 2 cut(s) 452, 621
BsaJI CCNNGG 1 cut(s) 1435
BsaWI WCCGGW 2 cut(s) 599, 1245
BsaXI ACNNNNNCTCC 4 cut(s) 626, 656, 1369, 1399
Bse118I RCCGGY 1 cut(s) 599
Bse1I ACTGG 4 cut(s) 45, 148, 564, 1087
Bse8I GATNNNNATC 1 cut(s) 1455
BseBI CCWGG 1 cut(s) 1437
BseCI ATCGAT 1 cut(s) 54
BseDI CCNNGG 1 cut(s) 1435
BseGI GGATG 3 cut(s) 1414, 1651, 1663
BseJI GATNNNNATC 1 cut(s) 1455
BseNI ACTGG 4 cut(s) 45, 148, 564, 1087
BseRI GAGGAG 2 cut(s) 373, 533
BseXI GCAGC 1 cut(s) 1522
BshFI GGCC 1 cut(s) 147
BshNI GGYRCC 1 cut(s) 620
BshTI ACCGGT 1 cut(s) 599
BshVI ATCGAT 1 cut(s) 54
BsiSI CCGG 2 cut(s) 600, 1246
BsmAI GTCTC 3 cut(s) 443, 1255, 1567
BsnI GGCC 1 cut(s) 147
Bsp1286I GDGCHC 1 cut(s) 848
Bsp1407I TGTACA 2 cut(s) 156, 1333
Bsp143I GATC 4 cut(s) 543, 1050, 1286, 1311
BspACI CCGC 2 cut(s) 168, 442
BspANI GGCC 1 cut(s) 147
BspDI ATCGAT 1 cut(s) 54
BspHI TCATGA 1 cut(s) 1171
BspLI GGNNCC 2 cut(s) 622, 1313
BspMI ACCTGC 1 cut(s) 172
BspPI GGATC 4 cut(s) 1045, 1281, 1306, 1319
BspT107I GGYRCC 1 cut(s) 620
BsrFI RCCGGY 1 cut(s) 599
BsrGI TGTACA 2 cut(s) 156, 1333
BsrI ACTGG 4 cut(s) 45, 148, 564, 1087
BssAI RCCGGY 1 cut(s) 599
BssECI CCNNGG 1 cut(s) 1435
BssMI GATC 4 cut(s) 543, 1050, 1286, 1311
BssNAI GTATAC 1 cut(s) 1020
BssNI GRCGYC 2 cut(s) 452, 621
Bst1107I GTATAC 1 cut(s) 1020
Bst2UI CCWGG 1 cut(s) 1437
Bst4CI ACNGT 7 cut(s) 248, 411, 419, 489, 586, 1404, 1530
Bst6I CTCTTC 2 cut(s) 391, 849
BstACI GRCGYC 2 cut(s) 452, 621
BstAUI TGTACA 2 cut(s) 156, 1333
BstBAI YACGTR 1 cut(s) 98
BstC8I GCNNGC 3 cut(s) 149, 1540, 1616
BstDEI CTNAG 2 cut(s) 1109, 1550
BstF5I GGATG 3 cut(s) 1414, 1651, 1663
BstH2I RGCGCY 1 cut(s) 624
BstHHI GCGC 1 cut(s) 623
BstKTI GATC 4 cut(s) 546, 1053, 1289, 1314
BstMAI GTCTC 3 cut(s) 443, 1255, 1567
BstMBI GATC 4 cut(s) 543, 1050, 1286, 1311
BstNI CCWGG 1 cut(s) 1437
BstNSI RCATGY 2 cut(s) 1344, 1618
BstSCI CCNGG 1 cut(s) 1435
BstV1I GCAGC 1 cut(s) 1522
BstV2I GAAGAC 3 cut(s) 599, 702, 785
BstX2I RGATCY 1 cut(s) 1311
BstYI RGATCY 1 cut(s) 1311
BstZ17I GTATAC 1 cut(s) 1020
Bsu15I ATCGAT 1 cut(s) 54
BsuRI GGCC 1 cut(s) 147
BsuTUI ATCGAT 1 cut(s) 54
BtsCI GGATG 3 cut(s) 1414, 1651, 1663
BtsI GCAGTG 1 cut(s) 462
BtsIMutI CAGTG 4 cut(s) 52, 253, 462, 1094
BveI ACCTGC 1 cut(s) 172
Cac8I GCNNGC 3 cut(s) 149, 1540, 1616
CciI TCATGA 1 cut(s) 1171
CfoI GCGC 1 cut(s) 623
Cfr10I RCCGGY 1 cut(s) 599
Cfr13I GGNCC 1 cut(s) 1243
ClaI ATCGAT 1 cut(s) 54
CseI GACGC 3 cut(s) 460, 462, 615
Csp6I GTAC 5 cut(s) 141, 157, 412, 1334, 1639
CspAI ACCGGT 1 cut(s) 599
CviAII CATG 6 cut(s) 41, 1172, 1341, 1588, 1615, 1625
CviQI GTAC 5 cut(s) 141, 157, 412, 1334, 1639
DdeI CTNAG 2 cut(s) 1109, 1550
DinI GGCGCC 1 cut(s) 622
DpnI GATC 4 cut(s) 545, 1052, 1288, 1313
DpnII GATC 4 cut(s) 543, 1050, 1286, 1311
EaeI YGGCCR 1 cut(s) 145
Eam1104I CTCTTC 2 cut(s) 391, 849
EarI CTCTTC 2 cut(s) 391, 849
EciI GGCGGA 1 cut(s) 431
Eco24I GRGCYC 1 cut(s) 848
Eco47I GGWCC 1 cut(s) 1243
EcoRII CCWGG 1 cut(s) 1435
EcoT22I ATGCAT 1 cut(s) 984
EcoT38I GRGCYC 1 cut(s) 848
EgeI GGCGCC 1 cut(s) 622
EheI GGCGCC 1 cut(s) 622
FaeI CATG 6 cut(s) 44, 1175, 1344, 1591, 1618, 1628
FatI CATG 6 cut(s) 40, 1171, 1340, 1587, 1614, 1624
FblI GTMKAC 3 cut(s) 476, 528, 1019
Fnu4HI GCNGC 2 cut(s) 168, 1536
FokI GGATG 2 cut(s) 1421, 1658
FriOI GRGCYC 1 cut(s) 848
Fsp4HI GCNGC 2 cut(s) 168, 1536
FspBI CTAG 5 cut(s) 200, 971, 975, 1179, 1577
GlaI GCGC 1 cut(s) 622
GluI GCNGC 2 cut(s) 168, 1536
HaeII RGCGCY 1 cut(s) 624
HaeIII GGCC 1 cut(s) 147
HapII CCGG 2 cut(s) 600, 1246
HgaI GACGC 3 cut(s) 460, 462, 615
HhaI GCGC 1 cut(s) 623
Hin1I GRCGYC 2 cut(s) 452, 621
Hin1II CATG 6 cut(s) 44, 1175, 1344, 1591, 1618, 1628
Hin6I GCGC 1 cut(s) 621
HinP1I GCGC 1 cut(s) 621
HindIII AAGCTT 2 cut(s) 626, 1488
HinfI GANTC 5 cut(s) 188, 508, 892, 1554, 1592
HpaII CCGG 2 cut(s) 600, 1246
HphI GGTGA 2 cut(s) 503, 598
Hpy166II GTNNAC 6 cut(s) 251, 477, 529, 605, 1020, 1336
Hpy188I TCNGA 5 cut(s) 240, 538, 551, 954, 1408
Hpy188III TCNNGA 6 cut(s) 505, 559, 841, 1172, 1315, 1472
Hpy8I GTNNAC 6 cut(s) 251, 477, 529, 605, 1020, 1336
Hpy99I CGWCG 3 cut(s) 403, 506, 1408
HpyAV CCTTC 2 cut(s) 349, 1351
HpyCH4III ACNGT 7 cut(s) 248, 411, 419, 489, 586, 1404, 1530
HpyCH4IV ACGT 2 cut(s) 97, 1004
HpyCH4V TGCA 7 cut(s) 467, 776, 940, 982, 1587, 1614, 1618
HpyF3I CTNAG 2 cut(s) 1109, 1550
HpySE526I ACGT 2 cut(s) 97, 1004
Hsp92I GRCGYC 2 cut(s) 452, 621
Hsp92II CATG 6 cut(s) 44, 1175, 1344, 1591, 1618, 1628
HspAI GCGC 1 cut(s) 621
KasI GGCGCC 1 cut(s) 620
Kzo9I GATC 4 cut(s) 543, 1050, 1286, 1311
LmnI GCTCC 2 cut(s) 400, 1390
Lsp1109I GCAGC 1 cut(s) 1522
LweI GCATC 2 cut(s) 476, 1177
MaeI CTAG 5 cut(s) 200, 971, 975, 1179, 1577
MaeII ACGT 2 cut(s) 97, 1004
MaeIII GTNAC 7 cut(s) 71, 419, 1271, 1343, 1360, 1375, 1648
MalI GATC 4 cut(s) 545, 1052, 1288, 1313
MboI GATC 4 cut(s) 543, 1050, 1286, 1311
MboII GAAGA 9 cut(s) 378, 538, 601, 604, 702, 785, 866, 1048, 1194
MflI RGATCY 1 cut(s) 1311
MhlI GDGCHC 1 cut(s) 848
MlsI TGGCCA 1 cut(s) 147
MluNI TGGCCA 1 cut(s) 147
Mly113I GGCGCC 1 cut(s) 621
MlyI GAGTC 1 cut(s) 182
MmeI TCCRAC 2 cut(s) 471, 1386
MnlI CCTC 7 cut(s) 226, 383, 394, 441, 511, 516, 566
Mox20I TGGCCA 1 cut(s) 147
Mph1103I ATGCAT 1 cut(s) 984
MroXI GAANNNNTTC 1 cut(s) 638
MscI TGGCCA 1 cut(s) 147
MslI CAYNNNNRTG 1 cut(s) 45
Msp20I TGGCCA 1 cut(s) 147
MspI CCGG 2 cut(s) 600, 1246
MspR9I CCNGG 1 cut(s) 1437
MvaI CCWGG 1 cut(s) 1437
NarI GGCGCC 1 cut(s) 621
NdeII GATC 4 cut(s) 543, 1050, 1286, 1311
NlaIII CATG 6 cut(s) 44, 1175, 1344, 1591, 1618, 1628
NlaIV GGNNCC 2 cut(s) 622, 1313
NmuCI GTSAC 2 cut(s) 71, 419
NsiI ATGCAT 1 cut(s) 984
NspI RCATGY 2 cut(s) 1344, 1618
PaeI GCATGC 1 cut(s) 1618
PagI TCATGA 1 cut(s) 1171
PciI ACATGT 1 cut(s) 1340
PdmI GAANNNNTTC 1 cut(s) 638
PfeI GAWTC 4 cut(s) 508, 892, 1554, 1592
PinAI ACCGGT 1 cut(s) 599
PkrI GCNGC 2 cut(s) 169, 1537
PleI GAGTC 1 cut(s) 182
PluTI GGCGCC 1 cut(s) 624
PpsI GAGTC 1 cut(s) 182
Ppu21I YACGTR 1 cut(s) 98
PscI ACATGT 1 cut(s) 1340
PsiI TTATAA 1 cut(s) 323
Psp6I CCWGG 1 cut(s) 1435
PspGI CCWGG 1 cut(s) 1435
PspN4I GGNNCC 2 cut(s) 622, 1313
PspPI GGNCC 1 cut(s) 1243
PsuI RGATCY 1 cut(s) 1311
RsaI GTAC 5 cut(s) 142, 158, 413, 1335, 1640
RsaNI GTAC 5 cut(s) 141, 157, 412, 1334, 1639
RseI CAYNNNNRTG 1 cut(s) 45
SatI GCNGC 2 cut(s) 168, 1536
Sau3AI GATC 4 cut(s) 543, 1050, 1286, 1311
Sau96I GGNCC 1 cut(s) 1243
ScaI AGTACT 1 cut(s) 413
SchI GAGTC 1 cut(s) 182
ScrFI CCNGG 1 cut(s) 1437
SduI GDGCHC 1 cut(s) 848
SfaNI GCATC 2 cut(s) 476, 1177
SfoI GGCGCC 1 cut(s) 622
SgrAI CRCCGGYG 1 cut(s) 599
SinI GGWCC 1 cut(s) 1243
SmiMI CAYNNNNRTG 1 cut(s) 45
SmlI CTYRAG 1 cut(s) 841
SmoI CTYRAG 1 cut(s) 841
SpeI ACTAGT 1 cut(s) 1576
SphI GCATGC 1 cut(s) 1618
SsiI CCGC 2 cut(s) 168, 442
SspDI GGCGCC 1 cut(s) 620
SspMI CTAG 5 cut(s) 200, 971, 975, 1179, 1577
StyD4I CCNGG 1 cut(s) 1435
TaaI ACNGT 7 cut(s) 248, 411, 419, 489, 586, 1404, 1530
TaiI ACGT 2 cut(s) 100, 1007
TaqI TCGA 7 cut(s) 54, 176, 191, 504, 1285, 1296, 1397
TatI WGTACW 4 cut(s) 140, 156, 411, 1333
TauI GCSGC 1 cut(s) 170
TfiI GAWTC 4 cut(s) 508, 892, 1554, 1592
TscAI CASTG 4 cut(s) 52, 253, 469, 1094
TseFI GTSAC 2 cut(s) 71, 419
TseI GCWGC 1 cut(s) 1535
Tsp45I GTSAC 2 cut(s) 71, 419
TspDTI ATGAA 7 cut(s) 72, 194, 293, 872, 975, 1188, 1431
TspGWI ACGGA 4 cut(s) 90, 379, 387, 1513
TspRI CASTG 4 cut(s) 52, 253, 469, 1094
VpaK11BI GGWCC 1 cut(s) 1243
XceI RCATGY 2 cut(s) 1344, 1618
XmiI GTMKAC 3 cut(s) 476, 528, 1019
XmnI GAANNNNTTC 1 cut(s) 638
XspI CTAG 5 cut(s) 200, 971, 975, 1179, 1577
ZrmI AGTACT 1 cut(s) 413
Zsp2I ATGCAT 1 cut(s) 984
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.