Rroxscaffold_5G00368540

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0008992
Physical Location & Seq
Forward (+)
50309579 .. 50317188
7610 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00368540.1

Sequence Viewer

Length: 1458 bp
ATGGAGCACCGTACTATAATAATCCTCTGGATTACAGTCAGCCTTATTTCACTCCAGAATCCAAGCAATGTACAAGGAAGATATCACTACCATAAAAAGACCAATAAAAGGTCACAATCCCCTACTCCTTCTCCTGAATCCCCTGAATCTCCAGAGCCGGTAGCTCCTTCAACCCCTGTGGCTCCTTCTACACCAAGCACTAGTCCTCCGAATGTTCCGTCGGACCCTTACCCGGACGACCCGGGAAACAACTCCAACACTACGGATAGTACATTCAACGTCATGTCGTTCGGGGCCGTCGGAGACGGCGATGCTGATGACACCAAGGCGTTCAGGGACGCTTGGAAAGCGGCATGTGCAGTTGAATCCGCTGTTATTTTGGCTCCGGCTGATTACTGCTTCAAGATCACTTCCACCATTTTTTCAGGTCCTTGCAAGCCTGGACTAGTATTTCAAGTCGATGGGATTTTGATGGCACCAGACGGGCCAAAGGCTTGGCCAAAAGAAGACAGCAATAAGCAATGGCTTGTGTTTTATCGACTTGACCAAATGACTTTCACTGGAAGTGGAACCATCGAAGGCAATGGCCAAAAATGGTGGGAACTGCCTTGCAAGCCTCACAGGGGTCCCAATGGATCCACAGCATCAGGACCATGTGATAGCCCTGCTATGATTCGATTCTTCATGAGCACCAATTTGTTGGTGAGAGGGTTAACTATCCAAAACAGTCCAATGTTCCACATGAAATTCGATGGCTGCGAAGGAGTGCAGATTGAAAAGCTGACGATTTCTTCCCCGAAACTTAGCCCTAACACAGATGGAATCCACATAGAGAACACAAAATCTGTTGGAATATATGACTCAAAGATAAGCAACGGGGATGACTGTATTTCAATAGGAACAGGATGTGCCAACGTTGATATAATGGGGGTCACTTGCGGGCCAAGTCACGGAATTAGCATTGGGAGCCTTGGTGTCCACAACTCGCAGGCATGTGTTTCCAACATCACAGTCCGTAATGTCGTCATAAGGGAATCGGATAACGGAGTCCGAATCAAGACATGGCAAGGTGGAACGGGCTGCGTGTCGGGAATATTGTTCGAAAACATCAACATGGACAATGTGATGAACTGCATGCTCGTCGACCAGTACTACTGCCTCTCCAAGGCTTGCTTGAACCAAACCTCGGCCGTATACGTCACCGACCTGACCTATCGAATGATCAAGGGTACATATGATGTGAGGAGGCCTCCAATTCACTTTGCTTGCAGTGAAACAGTGGCTTGCACCAACATTACGCTCTCTGAAGTTGAGCTTTACCCGCATGAAGGTGAACTAATGGATGATCCATTTTGTTGGAATGCTTATGGGACTCAAGAGACTCCAACTATTCCCCCTATTGAGTGTTTACAAGATGGTAAGCCCGAGGGTTTGGCAGAGGTTCAGTATACTTGCTAG

Protein Analysis

485

Amino Acids

52.69

Weight (kDa)

5.05

Isoelectric Point (pI)

53.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 126 - 439 1.6e-83 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 475
AccI GTMKAC 3 cut(s) 1143, 1194, 1448
AciI CCGC 4 cut(s) 350, 369, 939, 1322
AclI AACGTT 1 cut(s) 915
AclWI GGATC 3 cut(s) 630, 643, 1340
AcoI YGGCCR 3 cut(s) 497, 586, 1188
AcsI RAATTY 1 cut(s) 746
AcuI CTGAAG 1 cut(s) 1326
AfaI GTAC 5 cut(s) 13, 72, 271, 1151, 1231
AfiI CCNNNNNNNGG 7 cut(s) 108, 232, 623, 950, 1165, 1186, 1328
AgsI TTSAA 8 cut(s) 171, 277, 365, 403, 455, 776, 894, 1177
AhlI ACTAGT 2 cut(s) 200, 445
AjnI CCWGG 1 cut(s) 439
AluBI AGCT 3 cut(s) 164, 781, 1315
AluI AGCT 3 cut(s) 164, 781, 1315
Alw21I GWGCWC 2 cut(s) 9, 692
Alw26I GTCTC 2 cut(s) 297, 1373
AlwI GGATC 3 cut(s) 630, 643, 1340
Ama87I CYCGRG 2 cut(s) 241, 1424
AoxI GGCC 7 cut(s) 294, 485, 497, 586, 941, 1188, 1247
ApeKI GCWGC 2 cut(s) 756, 1080
ApoI RAATTY 1 cut(s) 746
ArsI GACNNNNNNTTYG 2 cut(s) 203, 235
AspS9I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
AsuC2I CCSGG 3 cut(s) 233, 242, 243
AsuHPI GGTGA 3 cut(s) 715, 1192, 1343
AsuII TTCGAA 1 cut(s) 1101
AvaI CYCGRG 2 cut(s) 241, 1424
AvaII GGWCC 4 cut(s) 223, 428, 626, 650
BalI TGGCCA 2 cut(s) 499, 588
BamHI GGATCC 1 cut(s) 635
BanI GGYRCC 1 cut(s) 475
BbsI GAAGAC 1 cut(s) 513
Bbv12I GWGCWC 2 cut(s) 9, 692
BbvI GCAGC 2 cut(s) 743, 1067
BccI CCATC 6 cut(s) 455, 466, 581, 746, 812, 1409
BceAI ACGGC 3 cut(s) 281, 322, 1175
BcgI CGANNNNNNTGC 2 cut(s) 1123, 1157
BciT130I CCWGG 1 cut(s) 441
BclI TGATCA 1 cut(s) 1221
BcnI CCSGG 3 cut(s) 233, 242, 243
BcoDI GTCTC 2 cut(s) 297, 1373
BcuI ACTAGT 2 cut(s) 200, 445
BfaI CTAG 3 cut(s) 201, 446, 1456
BisI GCNGC 3 cut(s) 351, 757, 1081
BlsI GCNGC 3 cut(s) 352, 758, 1082
BmcAI AGTACT 1 cut(s) 1151
Bme1390I CCNGG 4 cut(s) 233, 242, 243, 441
Bme18I GGWCC 4 cut(s) 223, 428, 626, 650
BmeT110I CYCGRG 2 cut(s) 241, 1424
BmgT120I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
BmrFI CCNGG 4 cut(s) 233, 242, 243, 441
BmsI GCATC 2 cut(s) 301, 653
BpiI GAAGAC 1 cut(s) 513
BplI GAGNNNNNCTC 2 cut(s) 1234, 1266
BpmI CTGGAG 2 cut(s) 38, 135
Bpu14I TTCGAA 1 cut(s) 1101
BpuEI CTTGAG 1 cut(s) 1359
BpuMI CCSGG 3 cut(s) 233, 242, 243
BsaJI CCNNGG 6 cut(s) 241, 324, 970, 1164, 1185, 1425
BsaXI ACNNNNNCTCC 8 cut(s) 115, 145, 190, 220, 958, 988, 1145, 1175
Bsc4I CCNNNNNNNGG 7 cut(s) 108, 232, 623, 950, 1165, 1186, 1328
Bse118I RCCGGY 1 cut(s) 157
Bse1I ACTGG 2 cut(s) 565, 1147
Bse3DI GCAATG 3 cut(s) 73, 527, 589
BseBI CCWGG 1 cut(s) 441
BseDI CCNNGG 6 cut(s) 241, 324, 970, 1164, 1185, 1425
BseGI GGATG 3 cut(s) 886, 911, 1348
BseLI CCNNNNNNNGG 7 cut(s) 108, 232, 623, 950, 1165, 1186, 1328
BseMI GCAATG 3 cut(s) 73, 527, 589
BseNI ACTGG 2 cut(s) 565, 1147
BseRI GAGGAG 1 cut(s) 1258
BseX3I CGGCCG 1 cut(s) 1188
BseXI GCAGC 2 cut(s) 743, 1067
BsgI GTGCAG 2 cut(s) 378, 788
Bsh1285I CGRYCG 1 cut(s) 1191
BshFI GGCC 7 cut(s) 296, 487, 499, 588, 943, 1190, 1249
BshNI GGYRCC 1 cut(s) 475
BsiEI CGRYCG 1 cut(s) 1191
BsiHKAI GWGCWC 2 cut(s) 9, 692
BsiHKCI CYCGRG 2 cut(s) 241, 1424
BsiSI CCGG 4 cut(s) 158, 233, 242, 386
BslFI GGGAC 3 cut(s) 350, 612, 1384
BslI CCNNNNNNNGG 7 cut(s) 108, 232, 623, 950, 1165, 1186, 1328
BsmAI GTCTC 2 cut(s) 297, 1373
BsmBI CGTCTC 1 cut(s) 297
BsmFI GGGAC 3 cut(s) 350, 612, 1384
BsmI GAATGC 1 cut(s) 1366
BsnI GGCC 7 cut(s) 296, 487, 499, 588, 943, 1190, 1249
BsoBI CYCGRG 2 cut(s) 241, 1424
Bsp119I TTCGAA 1 cut(s) 1101
Bsp1286I GDGCHC 2 cut(s) 9, 692
Bsp1407I TGTACA 1 cut(s) 70
Bsp143I GATC 4 cut(s) 405, 635, 1221, 1345
BspACI CCGC 4 cut(s) 350, 369, 939, 1322
BspANI GGCC 7 cut(s) 296, 487, 499, 588, 943, 1190, 1249
BspHI TCATGA 1 cut(s) 684
BspPI GGATC 3 cut(s) 630, 643, 1340
BspT104I TTCGAA 1 cut(s) 1101
BspT107I GGYRCC 1 cut(s) 475
BsrDI GCAATG 3 cut(s) 73, 527, 589
BsrFI RCCGGY 1 cut(s) 157
BsrGI TGTACA 1 cut(s) 70
BsrI ACTGG 2 cut(s) 565, 1147
BssAI RCCGGY 1 cut(s) 157
BssECI CCNNGG 6 cut(s) 241, 324, 970, 1164, 1185, 1425
BssMI GATC 4 cut(s) 405, 635, 1221, 1345
BssNAI GTATAC 2 cut(s) 1195, 1449
BssT1I CCWWGG 3 cut(s) 324, 970, 1164
Bst1107I GTATAC 2 cut(s) 1195, 1449
Bst2UI CCWGG 1 cut(s) 441
Bst4CI ACNGT 6 cut(s) 11, 37, 728, 887, 1012, 1279
BstAUI TGTACA 1 cut(s) 70
BstBI TTCGAA 1 cut(s) 1101
BstC8I GCNNGC 8 cut(s) 437, 614, 941, 990, 1136, 1171, 1267, 1285
BstDEI CTNAG 1 cut(s) 803
BstENI CCTNNNNNAGG 1 cut(s) 1163
BstF5I GGATG 3 cut(s) 886, 911, 1348
BstKTI GATC 4 cut(s) 408, 638, 1224, 1348
BstMAI GTCTC 2 cut(s) 297, 1373
BstMBI GATC 4 cut(s) 405, 635, 1221, 1345
BstMCI CGRYCG 1 cut(s) 1191
BstMWI GCNNNNNNNGC 5 cut(s) 347, 356, 613, 966, 1321
BstNI CCWGG 1 cut(s) 441
BstNSI RCATGY 3 cut(s) 357, 996, 1138
BstSCI CCNGG 4 cut(s) 231, 240, 241, 439
BstV1I GCAGC 2 cut(s) 743, 1067
BstV2I GAAGAC 1 cut(s) 513
BstX2I RGATCY 1 cut(s) 635
BstXI CCANNNNNNTGG 3 cut(s) 495, 700, 1356
BstYI RGATCY 1 cut(s) 635
BstZ17I GTATAC 2 cut(s) 1195, 1449
BstZI CGGCCG 1 cut(s) 1188
BsuRI GGCC 7 cut(s) 296, 487, 499, 588, 943, 1190, 1249
BtgZI GCGATG 1 cut(s) 324
BtsCI GGATG 3 cut(s) 886, 911, 1348
BtsI GCAGTG 1 cut(s) 1276
BtsIMutI CAGTG 3 cut(s) 558, 1276, 1284
Cac8I GCNNGC 8 cut(s) 437, 614, 941, 990, 1136, 1171, 1267, 1285
CciI TCATGA 1 cut(s) 684
Cfr10I RCCGGY 1 cut(s) 157
Cfr13I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
Cfr9I CCCGGG 1 cut(s) 241
CseI GACGC 1 cut(s) 347
Csp6I GTAC 5 cut(s) 12, 71, 270, 1150, 1230
CspCI CAANNNNNGTGG 4 cut(s) 159, 194, 578, 613
CviQI GTAC 5 cut(s) 12, 71, 270, 1150, 1230
DdeI CTNAG 1 cut(s) 803
DpnI GATC 4 cut(s) 407, 637, 1223, 1347
DpnII GATC 4 cut(s) 405, 635, 1221, 1345
EaeI YGGCCR 3 cut(s) 497, 586, 1188
EagI CGGCCG 1 cut(s) 1188
EclXI CGGCCG 1 cut(s) 1188
Eco130I CCWWGG 3 cut(s) 324, 970, 1164
Eco147I AGGCCT 1 cut(s) 1249
Eco32I GATATC 1 cut(s) 83
Eco47I GGWCC 4 cut(s) 223, 428, 626, 650
Eco52I CGGCCG 1 cut(s) 1188
Eco57I CTGAAG 1 cut(s) 1326
Eco88I CYCGRG 2 cut(s) 241, 1424
EcoNI CCTNNNNNAGG 1 cut(s) 1163
EcoO109I RGGNCCY 2 cut(s) 428, 626
EcoRII CCWGG 1 cut(s) 439
EcoRV GATATC 1 cut(s) 83
EcoT14I CCWWGG 3 cut(s) 324, 970, 1164
ErhI CCWWGG 3 cut(s) 324, 970, 1164
Esp3I CGTCTC 1 cut(s) 297
FalI AAGNNNNNCTT 4 cut(s) 1157, 1189, 1299, 1331
FaqI GGGAC 3 cut(s) 350, 612, 1384
FauI CCCGC 2 cut(s) 932, 1329
FauNDI CATATG 1 cut(s) 1234
FbaI TGATCA 1 cut(s) 1221
FblI GTMKAC 3 cut(s) 1143, 1194, 1448
Fnu4HI GCNGC 3 cut(s) 351, 757, 1081
FokI GGATG 3 cut(s) 893, 918, 1355
Fsp4HI GCNGC 3 cut(s) 351, 757, 1081
FspBI CTAG 3 cut(s) 201, 446, 1456
GluI GCNGC 3 cut(s) 351, 757, 1081
GsuI CTGGAG 2 cut(s) 38, 135
HaeIII GGCC 7 cut(s) 296, 487, 499, 588, 943, 1190, 1249
HapII CCGG 4 cut(s) 158, 233, 242, 386
HgaI GACGC 1 cut(s) 347
HincII GTYRAC 2 cut(s) 714, 1144
HindII GTYRAC 2 cut(s) 714, 1144
HpaI GTTAAC 1 cut(s) 714
HpaII CCGG 4 cut(s) 158, 233, 242, 386
HphI GGTGA 3 cut(s) 715, 1192, 1343
Hpy166II GTNNAC 7 cut(s) 714, 979, 1144, 1195, 1334, 1409, 1449
Hpy188I TCNGA 6 cut(s) 210, 223, 302, 1039, 1052, 1306
Hpy8I GTNNAC 7 cut(s) 714, 979, 1144, 1195, 1334, 1409, 1449
Hpy99I CGWCG 3 cut(s) 223, 302, 1145
HpyAV CCTTC 6 cut(s) 138, 177, 195, 572, 755, 1322
HpyCH4III ACNGT 6 cut(s) 11, 37, 728, 887, 1012, 1279
HpyCH4IV ACGT 3 cut(s) 279, 915, 1197
HpyCH4V TGCA 7 cut(s) 359, 435, 612, 769, 1134, 1269, 1287
HpyF10VI GCNNNNNNNGC 5 cut(s) 347, 356, 613, 966, 1321
HpyF3I CTNAG 1 cut(s) 803
HpySE526I ACGT 3 cut(s) 279, 915, 1197
KflI GGGWCCC 1 cut(s) 626
Ksp22I TGATCA 1 cut(s) 1221
KspAI GTTAAC 1 cut(s) 714
Kzo9I GATC 4 cut(s) 405, 635, 1221, 1345
LmnI GCTCC 5 cut(s) 4, 169, 187, 388, 966
Lsp1109I GCAGC 2 cut(s) 743, 1067
LweI GCATC 2 cut(s) 301, 653
MaeI CTAG 3 cut(s) 201, 446, 1456
MaeII ACGT 3 cut(s) 279, 915, 1197
MaeIII GTNAC 4 cut(s) 111, 931, 947, 1198
MalI GATC 4 cut(s) 407, 637, 1223, 1347
MboI GATC 4 cut(s) 405, 635, 1221, 1345
MboII GAAGA 4 cut(s) 90, 518, 673, 783
MflI RGATCY 1 cut(s) 635
MhlI GDGCHC 2 cut(s) 9, 692
MlsI TGGCCA 2 cut(s) 499, 588
MluCI AATT 4 cut(s) 694, 746, 954, 1254
MluNI TGGCCA 2 cut(s) 499, 588
MlyI GAGTC 4 cut(s) 854, 1056, 1366, 1375
MmeI TCCRAC 7 cut(s) 201, 279, 280, 829, 1026, 1337, 1409
Mox20I TGGCCA 2 cut(s) 499, 588
MscI TGGCCA 2 cut(s) 499, 588
MseI TTAA 1 cut(s) 713
MslI CAYNNNNRTG 2 cut(s) 1112, 1329
Msp20I TGGCCA 2 cut(s) 499, 588
MspA1I CMGCKG 1 cut(s) 371
MspI CCGG 4 cut(s) 158, 233, 242, 386
MspR9I CCNGG 4 cut(s) 233, 242, 243, 441
Mva1269I GAATGC 1 cut(s) 1366
MvaI CCWGG 1 cut(s) 441
MwoI GCNNNNNNNGC 5 cut(s) 347, 356, 613, 966, 1321
NciI CCSGG 3 cut(s) 233, 242, 243
NdeI CATATG 1 cut(s) 1234
NdeII GATC 4 cut(s) 405, 635, 1221, 1345
NmeAIII GCCGAG 1 cut(s) 1166
NmuCI GTSAC 4 cut(s) 111, 931, 947, 1198
NspI RCATGY 3 cut(s) 357, 996, 1138
NspV TTCGAA 1 cut(s) 1101
PaeI GCATGC 1 cut(s) 1138
PagI TCATGA 1 cut(s) 684
PceI AGGCCT 1 cut(s) 1249
PcsI WCGNNNNNNNCGW 2 cut(s) 306, 756
PctI GAATGC 1 cut(s) 1366
PfeI GAWTC 9 cut(s) 58, 137, 146, 365, 673, 678, 822, 1034, 1053
PkrI GCNGC 3 cut(s) 352, 758, 1082
PleI GAGTC 4 cut(s) 854, 1055, 1366, 1375
PpsI GAGTC 4 cut(s) 854, 1055, 1366, 1375
PpuMI RGGWCCY 2 cut(s) 428, 626
Psp1406I AACGTT 1 cut(s) 915
Psp5II RGGWCCY 2 cut(s) 428, 626
Psp6I CCWGG 1 cut(s) 439
PspGI CCWGG 1 cut(s) 439
PspPI GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
PspPPI RGGWCCY 2 cut(s) 428, 626
PsuI RGATCY 1 cut(s) 635
RsaI GTAC 5 cut(s) 13, 72, 271, 1151, 1231
RsaNI GTAC 5 cut(s) 12, 71, 270, 1150, 1230
RseI CAYNNNNRTG 2 cut(s) 1112, 1329
SalI GTCGAC 1 cut(s) 1142
SaqAI TTAA 1 cut(s) 713
SatI GCNGC 3 cut(s) 351, 757, 1081
Sau3AI GATC 4 cut(s) 405, 635, 1221, 1345
Sau96I GGNCC 7 cut(s) 223, 294, 428, 485, 626, 650, 941
ScaI AGTACT 1 cut(s) 1151
SchI GAGTC 4 cut(s) 854, 1056, 1366, 1375
ScrFI CCNGG 4 cut(s) 233, 242, 243, 441
SduI GDGCHC 2 cut(s) 9, 692
SfaNI GCATC 2 cut(s) 301, 653
SfuI TTCGAA 1 cut(s) 1101
SinI GGWCC 4 cut(s) 223, 428, 626, 650
SmaI CCCGGG 1 cut(s) 243
SmiMI CAYNNNNRTG 2 cut(s) 1112, 1329
SmlI CTYRAG 1 cut(s) 1374
SmoI CTYRAG 1 cut(s) 1374
SpeI ACTAGT 2 cut(s) 200, 445
SphI GCATGC 1 cut(s) 1138
Sse9I AATT 4 cut(s) 694, 746, 954, 1254
SseBI AGGCCT 1 cut(s) 1249
SsiI CCGC 4 cut(s) 350, 369, 939, 1322
SspI AATATT 1 cut(s) 1095
SspMI CTAG 3 cut(s) 201, 446, 1456
StuI AGGCCT 1 cut(s) 1249
StyD4I CCNGG 4 cut(s) 231, 240, 241, 439
StyI CCWWGG 3 cut(s) 324, 970, 1164
TaaI ACNGT 6 cut(s) 11, 37, 728, 887, 1012, 1279
TaiI ACGT 3 cut(s) 282, 918, 1200
TaqI TCGA 8 cut(s) 459, 538, 576, 676, 750, 1101, 1143, 1216
TasI AATT 4 cut(s) 694, 746, 954, 1254
TatI WGTACW 3 cut(s) 70, 269, 1149
TauI GCSGC 1 cut(s) 353
TfiI GAWTC 9 cut(s) 58, 137, 146, 365, 673, 678, 822, 1034, 1053
Tru1I TTAA 1 cut(s) 713
Tru9I TTAA 1 cut(s) 713
TscAI CASTG 3 cut(s) 565, 1276, 1284
TseFI GTSAC 4 cut(s) 111, 931, 947, 1198
TseI GCWGC 2 cut(s) 756, 1080
Tsp45I GTSAC 4 cut(s) 111, 931, 947, 1198
TspDTI ATGAA 4 cut(s) 673, 758, 1142, 1341
TspGWI ACGGA 5 cut(s) 207, 278, 966, 1004, 1059
TspMI CCCGGG 1 cut(s) 241
TspRI CASTG 3 cut(s) 565, 1276, 1284
VpaK11BI GGWCC 4 cut(s) 223, 428, 626, 650
XagI CCTNNNNNAGG 1 cut(s) 1163
XapI RAATTY 1 cut(s) 746
XceI RCATGY 3 cut(s) 357, 996, 1138
XmaI CCCGGG 1 cut(s) 241
XmiI GTMKAC 3 cut(s) 1143, 1194, 1448
XspI CTAG 3 cut(s) 201, 446, 1456
ZrmI AGTACT 1 cut(s) 1151
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.