Rw2G038110

Polygalacturonase QRT3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0002395
Physical Location & Seq
Reverse (-)
63011138 .. 63012655
1518 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G038110.1

Sequence Viewer

Length: 1458 bp
ATGATGCCCAGAAATGCTATTGCTACGTTAGTGAAACTGTTGATGGGATTTCTGTGCATAACTGTATTTCATTTCAATCACGGAGAAAGCTCATACCCAGGTGATGCAGGTACTCATGGCAGCACTTATTACCCGGACCCAATAAGGCGCATGGCTTTGATGAAGGCTTCATTACATACCCTCCGCACTGTTGCCGTCTCTAGTCCTCAAGGATCATCATCATCACGTGTTCATCACGCGACTGAGTATGGTGCTGACCCGACCGGAATATCGGACAGCACCGAAGCACTCCAGCAAGCTATTTCTGATGCCTTCATATCTCGTATTGAAGGGGCACACTTGATGGAGGGTATTGCTGATCTTGGAGGCACTCAGCTTCATCTTGATGGAGGGACATACAAGATCAGCCGTCCGTTGCGTTTACCAGATACCACCGGTGCAGGAAACTTTATGATATATGGTGGATCCCTTCTCGCATCCGACAATTTTCCGACCGACCGCCATCTGATCGAGTTGTGGTCAGAGTCAAACTCTTTCAAGTACGAGGACATTACGCTCAAGGACCTTATGATAAACTCAAATTTCAGAGGTGGTGGAATTGCAGTTATTAATTCACTAAGGACTACTATAGATAATTGCTACATATCAAGTTTCACTAGCAATGGCATACTAATCCACGGTGGCCATGAAACATTTGTTAGAAACTCCTTCATCGGCCAACACAGCAACGTTGGCGGTGACCATCGTGAAAAGCATTTTTCCGGCATTGGAATTGACATTAACGGGAATGACAATGCAGTTACCGATGTGATTATTTTCTCGGCAGCGGTCGGCATAATGGTACGAGGACAAGCCAATATTCTCACCGGCGTGCATTGTTATAACAAGGCCACGGGATGGGGTGGGATTGGAATTCATATTCGATCACCCGGGTTGACCCAAACCCGGATTTTGAATTCCTATTTTGATTTCACGGGGATCGTGGCCGAGGACCCCGTCCAGCTCCATATATCCGGATCATTCTTCTTAGGCAATGCCTTTGTTTTGATAAAATCCTTGAAGGGTGTGATTTCTGGGCTAACCATTGTCGACAATATGTTCGCAGGTGATTATACTGGTACGCAAATAGTCCAATTTGATCAATCAAATGGACAATATTTCACCACTATTGATCAAGTTGTGGTAGATCGAAATGTAGTACGTGGTATGATCCTTAAATCGACGGTGGCTAAGGGGTCAAAGTGGAGTAACGGGACAAAGTGGACAGTTGATTTCTCAGAAGTCCTCCTTTTTCCCGACCTGATACAAAGTGTCCAATACGCATTGCAGGCAAGTGCATCATTTCCAAACCATATTCTACGGAATGTGAGTCACAACCGTGTCACGGTAGAAACAGATGTGCCCGTATCAGCGACGTTGCATGTATTAGTGGATCAAAGCATGCTTGGCTATGTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Beta_helix Pectate_lyase_3

Protein Analysis

485

Amino Acids

52.58

Weight (kDa)

6.18

Isoelectric Point (pI)

29.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 80 - 299 3.9e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 882
AarI CACCTGC 1 cut(s) 1094
Acc36I ACCTGC 2 cut(s) 98, 1094
AccB7I CCANNNNNTGG 1 cut(s) 897
AccI GTMKAC 1 cut(s) 1089
AccII CGCG 1 cut(s) 239
AccIII TCCGGA 1 cut(s) 1013
AciI CCGC 4 cut(s) 184, 499, 735, 827
AclI AACGTT 1 cut(s) 729
AclWI GGATC 7 cut(s) 220, 459, 472, 986, 1024, 1204, 1440
AcoI YGGCCR 3 cut(s) 682, 715, 984
AcsI RAATTY 3 cut(s) 580, 912, 955
AcvI CACGTG 1 cut(s) 227
AfaI GTAC 5 cut(s) 112, 542, 843, 1120, 1200
AfiI CCNNNNNNNGG 3 cut(s) 897, 945, 1384
AflIII ACRYGT 1 cut(s) 226
AgeI ACCGGT 1 cut(s) 434
AgsI TTSAA 5 cut(s) 76, 329, 538, 955, 1060
AjnI CCWGG 1 cut(s) 97
AleI CACNNNNGTG 2 cut(s) 869, 1377
AluBI AGCT 4 cut(s) 90, 299, 376, 1003
AluI AGCT 4 cut(s) 90, 299, 376, 1003
Alw26I GTCTC 1 cut(s) 202
AlwI GGATC 7 cut(s) 220, 459, 472, 986, 1024, 1204, 1440
Ama87I CYCGRG 1 cut(s) 929
Aor13HI TCCGGA 1 cut(s) 1013
AoxI GGCC 4 cut(s) 682, 715, 888, 984
ApeKI GCWGC 2 cut(s) 120, 824
ApoI RAATTY 3 cut(s) 580, 912, 955
ArsI GACNNNNNNTTYG 2 cut(s) 1082, 1114
AseI ATTAAT 1 cut(s) 609
AsiGI ACCGGT 1 cut(s) 434
AspLEI GCGC 1 cut(s) 150
AspS9I GGNCC 3 cut(s) 136, 562, 991
AsuC2I CCSGG 4 cut(s) 134, 930, 931, 946
AsuHPI GGTGA 6 cut(s) 113, 749, 856, 918, 1118, 1153
AvaI CYCGRG 1 cut(s) 929
AvaII GGWCC 3 cut(s) 136, 562, 991
BaeGI GKGCMC 2 cut(s) 337, 1404
BalI TGGCCA 1 cut(s) 684
BamHI GGATCC 1 cut(s) 464
BbrPI CACGTG 1 cut(s) 227
BbvI GCAGC 2 cut(s) 132, 836
BccI CCATC 6 cut(s) 37, 337, 380, 510, 750, 891
BceAI ACGGC 2 cut(s) 179, 393
BciT130I CCWGG 1 cut(s) 99
BclI TGATCA 2 cut(s) 1138, 1171
BcnI CCSGG 4 cut(s) 134, 930, 931, 946
BcoDI GTCTC 1 cut(s) 202
BfaI CTAG 2 cut(s) 201, 657
BfmI CTRYAG 1 cut(s) 627
BfuAI ACCTGC 2 cut(s) 98, 1094
BisI GCNGC 2 cut(s) 121, 825
BlsI GCNGC 2 cut(s) 122, 826
Bme1390I CCNGG 5 cut(s) 99, 134, 930, 931, 946
Bme18I GGWCC 3 cut(s) 136, 562, 991
BmeT110I CYCGRG 1 cut(s) 929
BmgT120I GGNCC 3 cut(s) 136, 562, 991
BmiI GGNNCC 3 cut(s) 138, 466, 993
BmrFI CCNGG 5 cut(s) 99, 134, 930, 931, 946
BmsI GCATC 4 cut(s) 94, 298, 485, 1346
BplI GAGNNNNNCTC 2 cut(s) 515, 547
BpmI CTGGAG 1 cut(s) 275
Bpu10I CCTNAGC 1 cut(s) 1230
BpuEI CTTGAG 2 cut(s) 192, 542
BpuMI CCSGG 4 cut(s) 134, 930, 931, 946
BsaAI YACGTR 2 cut(s) 227, 1202
BsaBI GATNNNNATC 1 cut(s) 217
BsaJI CCNNGG 5 cut(s) 97, 676, 891, 929, 987
BsaWI WCCGGW 3 cut(s) 263, 434, 1013
BsaXI ACNNNNNCTCC 2 cut(s) 165, 195
Bsc4I CCNNNNNNNGG 3 cut(s) 897, 945, 1384
Bse118I RCCGGY 2 cut(s) 434, 866
Bse1I ACTGG 1 cut(s) 1120
Bse3DI GCAATG 3 cut(s) 667, 1039, 1322
Bse8I GATNNNNATC 1 cut(s) 217
BseAI TCCGGA 1 cut(s) 1013
BseBI CCWGG 1 cut(s) 99
BseDI CCNNGG 5 cut(s) 97, 676, 891, 929, 987
BseGI GGATG 2 cut(s) 476, 902
BseJI GATNNNNATC 1 cut(s) 217
BseLI CCNNNNNNNGG 3 cut(s) 897, 945, 1384
BseMI GCAATG 3 cut(s) 667, 1039, 1322
BseMII CTCAG 3 cut(s) 234, 386, 1290
BseNI ACTGG 1 cut(s) 1120
BseSI GKGCMC 2 cut(s) 337, 1404
BseXI GCAGC 2 cut(s) 132, 836
BsgI GTGCAG 1 cut(s) 459
Bsh1236I CGCG 1 cut(s) 239
Bsh1285I CGRYCG 4 cut(s) 264, 495, 499, 831
BshFI GGCC 4 cut(s) 684, 717, 890, 986
BshTI ACCGGT 1 cut(s) 434
BsiEI CGRYCG 4 cut(s) 264, 495, 499, 831
BsiHKCI CYCGRG 1 cut(s) 929
BsiSI CCGG 8 cut(s) 134, 264, 435, 762, 867, 930, 946, 1014
BslFI GGGAC 2 cut(s) 406, 1267
BslI CCNNNNNNNGG 3 cut(s) 897, 945, 1384
BsmAI GTCTC 1 cut(s) 202
BsmBI CGTCTC 1 cut(s) 202
BsmFI GGGAC 2 cut(s) 406, 1267
BsnI GGCC 4 cut(s) 684, 717, 890, 986
BsoBI CYCGRG 1 cut(s) 929
Bsp1286I GDGCHC 2 cut(s) 337, 1404
Bsp13I TCCGGA 1 cut(s) 1013
BspACI CCGC 4 cut(s) 184, 499, 735, 827
BspANI GGCC 4 cut(s) 684, 717, 890, 986
BspCNI CTCAG 3 cut(s) 235, 385, 1289
BspEI TCCGGA 1 cut(s) 1013
BspFNI CGCG 1 cut(s) 239
BspLI GGNNCC 3 cut(s) 138, 466, 993
BspMI ACCTGC 2 cut(s) 98, 1094
BspPI GGATC 7 cut(s) 220, 459, 472, 986, 1024, 1204, 1440
BsrDI GCAATG 3 cut(s) 667, 1039, 1322
BsrFI RCCGGY 2 cut(s) 434, 866
BsrI ACTGG 1 cut(s) 1120
BssAI RCCGGY 2 cut(s) 434, 866
BssECI CCNNGG 5 cut(s) 97, 676, 891, 929, 987
Bst2UI CCWGG 1 cut(s) 99
Bst4CI ACNGT 8 cut(s) 39, 64, 190, 680, 1225, 1267, 1379, 1387
BstBAI YACGTR 2 cut(s) 227, 1202
BstC8I GCNNGC 4 cut(s) 297, 872, 1329, 1442
BstDEI CTNAG 6 cut(s) 243, 372, 617, 1027, 1230, 1276
BstDSI CCRYGG 2 cut(s) 676, 891
BstEII GGTNACC 1 cut(s) 737
BstF5I GGATG 2 cut(s) 476, 902
BstFNI CGCG 1 cut(s) 239
BstHHI GCGC 1 cut(s) 150
BstMAI GTCTC 1 cut(s) 202
BstMCI CGRYCG 4 cut(s) 264, 495, 499, 831
BstMWI GCNNNNNNNGC 4 cut(s) 723, 732, 1328, 1446
BstNI CCWGG 1 cut(s) 99
BstNSI RCATGY 2 cut(s) 1424, 1444
BstPI GGTNACC 1 cut(s) 737
BstSCI CCNGG 5 cut(s) 97, 132, 928, 929, 944
BstSFI CTRYAG 1 cut(s) 627
BstSLI GKGCMC 2 cut(s) 337, 1404
BstUI CGCG 1 cut(s) 239
BstV1I GCAGC 2 cut(s) 132, 836
BstX2I RGATCY 1 cut(s) 464
BstYI RGATCY 1 cut(s) 464
BsuRI GGCC 4 cut(s) 684, 717, 890, 986
BtgI CCRYGG 2 cut(s) 676, 891
BtsCI GGATG 2 cut(s) 476, 902
BtsIMutI CAGTG 1 cut(s) 186
BveI ACCTGC 2 cut(s) 98, 1094
Cac8I GCNNGC 4 cut(s) 297, 872, 1329, 1442
CfoI GCGC 1 cut(s) 150
Cfr10I RCCGGY 2 cut(s) 434, 866
Cfr13I GGNCC 3 cut(s) 136, 562, 991
Cfr9I CCCGGG 1 cut(s) 929
Csp6I GTAC 5 cut(s) 111, 541, 842, 1119, 1199
CspAI ACCGGT 1 cut(s) 434
CviAII CATG 5 cut(s) 116, 151, 686, 1421, 1441
CviQI GTAC 5 cut(s) 111, 541, 842, 1119, 1199
DdeI CTNAG 6 cut(s) 243, 372, 617, 1027, 1230, 1276
EaeI YGGCCR 3 cut(s) 682, 715, 984
Eco47I GGWCC 3 cut(s) 136, 562, 991
Eco72I CACGTG 1 cut(s) 227
Eco88I CYCGRG 1 cut(s) 929
Eco91I GGTNACC 1 cut(s) 737
EcoO109I RGGNCCY 2 cut(s) 562, 991
EcoO65I GGTNACC 1 cut(s) 737
EcoRI GAATTC 2 cut(s) 912, 955
EcoRII CCWGG 1 cut(s) 97
Esp3I CGTCTC 1 cut(s) 202
FaeI CATG 5 cut(s) 119, 154, 689, 1424, 1444
FalI AAGNNNNNCTT 2 cut(s) 1272, 1304
FaqI GGGAC 2 cut(s) 406, 1267
FatI CATG 5 cut(s) 115, 150, 685, 1420, 1440
FbaI TGATCA 2 cut(s) 1138, 1171
FblI GTMKAC 1 cut(s) 1089
Fnu4HI GCNGC 2 cut(s) 121, 825
FokI GGATG 2 cut(s) 463, 909
Fsp4HI GCNGC 2 cut(s) 121, 825
FspBI CTAG 2 cut(s) 201, 657
GlaI GCGC 1 cut(s) 149
GluI GCNGC 2 cut(s) 121, 825
GsuI CTGGAG 1 cut(s) 275
HaeIII GGCC 4 cut(s) 684, 717, 890, 986
HapII CCGG 8 cut(s) 134, 264, 435, 762, 867, 930, 946, 1014
HhaI GCGC 1 cut(s) 150
Hin1II CATG 5 cut(s) 119, 154, 689, 1424, 1444
Hin6I GCGC 1 cut(s) 148
HinP1I GCGC 1 cut(s) 148
HincII GTYRAC 2 cut(s) 936, 1090
HindII GTYRAC 2 cut(s) 936, 1090
HinfI GANTC 2 cut(s) 524, 1369
HpaII CCGG 8 cut(s) 134, 264, 435, 762, 867, 930, 946, 1014
HphI GGTGA 6 cut(s) 113, 749, 856, 918, 1118, 1153
Hpy166II GTNNAC 4 cut(s) 422, 936, 1090, 1263
Hpy188I TCNGA 8 cut(s) 274, 307, 481, 492, 507, 523, 587, 1279
Hpy188III TCNNGA 4 cut(s) 383, 746, 1014, 1295
Hpy8I GTNNAC 4 cut(s) 422, 936, 1090, 1263
Hpy99I CGWCG 2 cut(s) 1225, 1417
HpyAV CCTTC 6 cut(s) 157, 322, 323, 479, 718, 1054
HpyCH4III ACNGT 8 cut(s) 39, 64, 190, 680, 1225, 1267, 1379, 1387
HpyCH4IV ACGT 5 cut(s) 26, 226, 729, 1201, 1415
HpyCH4V TGCA 9 cut(s) 57, 107, 440, 602, 797, 874, 1327, 1337, 1420
HpyF10VI GCNNNNNNNGC 4 cut(s) 723, 732, 1328, 1446
HpyF3I CTNAG 6 cut(s) 243, 372, 617, 1027, 1230, 1276
HpySE526I ACGT 5 cut(s) 26, 226, 729, 1201, 1415
Hsp92II CATG 5 cut(s) 119, 154, 689, 1424, 1444
HspAI GCGC 1 cut(s) 148
Kpn2I TCCGGA 1 cut(s) 1013
Ksp22I TGATCA 2 cut(s) 1138, 1171
LmnI GCTCC 1 cut(s) 1008
Lsp1109I GCAGC 2 cut(s) 132, 836
LweI GCATC 4 cut(s) 94, 298, 485, 1346
MaeI CTAG 2 cut(s) 201, 657
MaeII ACGT 5 cut(s) 26, 226, 729, 1201, 1415
MaeIII GTNAC 5 cut(s) 737, 799, 1247, 1370, 1381
MboII GAAGA 1 cut(s) 1015
MflI RGATCY 1 cut(s) 464
MhlI GDGCHC 2 cut(s) 337, 1404
MlsI TGGCCA 1 cut(s) 684
MluCI AATT 9 cut(s) 484, 580, 597, 610, 634, 771, 912, 955, 1133
MluNI TGGCCA 1 cut(s) 684
MlyI GAGTC 2 cut(s) 533, 1378
MmeI TCCRAC 2 cut(s) 504, 515
Mox20I TGGCCA 1 cut(s) 684
MroI TCCGGA 1 cut(s) 1013
MscI TGGCCA 1 cut(s) 684
MseI TTAA 3 cut(s) 609, 780, 1215
MslI CAYNNNNRTG 3 cut(s) 384, 869, 1377
Msp20I TGGCCA 1 cut(s) 684
MspA1I CMGCKG 1 cut(s) 827
MspI CCGG 8 cut(s) 134, 264, 435, 762, 867, 930, 946, 1014
MspR9I CCNGG 5 cut(s) 99, 134, 930, 931, 946
MvaI CCWGG 1 cut(s) 99
MvnI CGCG 1 cut(s) 239
MwoI GCNNNNNNNGC 4 cut(s) 723, 732, 1328, 1446
NciI CCSGG 4 cut(s) 134, 930, 931, 946
NlaIII CATG 5 cut(s) 119, 154, 689, 1424, 1444
NlaIV GGNNCC 3 cut(s) 138, 466, 993
NmeAIII GCCGAG 2 cut(s) 800, 1012
NmuCI GTSAC 3 cut(s) 737, 1370, 1381
NspI RCATGY 2 cut(s) 1424, 1444
OliI CACNNNNGTG 2 cut(s) 869, 1377
PaeI GCATGC 1 cut(s) 1444
PaqCI CACCTGC 1 cut(s) 1094
PflFI GACNNNGTC 1 cut(s) 995
PflMI CCANNNNNTGG 1 cut(s) 897
PinAI ACCGGT 1 cut(s) 434
PkrI GCNGC 2 cut(s) 122, 826
PleI GAGTC 2 cut(s) 532, 1377
PmaCI CACGTG 1 cut(s) 227
PmlI CACGTG 1 cut(s) 227
PpsI GAGTC 2 cut(s) 532, 1377
Ppu21I YACGTR 2 cut(s) 227, 1202
PpuMI RGGWCCY 2 cut(s) 562, 991
PshBI ATTAAT 1 cut(s) 609
PsiI TTATAA 1 cut(s) 882
Psp1406I AACGTT 1 cut(s) 729
Psp5II RGGWCCY 2 cut(s) 562, 991
Psp6I CCWGG 1 cut(s) 97
PspCI CACGTG 1 cut(s) 227
PspEI GGTNACC 1 cut(s) 737
PspGI CCWGG 1 cut(s) 97
PspN4I GGNNCC 3 cut(s) 138, 466, 993
PspPI GGNCC 3 cut(s) 136, 562, 991
PspPPI RGGWCCY 2 cut(s) 562, 991
PsuI RGATCY 1 cut(s) 464
PsyI GACNNNGTC 1 cut(s) 995
RsaI GTAC 5 cut(s) 112, 542, 843, 1120, 1200
RsaNI GTAC 5 cut(s) 111, 541, 842, 1119, 1199
RseI CAYNNNNRTG 3 cut(s) 384, 869, 1377
SalI GTCGAC 1 cut(s) 1088
SaqAI TTAA 3 cut(s) 609, 780, 1215
SatI GCNGC 2 cut(s) 121, 825
Sau96I GGNCC 3 cut(s) 136, 562, 991
SchI GAGTC 2 cut(s) 533, 1378
ScrFI CCNGG 5 cut(s) 99, 134, 930, 931, 946
SduI GDGCHC 2 cut(s) 337, 1404
SfaNI GCATC 4 cut(s) 94, 298, 485, 1346
SfcI CTRYAG 1 cut(s) 627
SgrAI CRCCGGYG 2 cut(s) 434, 866
SinI GGWCC 3 cut(s) 136, 562, 991
SmaI CCCGGG 1 cut(s) 931
SmiMI CAYNNNNRTG 3 cut(s) 384, 869, 1377
SmlI CTYRAG 2 cut(s) 207, 557
SmoI CTYRAG 2 cut(s) 207, 557
SphI GCATGC 1 cut(s) 1444
Sse9I AATT 9 cut(s) 484, 580, 597, 610, 634, 771, 912, 955, 1133
SsiI CCGC 4 cut(s) 184, 499, 735, 827
SspI AATATT 2 cut(s) 859, 1157
SspMI CTAG 2 cut(s) 201, 657
StyD4I CCNGG 5 cut(s) 97, 132, 928, 929, 944
TaaI ACNGT 8 cut(s) 39, 64, 190, 680, 1225, 1267, 1379, 1387
TaiI ACGT 5 cut(s) 29, 229, 732, 1204, 1418
TaqI TCGA 5 cut(s) 510, 922, 1089, 1189, 1220
TaqII GACCGA 1 cut(s) 509
TasI AATT 9 cut(s) 484, 580, 597, 610, 634, 771, 912, 955, 1133
Tru1I TTAA 3 cut(s) 609, 780, 1215
Tru9I TTAA 3 cut(s) 609, 780, 1215
TscAI CASTG 1 cut(s) 193
TseFI GTSAC 3 cut(s) 737, 1370, 1381
TseI GCWGC 2 cut(s) 120, 824
Tsp45I GTSAC 3 cut(s) 737, 1370, 1381
TspDTI ATGAA 9 cut(s) 59, 159, 176, 221, 304, 368, 700, 702, 905
TspGWI ACGGA 3 cut(s) 96, 402, 1375
TspMI CCCGGG 1 cut(s) 929
TspRI CASTG 1 cut(s) 193
Tth111I GACNNNGTC 1 cut(s) 995
Van91I CCANNNNNTGG 1 cut(s) 897
VpaK11BI GGWCC 3 cut(s) 136, 562, 991
VspI ATTAAT 1 cut(s) 609
XapI RAATTY 3 cut(s) 580, 912, 955
XceI RCATGY 2 cut(s) 1424, 1444
XmaI CCCGGG 1 cut(s) 929
XmiI GTMKAC 1 cut(s) 1089
XspI CTAG 2 cut(s) 201, 657
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.