Rw1G001310

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0010715
Physical Location & Seq
Forward (+)
2006648 .. 2009689
3042 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G001310.1

Sequence Viewer

Length: 1326 bp
ATGCAATATTCTTCATCTCAAATCCATTTTTTGTCACTATTCCTCCTTCTCATCATTGTACCTTCATATTTTTCCTTCCCTCTTGGCCATAACCATAACCCAGAGGAGCCACCTGTACTTGATCATCATCAAAAAACCTATACTGGTCATAATTTTTTGAGACCCTACCCTACAATATTAAGGACAAGAAGGAGGGAGCTTATTACAGCCAGTGCTTCATCCAAGGTTGTTTTTAACGTGCATGATTTTGGAGCTCAAGCAAATGGAGGAGATGATACCAAGGCATTTAGGAACGCATGGAAGAAGGCATGCTCATATTCTGAAGGAATAACTGTTGAGCTCGTGGTCCCTAAGAACAGAAACTATCACATCAAACCAATTACATTCTCTGGTCCTTGCAAATCTCAGGTCACCTTGAAGATTTATGGAACGATCAAAGCATCACCATTTCTATCGGATTACGAAAGGGACAGTAGCCATTGGATTATGTTCGAGAATTTGCAGAACTTTAAAGTTGAAGGTGCTGGCACTGGCATCATCAATGGCAATGGAAGGAAATGGTGGGAGAATTCTTGCAAAGTTAACGAGTCCCTTCCTTGCACGAGCGCACCAACTGCTGTGACTTTCTATCAGTGCAATAATTTGGAGGTAGCAAATCTGAGGTTCCAGAATGCACAGAGAATGCATCTGACGTTTCAGAAATGTGCGCTTGTAAAAGTTTTGAATCTCATTATAACAGCACCAGGGAACAGTCCTAACACCGATGGAATCCATGTCACTGAAACACAAGATATTCGCATAAACAGCTGCCGCATTAGGACAGGTGACGACTGTATTTCGATAGTAAGTGGGTCAAGGAATGTTCAAGCTAGCGATATAACCTGCGGACCAGGTCATGGAATCAGTATTGGAAGCTTAGGAGCTGAAAATTCAGAAGCTCAGGTTTCCGATGTGGTAGTAAGTAGAGCGAACCTTATAGGAGGTTCTGGTTATGCAAAAAACATCAGATTCGAAAATGTTCTAATGCACAATGTCACCAATCCCATAATCATAGATCAACATTACTGTGATCAGGAAAAACCATGCCAAGATCAGGCTTCAGCTGTAAAAGTAAGCGGAGTGGTATACCAAAATGTGAAAGGCACAAGTGCTTCTAAAGTGGCGGTAAATTTCGATTGCAGTGAGCGCTTCGGATGTCAAGAGATTTTGGTGCAAGACGTGAACATAGTACCTCTAAACGATGAAGGAATTACGACAGCTTCTTGTCAGAATGTTGGATTACGCGATAGAGGGATAGTTTCACCAAAATGCTCTTCCCAAAAGTAG

Protein Analysis

441

Amino Acids

48.59

Weight (kDa)

8.29

Isoelectric Point (pI)

38.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 110 - 425 4.1e-84 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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Publication-ready
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Orthologous Genes (Group: OG0010715)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07970
fragaria_vesca FvH4_7g01140 FvH4_7g01140
malus_domestica MD02G1309400.v1.1 MD07G1011600.v1.1
prunus_persica Prupe.2G014800_v2.0.a1
pyrus_communis pycom02g26060 pycom07g00970
rosa_chinensis RchiOBHm_Chr1g0316321
rosa_laevigata RLG00000030679
rosa_multiflora Rmu_sc0002531.1_g000005 Rmu_sc0004511.1_g000005
rosa_roxburghii Rroxscaffold_4G00331050
rosa_rugosa Rorug01G0009700 Rorug01G0009700
rosa_samantha Rh1AG019500 Rh1BG014600 Rh1CG017100 Rh1DG014500
rosa_wichuraiana Rw1G001310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 734
Acc36I ACCTGC 1 cut(s) 890
AccB7I CCANNNNNTGG 1 cut(s) 896
AccI GTMKAC 1 cut(s) 1125
AccII CGCG 1 cut(s) 1284
AciI CCGC 4 cut(s) 811, 885, 1116, 1163
AcoI YGGCCR 1 cut(s) 85
AcsI RAATTY 4 cut(s) 496, 568, 928, 1168
AcuI CTGAAG 2 cut(s) 342, 1083
AfaI GTAC 3 cut(s) 60, 117, 1230
AfeI AGCGCT 1 cut(s) 1187
AfiI CCNNNNNNNGG 2 cut(s) 896, 1093
AgsI TTSAA 4 cut(s) 418, 518, 724, 866
AjiI CACGTC 1 cut(s) 1219
AjnI CCWGG 2 cut(s) 742, 889
AjuI GAANNNNNNNTTGG 1 cut(s) 1297
Alw21I GWGCWC 2 cut(s) 256, 342
Alw26I GTCTC 1 cut(s) 154
Aor51HI AGCGCT 1 cut(s) 1187
AoxI GGCC 1 cut(s) 85
ApeKI GCWGC 1 cut(s) 807
ApoI RAATTY 4 cut(s) 496, 568, 928, 1168
ArsI GACNNNNNNTTYG 2 cut(s) 393, 425
Asp700I GAANNNNTTC 1 cut(s) 1017
AspLEI GCGC 3 cut(s) 608, 709, 1188
AspS9I GGNCC 3 cut(s) 346, 392, 887
AsuHPI GGTGA 5 cut(s) 403, 435, 836, 1027, 1293
AsuII TTCGAA 1 cut(s) 1011
AsuNHI GCTAGC 1 cut(s) 869
AvaII GGWCC 3 cut(s) 346, 392, 887
BalI TGGCCA 1 cut(s) 87
BanII GRGCYC 2 cut(s) 256, 342
BauI CACGAG 2 cut(s) 341, 601
Bbv12I GWGCWC 2 cut(s) 256, 342
BbvI GCAGC 1 cut(s) 794
BccI CCATC 1 cut(s) 758
BciT130I CCWGG 2 cut(s) 744, 891
BclI TGATCA 2 cut(s) 121, 1069
BcoDI GTCTC 1 cut(s) 154
BfaI CTAG 1 cut(s) 870
BfoI RGCGCY 1 cut(s) 1189
BfuAI ACCTGC 1 cut(s) 890
BisI GCNGC 2 cut(s) 808, 811
BlsI GCNGC 2 cut(s) 809, 812
Bme1390I CCNGG 2 cut(s) 744, 891
Bme18I GGWCC 3 cut(s) 346, 392, 887
BmgBI CACGTC 1 cut(s) 1219
BmgT120I GGNCC 3 cut(s) 346, 392, 887
BmiI GGNNCC 3 cut(s) 108, 348, 665
BmrFI CCNGG 2 cut(s) 744, 891
BmsI GCATC 3 cut(s) 449, 543, 694
BmtI GCTAGC 1 cut(s) 873
Bpu10I CCTNAGC 2 cut(s) 916, 939
Bpu14I TTCGAA 1 cut(s) 1011
BpuEI CTTGAG 1 cut(s) 240
BsaBI GATNNNNATC 1 cut(s) 126
BsaI GGTCTC 1 cut(s) 154
BsaJI CCNNGG 3 cut(s) 222, 279, 743
BsaXI ACNNNNNCTCC 2 cut(s) 27, 57
Bsc4I CCNNNNNNNGG 2 cut(s) 896, 1093
Bse1I ACTGG 3 cut(s) 148, 210, 535
Bse3DI GCAATG 1 cut(s) 553
Bse8I GATNNNNATC 1 cut(s) 126
BseBI CCWGG 2 cut(s) 744, 891
BseDI CCNNGG 3 cut(s) 222, 279, 743
BseGI GGATG 2 cut(s) 218, 1199
BseJI GATNNNNATC 1 cut(s) 126
BseLI CCNNNNNNNGG 2 cut(s) 896, 1093
BseMI GCAATG 1 cut(s) 553
BseMII CTCAG 3 cut(s) 419, 650, 953
BseNI ACTGG 3 cut(s) 148, 210, 535
BseRI GAGGAG 2 cut(s) 119, 282
BseXI GCAGC 1 cut(s) 794
Bsh1236I CGCG 1 cut(s) 1284
BshFI GGCC 1 cut(s) 87
BsiHKAI GWGCWC 2 cut(s) 256, 342
BslFI GGGAC 3 cut(s) 332, 482, 574
BslI CCNNNNNNNGG 2 cut(s) 896, 1093
BsmAI GTCTC 1 cut(s) 154
BsmFI GGGAC 3 cut(s) 332, 482, 574
BsmI GAATGC 2 cut(s) 676, 687
BsnI GGCC 1 cut(s) 87
Bso31I GGTCTC 1 cut(s) 154
Bsp119I TTCGAA 1 cut(s) 1011
Bsp1286I GDGCHC 2 cut(s) 256, 342
Bsp143I GATC 5 cut(s) 121, 432, 1054, 1069, 1090
BspACI CCGC 4 cut(s) 811, 885, 1116, 1163
BspANI GGCC 1 cut(s) 87
BspCNI CTCAG 3 cut(s) 418, 651, 952
BspFNI CGCG 1 cut(s) 1284
BspLI GGNNCC 3 cut(s) 108, 348, 665
BspMI ACCTGC 1 cut(s) 890
BspOI GCTAGC 1 cut(s) 873
BspQI GCTCTTC 1 cut(s) 1318
BspT104I TTCGAA 1 cut(s) 1011
BspTNI GGTCTC 1 cut(s) 154
BsrDI GCAATG 1 cut(s) 553
BsrI ACTGG 3 cut(s) 148, 210, 535
BssECI CCNNGG 3 cut(s) 222, 279, 743
BssMI GATC 5 cut(s) 121, 432, 1054, 1069, 1090
BssNAI GTATAC 1 cut(s) 1126
BssSI CACGAG 2 cut(s) 341, 601
BssT1I CCWWGG 2 cut(s) 222, 279
Bst1107I GTATAC 1 cut(s) 1126
Bst2BI CACGAG 2 cut(s) 341, 601
Bst2UI CCWGG 2 cut(s) 744, 891
Bst4CI ACNGT 5 cut(s) 334, 473, 752, 833, 1067
Bst6I CTCTTC 1 cut(s) 1318
BstAPI GCANNNNNTGC 1 cut(s) 614
BstBI TTCGAA 1 cut(s) 1011
BstC8I GCNNGC 3 cut(s) 310, 526, 871
BstDEI CTNAG 5 cut(s) 351, 405, 659, 916, 939
BstEII GGTNACC 1 cut(s) 409
BstF5I GGATG 2 cut(s) 218, 1199
BstFNI CGCG 1 cut(s) 1284
BstH2I RGCGCY 1 cut(s) 1189
BstHHI GCGC 3 cut(s) 608, 709, 1188
BstKTI GATC 5 cut(s) 124, 435, 1057, 1072, 1093
BstMAI GTCTC 1 cut(s) 154
BstMBI GATC 5 cut(s) 121, 432, 1054, 1069, 1090
BstMWI GCNNNNNNNGC 3 cut(s) 614, 804, 1185
BstNI CCWGG 2 cut(s) 744, 891
BstNSI RCATGY 1 cut(s) 312
BstPI GGTNACC 1 cut(s) 409
BstSCI CCNGG 2 cut(s) 742, 889
BstUI CGCG 1 cut(s) 1284
BstV1I GCAGC 1 cut(s) 794
BstZ17I GTATAC 1 cut(s) 1126
BsuRI GGCC 1 cut(s) 87
BtrI CACGTC 1 cut(s) 1219
BtsCI GGATG 2 cut(s) 218, 1199
BtsI GCAGTG 1 cut(s) 1186
BtsIMutI CAGTG 5 cut(s) 217, 528, 638, 777, 1186
BveI ACCTGC 1 cut(s) 890
Cac8I GCNNGC 3 cut(s) 310, 526, 871
CfoI GCGC 3 cut(s) 608, 709, 1188
Cfr13I GGNCC 3 cut(s) 346, 392, 887
CsiI ACCWGGT 1 cut(s) 889
Csp6I GTAC 3 cut(s) 59, 116, 1229
CviAII CATG 6 cut(s) 242, 297, 309, 773, 896, 1083
CviQI GTAC 3 cut(s) 59, 116, 1229
DdeI CTNAG 5 cut(s) 351, 405, 659, 916, 939
DpnI GATC 5 cut(s) 123, 434, 1056, 1071, 1092
DpnII GATC 5 cut(s) 121, 432, 1054, 1069, 1090
DraI TTTAAA 1 cut(s) 511
EaeI YGGCCR 1 cut(s) 85
Eam1104I CTCTTC 1 cut(s) 1318
EarI CTCTTC 1 cut(s) 1318
Ecl136II GAGCTC 2 cut(s) 254, 340
Eco130I CCWWGG 2 cut(s) 222, 279
Eco24I GRGCYC 2 cut(s) 256, 342
Eco31I GGTCTC 1 cut(s) 154
Eco47I GGWCC 3 cut(s) 346, 392, 887
Eco47III AGCGCT 1 cut(s) 1187
Eco53kI GAGCTC 2 cut(s) 254, 340
Eco57I CTGAAG 2 cut(s) 342, 1083
Eco91I GGTNACC 1 cut(s) 409
EcoICRI GAGCTC 2 cut(s) 254, 340
EcoO65I GGTNACC 1 cut(s) 409
EcoRI GAATTC 1 cut(s) 568
EcoRII CCWGG 2 cut(s) 742, 889
EcoT14I CCWWGG 2 cut(s) 222, 279
EcoT22I ATGCAT 1 cut(s) 687
EcoT38I GRGCYC 2 cut(s) 256, 342
ErhI CCWWGG 2 cut(s) 222, 279
FaeI CATG 6 cut(s) 245, 300, 312, 776, 899, 1086
FaqI GGGAC 3 cut(s) 332, 482, 574
FatI CATG 6 cut(s) 241, 296, 308, 772, 895, 1082
FbaI TGATCA 2 cut(s) 121, 1069
FblI GTMKAC 1 cut(s) 1125
Fnu4HI GCNGC 2 cut(s) 808, 811
FokI GGATG 2 cut(s) 205, 1206
FriOI GRGCYC 2 cut(s) 256, 342
Fsp4HI GCNGC 2 cut(s) 808, 811
FspBI CTAG 1 cut(s) 870
GlaI GCGC 3 cut(s) 607, 708, 1187
GluI GCNGC 2 cut(s) 808, 811
HaeII RGCGCY 1 cut(s) 1189
HaeIII GGCC 1 cut(s) 87
HhaI GCGC 3 cut(s) 608, 709, 1188
Hin1II CATG 6 cut(s) 245, 300, 312, 776, 899, 1086
Hin6I GCGC 3 cut(s) 606, 707, 1186
HinP1I GCGC 3 cut(s) 606, 707, 1186
HincII GTYRAC 1 cut(s) 583
HindII GTYRAC 1 cut(s) 583
HindIII AAGCTT 1 cut(s) 913
HinfI GANTC 5 cut(s) 587, 724, 768, 900, 1008
HpaI GTTAAC 1 cut(s) 583
HphI GGTGA 5 cut(s) 403, 435, 836, 1027, 1293
Hpy166II GTNNAC 3 cut(s) 583, 1126, 1222
Hpy188III TCNNGA 4 cut(s) 493, 667, 1073, 1199
Hpy8I GTNNAC 3 cut(s) 583, 1126, 1222
HpyCH4III ACNGT 5 cut(s) 334, 473, 752, 833, 1067
HpyCH4IV ACGT 3 cut(s) 237, 692, 1218
HpyF10VI GCNNNNNNNGC 3 cut(s) 614, 804, 1185
HpyF3I CTNAG 5 cut(s) 351, 405, 659, 916, 939
HpySE526I ACGT 3 cut(s) 237, 692, 1218
Hsp92II CATG 6 cut(s) 245, 300, 312, 776, 899, 1086
HspAI GCGC 3 cut(s) 606, 707, 1186
Ksp22I TGATCA 2 cut(s) 121, 1069
KspAI GTTAAC 1 cut(s) 583
Kzo9I GATC 5 cut(s) 121, 432, 1054, 1069, 1090
LguI GCTCTTC 1 cut(s) 1318
LmnI GCTCC 4 cut(s) 106, 196, 251, 920
Lsp1109I GCAGC 1 cut(s) 794
LweI GCATC 3 cut(s) 449, 543, 694
MabI ACCWGGT 1 cut(s) 889
MaeI CTAG 1 cut(s) 870
MaeII ACGT 3 cut(s) 237, 692, 1218
MaeIII GTNAC 6 cut(s) 33, 409, 619, 775, 824, 1033
MalI GATC 5 cut(s) 123, 434, 1056, 1071, 1092
MboI GATC 5 cut(s) 121, 432, 1054, 1069, 1090
MboII GAAGA 4 cut(s) 3, 313, 430, 1305
MhlI GDGCHC 2 cut(s) 256, 342
MlsI TGGCCA 1 cut(s) 87
MluCI AATT 8 cut(s) 151, 378, 496, 568, 640, 928, 1168, 1248
MluNI TGGCCA 1 cut(s) 87
MlyI GAGTC 1 cut(s) 596
MmeI TCCRAC 1 cut(s) 1255
Mox20I TGGCCA 1 cut(s) 87
Mph1103I ATGCAT 1 cut(s) 687
MroXI GAANNNNTTC 1 cut(s) 1017
MscI TGGCCA 1 cut(s) 87
MseI TTAA 4 cut(s) 179, 234, 510, 582
MslI CAYNNNNRTG 2 cut(s) 1065, 1306
Msp20I TGGCCA 1 cut(s) 87
MspA1I CMGCKG 2 cut(s) 807, 1103
MspR9I CCNGG 2 cut(s) 744, 891
Mva1269I GAATGC 2 cut(s) 676, 687
MvaI CCWGG 2 cut(s) 744, 891
MvnI CGCG 1 cut(s) 1284
MwoI GCNNNNNNNGC 3 cut(s) 614, 804, 1185
NdeII GATC 5 cut(s) 121, 432, 1054, 1069, 1090
NheI GCTAGC 1 cut(s) 869
NlaIII CATG 6 cut(s) 245, 300, 312, 776, 899, 1086
NlaIV GGNNCC 3 cut(s) 108, 348, 665
NmuCI GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1033
NsiI ATGCAT 1 cut(s) 687
NspI RCATGY 1 cut(s) 312
NspV TTCGAA 1 cut(s) 1011
PaeI GCATGC 1 cut(s) 312
PciSI GCTCTTC 1 cut(s) 1318
PctI GAATGC 2 cut(s) 676, 687
PdmI GAANNNNTTC 1 cut(s) 1017
PfeI GAWTC 4 cut(s) 724, 768, 900, 1008
PflFI GACNNNGTC 1 cut(s) 891
PflMI CCANNNNNTGG 1 cut(s) 896
PkrI GCNGC 2 cut(s) 809, 812
PleI GAGTC 1 cut(s) 595
PpsI GAGTC 1 cut(s) 595
PsiI TTATAA 1 cut(s) 734
Psp124BI GAGCTC 2 cut(s) 256, 342
Psp6I CCWGG 2 cut(s) 742, 889
PspEI GGTNACC 1 cut(s) 409
PspGI CCWGG 2 cut(s) 742, 889
PspN4I GGNNCC 3 cut(s) 108, 348, 665
PspPI GGNCC 3 cut(s) 346, 392, 887
PsyI GACNNNGTC 1 cut(s) 891
PvuII CAGCTG 2 cut(s) 807, 1103
RsaI GTAC 3 cut(s) 60, 117, 1230
RsaNI GTAC 3 cut(s) 59, 116, 1229
RseI CAYNNNNRTG 2 cut(s) 1065, 1306
SacI GAGCTC 2 cut(s) 256, 342
SapI GCTCTTC 1 cut(s) 1318
SaqAI TTAA 4 cut(s) 179, 234, 510, 582
SatI GCNGC 2 cut(s) 808, 811
Sau3AI GATC 5 cut(s) 121, 432, 1054, 1069, 1090
Sau96I GGNCC 3 cut(s) 346, 392, 887
SchI GAGTC 1 cut(s) 596
ScrFI CCNGG 2 cut(s) 744, 891
SduI GDGCHC 2 cut(s) 256, 342
SexAI ACCWGGT 1 cut(s) 889
SfaNI GCATC 3 cut(s) 449, 543, 694
SfuI TTCGAA 1 cut(s) 1011
SinI GGWCC 3 cut(s) 346, 392, 887
SmiMI CAYNNNNRTG 2 cut(s) 1065, 1306
SmlI CTYRAG 1 cut(s) 255
SmoI CTYRAG 1 cut(s) 255
SphI GCATGC 1 cut(s) 312
Sse9I AATT 8 cut(s) 151, 378, 496, 568, 640, 928, 1168, 1248
SsiI CCGC 4 cut(s) 811, 885, 1116, 1163
SspI AATATT 2 cut(s) 8, 177
SspMI CTAG 1 cut(s) 870
SstI GAGCTC 2 cut(s) 256, 342
StyD4I CCNGG 2 cut(s) 742, 889
StyI CCWWGG 2 cut(s) 222, 279
TaaI ACNGT 5 cut(s) 334, 473, 752, 833, 1067
TaiI ACGT 3 cut(s) 240, 695, 1221
TaqI TCGA 4 cut(s) 492, 839, 1011, 1173
TasI AATT 8 cut(s) 151, 378, 496, 568, 640, 928, 1168, 1248
TatI WGTACW 1 cut(s) 115
TauI GCSGC 1 cut(s) 813
TfiI GAWTC 4 cut(s) 724, 768, 900, 1008
Tru1I TTAA 4 cut(s) 179, 234, 510, 582
Tru9I TTAA 4 cut(s) 179, 234, 510, 582
TscAI CASTG 5 cut(s) 217, 535, 638, 784, 1186
TseFI GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1033
TseI GCWGC 1 cut(s) 807
Tsp45I GTSAC 6 cut(s) 33, 409, 619, 775, 824, 1033
TspDTI ATGAA 3 cut(s) 54, 207, 1257
TspRI CASTG 5 cut(s) 217, 535, 638, 784, 1186
Tth111I GACNNNGTC 1 cut(s) 891
Van91I CCANNNNNTGG 1 cut(s) 896
VpaK11BI GGWCC 3 cut(s) 346, 392, 887
XapI RAATTY 4 cut(s) 496, 568, 928, 1168
XceI RCATGY 1 cut(s) 312
XmiI GTMKAC 1 cut(s) 1125
XmnI GAANNNNTTC 1 cut(s) 1017
XspI CTAG 1 cut(s) 870
Zsp2I ATGCAT 1 cut(s) 687
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.