Rh5BG152500

Polygalacturonase QRT3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0002395
Physical Location & Seq
Reverse (-)
15587055 .. 15589783
2729 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG152500.1

Sequence Viewer

Length: 1329 bp
ATGGTGGTGATGATGATGCAGGGGAGGACTAGTCCTCGTGTGTATCACGTGACAACGTACGGTGCTGATCCTACCGGGAACAGAGACAGCACTGAGGCCGTGGCTCAGGCATTTGCAGATGCATTTAGAGGTCCATCAGAAGGGTTCTTGATGGAGGGAATTAGCAACCTTGGTGGTGCACAGATCAATCTTGAAGGTGGCCAGTACCTGATTAGCAAACCGCTCCGGTTTCCTGCTGCCGGAGTAGGAAACCTTATGATTCATGGAGGAACGTTGAGGGCCTCAGATGACTTCCCGACTGATGGGTACTTGATTGATTTATCTACTTCATCATCATCATCCCCCAACAAGAATGAAAAAAACAAAGAGAGCTCATCATCAATGTCTGCACAGCTTTCTTCATCATCCTACAACTATGAGTACATAACCCTAAAAGACCTTATGCTAGACGCCAACTACAGAGGTGGGGGCATTTCAGTCATAAACTCACTCAGAACCAGCATAGACAATTGCTACATAACCCATTTCAAAACTGATGGCATTCTAGTCCAAAGTGGCCATGAAACCTACATCAGAAACTCCTTCCTAGGCCAGCACATCACCGCGGGCGGGGATCACAACGAAAGAAACTTTTCCGGCACTGCAATCAACCTTAAGGGAAATGACAATGCTGTGACAGATGTGGTGATTTTCTCTGCTGCTGTAGGTATAATGATTTCGGGACCCGCTAATATACTTTCGGGTGTACATTGCTACAATAAGGCCACAGGTTTCGGAGGTGTTGGGATTTACTTGAGATTGCCTGGTTTGACACAGACTAGGATTGTCAATTCTTACATGGACTACACTGGTATAGTTGCTGAAGACCCAGTTCAGCTTGATATATCAAACAGCTTCTTCCTTGGTGATGCTTACATTGTGTTGAAATCAATAAAGGGTGTTGCCAATGGGGTCAATATAGTTAACAACATGTTCACTGGGTACAATAAGGGGATTGAAATTGTTCAATTGGACCAATCAAATGGGGGTTTTAAGGAGATTGAGCAAGTTGTTGTGGACAGGAACGCTGTGAGGGGGATGAACATAAAGGGCACAATTGGAAGGAGAACTGTGCAAGGCAATGGAACCTCATGGAATATAGACTTTAACCCAATTCTTCTATTTCCTAATCTTATTAGGCATGTGCAGTACTCTTTGAGCACTGGTGCTAGAAATGTGTTCCCCAACCATGCCCTGAGGAATGTATCAGATAATCGGGTCGTGATTGAGTCAGATGTGGCGGTTCCAGCTTCGGTTTTTGTGACAGTGGATCAAGGAATGTCAAGCTAA

Protein Analysis

442

Amino Acids

47.58

Weight (kDa)

5.99

Isoelectric Point (pI)

34.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 17 - 258 1.2e-07 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 223
AccII CGCG 1 cut(s) 605
AciI CCGC 6 cut(s) 221, 603, 605, 609, 726, 1280
AclI AACGTT 1 cut(s) 272
AclWI GGATC 3 cut(s) 62, 621, 1317
AcoI YGGCCR 2 cut(s) 199, 556
AcuI CTGAAG 1 cut(s) 882
AcvI CACGTG 1 cut(s) 49
AcyI GRCGYC 1 cut(s) 450
AfaI GTAC 7 cut(s) 59, 206, 308, 422, 747, 983, 1190
AfiI CCNNNNNNNGG 4 cut(s) 140, 239, 302, 609
AflII CTTAAG 1 cut(s) 653
AflIII ACRYGT 1 cut(s) 969
AgsI TTSAA 5 cut(s) 194, 529, 925, 998, 1007
AhlI ACTAGT 1 cut(s) 29
AjnI CCWGG 1 cut(s) 802
AluBI AGCT 6 cut(s) 372, 394, 877, 894, 1289, 1326
AluI AGCT 6 cut(s) 372, 394, 877, 894, 1289, 1326
Alw21I GWGCWC 3 cut(s) 181, 374, 1202
Alw26I GTCTC 1 cut(s) 78
Alw44I GTGCAC 1 cut(s) 177
AlwI GGATC 3 cut(s) 62, 621, 1317
AlwNI CAGNNNCTG 1 cut(s) 208
AoxI GGCC 6 cut(s) 96, 199, 279, 556, 589, 762
ApaLI GTGCAC 1 cut(s) 177
ApeKI GCWGC 2 cut(s) 236, 698
Asp700I GAANNNNTTC 2 cut(s) 631, 1002
AspA2I CCTAGG 1 cut(s) 586
AspS9I GGNCC 4 cut(s) 131, 279, 722, 1012
AsuC2I CCSGG 1 cut(s) 76
AsuHPI GGTGA 4 cut(s) 19, 592, 697, 917
AvaII GGWCC 3 cut(s) 131, 722, 1012
AvrII CCTAGG 1 cut(s) 586
AxyI CCTNAGG 1 cut(s) 1235
BaeGI GKGCMC 2 cut(s) 181, 1094
BalI TGGCCA 2 cut(s) 201, 558
BanII GRGCYC 1 cut(s) 374
BauI CACGAG 1 cut(s) 36
BbrPI CACGTG 1 cut(s) 49
BbsI GAAGAC 1 cut(s) 870
Bbv12I GWGCWC 3 cut(s) 181, 374, 1202
BbvI GCAGC 2 cut(s) 223, 685
BccI CCATC 4 cut(s) 142, 145, 296, 530
BceAI ACGGC 1 cut(s) 83
BciT130I CCWGG 1 cut(s) 804
BcnI CCSGG 1 cut(s) 76
BcoDI GTCTC 1 cut(s) 78
BcuI ACTAGT 1 cut(s) 29
BfaI CTAG 6 cut(s) 30, 446, 545, 587, 819, 1209
BfmI CTRYAG 2 cut(s) 457, 702
BfrI CTTAAG 1 cut(s) 653
BisI GCNGC 2 cut(s) 237, 699
BlnI CCTAGG 1 cut(s) 586
BlsI GCNGC 2 cut(s) 238, 700
BmcAI AGTACT 1 cut(s) 1190
Bme1390I CCNGG 2 cut(s) 76, 804
Bme18I GGWCC 3 cut(s) 131, 722, 1012
BmgT120I GGNCC 4 cut(s) 131, 279, 722, 1012
BmiI GGNNCC 4 cut(s) 723, 724, 1126, 1284
BmrFI CCNGG 2 cut(s) 76, 804
BmrI ACTGGG 2 cut(s) 863, 987
BmsI GCATC 3 cut(s) 6, 109, 898
BmuI ACTGGG 2 cut(s) 863, 987
BpiI GAAGAC 1 cut(s) 870
Bpu10I CCTNAGC 1 cut(s) 105
BpuEI CTTGAG 1 cut(s) 814
BpuMI CCSGG 1 cut(s) 76
BsaAI YACGTR 1 cut(s) 49
BsaHI GRCGYC 1 cut(s) 450
BsaJI CCNNGG 5 cut(s) 99, 169, 586, 603, 901
BsaWI WCCGGW 1 cut(s) 225
BsaXI ACNNNNNCTCC 2 cut(s) 16, 46
Bsc4I CCNNNNNNNGG 4 cut(s) 140, 239, 302, 609
Bse1I ACTGG 5 cut(s) 202, 853, 869, 982, 1207
Bse21I CCTNAGG 1 cut(s) 1235
Bse3DI GCAATG 2 cut(s) 748, 1126
BseBI CCWGG 1 cut(s) 804
BseDI CCNNGG 5 cut(s) 99, 169, 586, 603, 901
BseGI GGATG 3 cut(s) 338, 404, 1083
BseLI CCNNNNNNNGG 4 cut(s) 140, 239, 302, 609
BseMI GCAATG 2 cut(s) 748, 1126
BseMII CTCAG 5 cut(s) 84, 119, 297, 505, 1226
BseNI ACTGG 5 cut(s) 202, 853, 869, 982, 1207
BseSI GKGCMC 2 cut(s) 181, 1094
BseXI GCAGC 2 cut(s) 223, 685
BsgI GTGCAG 2 cut(s) 372, 1205
Bsh1236I CGCG 1 cut(s) 605
BshFI GGCC 6 cut(s) 98, 201, 281, 558, 591, 764
BsiHKAI GWGCWC 3 cut(s) 181, 374, 1202
BsiSI CCGG 4 cut(s) 75, 226, 240, 636
BsiWI CGTACG 1 cut(s) 57
BslFI GGGAC 1 cut(s) 735
BslI CCNNNNNNNGG 4 cut(s) 140, 239, 302, 609
BsmAI GTCTC 1 cut(s) 78
BsmFI GGGAC 1 cut(s) 735
BsmI GAATGC 1 cut(s) 540
BsnI GGCC 6 cut(s) 98, 201, 281, 558, 591, 764
Bsp1286I GDGCHC 4 cut(s) 181, 374, 1094, 1202
Bsp1407I TGTACA 1 cut(s) 745
Bsp143I GATC 4 cut(s) 67, 183, 613, 1309
BspACI CCGC 6 cut(s) 221, 603, 605, 609, 726, 1280
BspANI GGCC 6 cut(s) 98, 201, 281, 558, 591, 764
BspCNI CTCAG 5 cut(s) 85, 118, 296, 504, 1227
BspFNI CGCG 1 cut(s) 605
BspLI GGNNCC 4 cut(s) 723, 724, 1126, 1284
BspPI GGATC 3 cut(s) 62, 621, 1317
BspTI CTTAAG 1 cut(s) 653
BsrBI CCGCTC 1 cut(s) 223
BsrDI GCAATG 2 cut(s) 748, 1126
BsrGI TGTACA 1 cut(s) 745
BsrI ACTGG 5 cut(s) 202, 853, 869, 982, 1207
BssECI CCNNGG 5 cut(s) 99, 169, 586, 603, 901
BssMI GATC 4 cut(s) 67, 183, 613, 1309
BssNI GRCGYC 1 cut(s) 450
BssSI CACGAG 1 cut(s) 36
BssT1I CCWWGG 3 cut(s) 169, 586, 901
Bst2BI CACGAG 1 cut(s) 36
Bst2UI CCWGG 1 cut(s) 804
Bst4CI ACNGT 3 cut(s) 62, 1111, 1306
BstACI GRCGYC 1 cut(s) 450
BstAFI CTTAAG 1 cut(s) 653
BstAUI TGTACA 1 cut(s) 745
BstBAI YACGTR 1 cut(s) 49
BstC8I GCNNGC 2 cut(s) 593, 607
BstDEI CTNAG 5 cut(s) 93, 105, 283, 491, 1235
BstDSI CCRYGG 2 cut(s) 99, 603
BstF5I GGATG 3 cut(s) 338, 404, 1083
BstFNI CGCG 1 cut(s) 605
BstKTI GATC 4 cut(s) 70, 186, 616, 1312
BstMAI GTCTC 1 cut(s) 78
BstMBI GATC 4 cut(s) 67, 183, 613, 1309
BstMWI GCNNNNNNNGC 1 cut(s) 1286
BstNI CCWGG 1 cut(s) 804
BstNSI RCATGY 2 cut(s) 973, 1184
BstSCI CCNGG 2 cut(s) 74, 802
BstSFI CTRYAG 2 cut(s) 457, 702
BstSLI GKGCMC 2 cut(s) 181, 1094
BstUI CGCG 1 cut(s) 605
BstV1I GCAGC 2 cut(s) 223, 685
BstV2I GAAGAC 1 cut(s) 870
BstXI CCANNNNNNTGG 1 cut(s) 1022
Bsu36I CCTNAGG 1 cut(s) 1235
BsuRI GGCC 6 cut(s) 98, 201, 281, 558, 591, 764
BtgI CCRYGG 2 cut(s) 99, 603
BtsCI GGATG 3 cut(s) 338, 404, 1083
BtsI GCAGTG 1 cut(s) 639
BtsIMutI CAGTG 6 cut(s) 90, 639, 846, 975, 1200, 1311
Cac8I GCNNGC 2 cut(s) 593, 607
CaiI CAGNNNCTG 1 cut(s) 208
Cfr13I GGNCC 4 cut(s) 131, 279, 722, 1012
Cfr42I CCGCGG 1 cut(s) 606
CseI GACGC 1 cut(s) 458
Csp6I GTAC 7 cut(s) 58, 205, 307, 421, 746, 982, 1189
CspCI CAANNNNNGTGG 2 cut(s) 154, 189
CviAII CATG 7 cut(s) 263, 560, 838, 970, 1131, 1181, 1229
CviQI GTAC 7 cut(s) 58, 205, 307, 421, 746, 982, 1189
DdeI CTNAG 5 cut(s) 93, 105, 283, 491, 1235
DpnI GATC 4 cut(s) 69, 185, 615, 1311
DpnII GATC 4 cut(s) 67, 183, 613, 1309
EaeI YGGCCR 2 cut(s) 199, 556
Ecl136II GAGCTC 1 cut(s) 372
Eco130I CCWWGG 3 cut(s) 169, 586, 901
Eco24I GRGCYC 1 cut(s) 374
Eco47I GGWCC 3 cut(s) 131, 722, 1012
Eco53kI GAGCTC 1 cut(s) 372
Eco57I CTGAAG 1 cut(s) 882
Eco72I CACGTG 1 cut(s) 49
Eco81I CCTNAGG 1 cut(s) 1235
EcoICRI GAGCTC 1 cut(s) 372
EcoO109I RGGNCCY 2 cut(s) 279, 722
EcoRII CCWGG 1 cut(s) 802
EcoT14I CCWWGG 3 cut(s) 169, 586, 901
EcoT22I ATGCAT 1 cut(s) 124
EcoT38I GRGCYC 1 cut(s) 374
ErhI CCWWGG 3 cut(s) 169, 586, 901
FaeI CATG 7 cut(s) 266, 563, 841, 973, 1134, 1184, 1232
FaqI GGGAC 1 cut(s) 735
FatI CATG 7 cut(s) 262, 559, 837, 969, 1130, 1180, 1228
FauI CCCGC 3 cut(s) 598, 602, 733
Fnu4HI GCNGC 2 cut(s) 237, 699
FokI GGATG 3 cut(s) 325, 391, 1090
FriOI GRGCYC 1 cut(s) 374
Fsp4HI GCNGC 2 cut(s) 237, 699
FspBI CTAG 6 cut(s) 30, 446, 545, 587, 819, 1209
GluI GCNGC 2 cut(s) 237, 699
HaeIII GGCC 6 cut(s) 98, 201, 281, 558, 591, 764
HapII CCGG 4 cut(s) 75, 226, 240, 636
HgaI GACGC 1 cut(s) 458
Hin1I GRCGYC 1 cut(s) 450
Hin1II CATG 7 cut(s) 266, 563, 841, 973, 1134, 1184, 1232
HincII GTYRAC 1 cut(s) 964
HindII GTYRAC 1 cut(s) 964
HinfI GANTC 2 cut(s) 259, 1268
HpaI GTTAAC 1 cut(s) 964
HpaII CCGG 4 cut(s) 75, 226, 240, 636
HphI GGTGA 4 cut(s) 19, 592, 697, 917
Hpy166II GTNNAC 5 cut(s) 179, 746, 964, 975, 1057
Hpy188I TCNGA 7 cut(s) 139, 286, 494, 575, 776, 1249, 1273
Hpy188III TCNNGA 5 cut(s) 148, 191, 295, 720, 1261
Hpy8I GTNNAC 5 cut(s) 179, 746, 964, 975, 1057
HpyAV CCTTC 4 cut(s) 134, 188, 592, 1095
HpyCH4III ACNGT 3 cut(s) 62, 1111, 1306
HpyCH4IV ACGT 3 cut(s) 48, 56, 272
HpyCH4V TGCA 8 cut(s) 19, 116, 122, 179, 389, 644, 1114, 1186
HpyF10VI GCNNNNNNNGC 1 cut(s) 1286
HpyF3I CTNAG 5 cut(s) 93, 105, 283, 491, 1235
HpySE526I ACGT 3 cut(s) 48, 56, 272
Hsp92I GRCGYC 1 cut(s) 450
Hsp92II CATG 7 cut(s) 266, 563, 841, 973, 1134, 1184, 1232
KflI GGGWCCC 1 cut(s) 722
KspAI GTTAAC 1 cut(s) 964
KspI CCGCGG 1 cut(s) 606
Kzo9I GATC 4 cut(s) 67, 183, 613, 1309
LmnI GCTCC 1 cut(s) 228
Lsp1109I GCAGC 2 cut(s) 223, 685
LweI GCATC 3 cut(s) 6, 109, 898
MaeI CTAG 6 cut(s) 30, 446, 545, 587, 819, 1209
MaeII ACGT 3 cut(s) 48, 56, 272
MaeIII GTNAC 3 cut(s) 49, 673, 1300
MalI GATC 4 cut(s) 69, 185, 615, 1311
MbiI CCGCTC 1 cut(s) 223
MboI GATC 4 cut(s) 67, 183, 613, 1309
MboII GAAGA 4 cut(s) 390, 875, 889, 1148
MfeI CAATTG 3 cut(s) 508, 1007, 1095
MhlI GDGCHC 4 cut(s) 181, 374, 1094, 1202
MlsI TGGCCA 2 cut(s) 201, 558
MluCI AATT 7 cut(s) 159, 508, 829, 999, 1007, 1095, 1152
MluNI TGGCCA 2 cut(s) 201, 558
MlyI GAGTC 1 cut(s) 1277
Mox20I TGGCCA 2 cut(s) 201, 558
Mph1103I ATGCAT 1 cut(s) 124
MroXI GAANNNNTTC 2 cut(s) 631, 1002
MscI TGGCCA 2 cut(s) 201, 558
MseI TTAA 4 cut(s) 654, 963, 1032, 1146
Msp20I TGGCCA 2 cut(s) 201, 558
MspA1I CMGCKG 1 cut(s) 605
MspCI CTTAAG 1 cut(s) 653
MspI CCGG 4 cut(s) 75, 226, 240, 636
MspR9I CCNGG 2 cut(s) 76, 804
MunI CAATTG 3 cut(s) 508, 1007, 1095
Mva1269I GAATGC 1 cut(s) 540
MvaI CCWGG 1 cut(s) 804
MvnI CGCG 1 cut(s) 605
MwoI GCNNNNNNNGC 1 cut(s) 1286
NciI CCSGG 1 cut(s) 76
NdeII GATC 4 cut(s) 67, 183, 613, 1309
NlaIII CATG 7 cut(s) 266, 563, 841, 973, 1134, 1184, 1232
NlaIV GGNNCC 4 cut(s) 723, 724, 1126, 1284
NmuCI GTSAC 3 cut(s) 49, 673, 1300
NsiI ATGCAT 1 cut(s) 124
NspI RCATGY 2 cut(s) 973, 1184
PciI ACATGT 1 cut(s) 969
PctI GAATGC 1 cut(s) 540
PdmI GAANNNNTTC 2 cut(s) 631, 1002
PfeI GAWTC 1 cut(s) 259
Pfl23II CGTACG 1 cut(s) 57
PkrI GCNGC 2 cut(s) 238, 700
PleI GAGTC 1 cut(s) 1276
PmaCI CACGTG 1 cut(s) 49
PmlI CACGTG 1 cut(s) 49
PpsI GAGTC 1 cut(s) 1276
Ppu21I YACGTR 1 cut(s) 49
PpuMI RGGWCCY 1 cut(s) 722
PscI ACATGT 1 cut(s) 969
Psp124BI GAGCTC 1 cut(s) 374
Psp1406I AACGTT 1 cut(s) 272
Psp5II RGGWCCY 1 cut(s) 722
Psp6I CCWGG 1 cut(s) 802
PspCI CACGTG 1 cut(s) 49
PspGI CCWGG 1 cut(s) 802
PspLI CGTACG 1 cut(s) 57
PspN4I GGNNCC 4 cut(s) 723, 724, 1126, 1284
PspPI GGNCC 4 cut(s) 131, 279, 722, 1012
PspPPI RGGWCCY 1 cut(s) 722
PstNI CAGNNNCTG 1 cut(s) 208
RsaI GTAC 7 cut(s) 59, 206, 308, 422, 747, 983, 1190
RsaNI GTAC 7 cut(s) 58, 205, 307, 421, 746, 982, 1189
SacI GAGCTC 1 cut(s) 374
SacII CCGCGG 1 cut(s) 606
SaqAI TTAA 4 cut(s) 654, 963, 1032, 1146
SatI GCNGC 2 cut(s) 237, 699
Sau3AI GATC 4 cut(s) 67, 183, 613, 1309
Sau96I GGNCC 4 cut(s) 131, 279, 722, 1012
ScaI AGTACT 1 cut(s) 1190
SchI GAGTC 1 cut(s) 1277
ScrFI CCNGG 2 cut(s) 76, 804
SduI GDGCHC 4 cut(s) 181, 374, 1094, 1202
SfaNI GCATC 3 cut(s) 6, 109, 898
SfcI CTRYAG 2 cut(s) 457, 702
Sfr303I CCGCGG 1 cut(s) 606
SgrBI CCGCGG 1 cut(s) 606
SinI GGWCC 3 cut(s) 131, 722, 1012
SmlI CTYRAG 2 cut(s) 653, 793
SmoI CTYRAG 2 cut(s) 653, 793
SpeI ACTAGT 1 cut(s) 29
Sse9I AATT 7 cut(s) 159, 508, 829, 999, 1007, 1095, 1152
SsiI CCGC 6 cut(s) 221, 603, 605, 609, 726, 1280
SspMI CTAG 6 cut(s) 30, 446, 545, 587, 819, 1209
SstI GAGCTC 1 cut(s) 374
StyD4I CCNGG 2 cut(s) 74, 802
StyI CCWWGG 3 cut(s) 169, 586, 901
TaaI ACNGT 3 cut(s) 62, 1111, 1306
TaiI ACGT 3 cut(s) 51, 59, 275
TasI AATT 7 cut(s) 159, 508, 829, 999, 1007, 1095, 1152
TatI WGTACW 3 cut(s) 420, 745, 1188
TfiI GAWTC 1 cut(s) 259
Tru1I TTAA 4 cut(s) 654, 963, 1032, 1146
Tru9I TTAA 4 cut(s) 654, 963, 1032, 1146
TscAI CASTG 6 cut(s) 97, 646, 853, 982, 1207, 1311
TseFI GTSAC 3 cut(s) 49, 673, 1300
TseI GCWGC 2 cut(s) 236, 698
Tsp45I GTSAC 3 cut(s) 49, 673, 1300
TspDTI ATGAA 6 cut(s) 251, 318, 369, 390, 576, 1094
TspRI CASTG 6 cut(s) 97, 646, 853, 982, 1207, 1311
Vha464I CTTAAG 1 cut(s) 653
VneI GTGCAC 1 cut(s) 177
VpaK11BI GGWCC 3 cut(s) 131, 722, 1012
XceI RCATGY 2 cut(s) 973, 1184
XmaJI CCTAGG 1 cut(s) 586
XmnI GAANNNNTTC 2 cut(s) 631, 1002
XspI CTAG 6 cut(s) 30, 446, 545, 587, 819, 1209
ZrmI AGTACT 1 cut(s) 1190
Zsp2I ATGCAT 1 cut(s) 124
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.