RLG00000032561

Polygalacturonase QRT3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr7
OG0016157
Physical Location & Seq
Reverse (-)
16457001 .. 16461600
4600 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000032561

Sequence Viewer

Length: 1464 bp
ATGAGAATGAGACCTATATCAGCATTGTGTGGTCTCCTGCTCCTAATGCTATTGGTAGAAGAAGCTACATCTAGTTCCAGAAGACATGAAATGCTATCATCATTTCAGGCAAAGCTTCATGAAAAATCACTGTCCGGTCCAACCAAACCGCCTCTCTCATCATTGTTCGAAGCTTCAAATGTCAGTAGGGATGGGAGAGTGTTTTACCCGATCGGGTACGGGGCAGACCCAACCGGGGCAAATGACAGCACAGAAGCCATAGCAAAAGCTTTGGAGGAAGCTTTTCAGTTGGAAAGTGGGCTTGAAATGCTGCCGGGAATCACTGACTTGGGAGGCATTGTCATTGATCTGCAAGGTGGAAATTACAAGATTGCCCAGCCTTTACGGTTCCCTCCAAACAGAGGCAACATTGTGATACAAGGAGGAACGCTGCGAGCCTCTGAAACATTTCCCGGTGACCGCCACCTAGTCGAATTATGGTCTCCAAATTCTCAAAAGCTTGGGGAAAAAACCTCCATCACCAATCAATTCTTCTTTGATAAAAAAGTCGAAGGCGGTGTAGGAATCTACTACGAAGACATCACCTTTAGAGATATACTATTCGATTCAAGCTTTAGAGGAGGAGGCATTTTCATAGTCGATTCAGCTCGAGTTCGCATAACTAATTGCTTCTTTCTACACTTCACAACACAAGGGATTCTAGTCGAAAAGGGCCACGAAACCTACATATCAAACTCCTTCTTGGGACAACACTCCACAGTTGGTGGTGACAAAGGTGAGAGGGGATTTACCGGCACAGCCATCGATCTTGCTAGCAATGACAATGCCGTAACTGATGTCGTAATATTTTCAGCTGAAATTGGGATTGTGTTAAGGGGTCAAGCTAACATGGTCACAGGGGTACATTGTTATAACAAGGCAACTGGCTTTGGGGGTATAGGTATTTTGGTAAAGTTAGCAGGAAACTCACAAACTAGGATTGACAATTGCTACTTGGATTTCAATGCTATTGTCATGGAAGACCCAGTTCAAGTTCATGTGACCAATGGGTTCTTTTTGGGTGATGCTAATGTGGTGTTGAAATCTGTCAATGGCAAGATTCTAGGGTTAAATATTGTGAACAATATGTTCACTGGGAACCCTAGTACTGTTCCCATGGTTCAATTAGATGGGCAATTTGGGGACATTGATCAAGTGGTGATTGACCAGAACAATGTGATTGGGATGAGCTTGAAATCAACGGTAGGGAGACTAAGTGTGGAGGGGAATGGGACCAAATGGGTGGCTGATTTTTCTTCCCAGTTGGTCTTTCCCAACCGGATTAATCATTTTCAGTATTCTTTACATACAAAAGGGGAAACCAAGTTTACTACACATGCTGTGACAAATGTATCGAACAATGTGGTGGTTGTGGAGAGTCAAAATGAGGTAGATGGTGTGGTTTCTCTAGTTGTTCACCAGTAG
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

Protein Analysis

488

Amino Acids

52.79

Weight (kDa)

5.57

Isoelectric Point (pI)

21.91

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016157)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20040
fragaria_vesca FvH4_3g12830
malus_domestica MD05G1247600.v1.1
prunus_persica Prupe.4G116400_v2.0.a1
pyrus_communis pycom05g22370
rosa_chinensis RchiOBHm_Chr5g0020771
rosa_laevigata RLG00000032561
rosa_multiflora Rmu_sc0002527.1_g000005
rosa_roxburghii Rroxscaffold_1G00057530
rosa_rugosa Rorug05G0062800
rosa_samantha Rh5AG152700 Rh5BG152400 Rh5CG164000 Rh5DG151900
rosa_wichuraiana Rw5G013540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 912
AciI CCGC 3 cut(s) 149, 460, 555
AcsI RAATTY 1 cut(s) 487
AfaI GTAC 3 cut(s) 218, 903, 1147
AfiI CCNNNNNNNGG 2 cut(s) 235, 401
AgsI TTSAA 8 cut(s) 177, 305, 609, 1003, 1031, 1081, 1163, 1234
AjuI GAANNNNNNNTTGG 2 cut(s) 515, 547
Alw26I GTCTC 4 cut(s) 4, 38, 486, 1243
Ama87I CYCGRG 1 cut(s) 648
AoxI GGCC 1 cut(s) 712
ApeKI GCWGC 2 cut(s) 310, 430
ApoI RAATTY 1 cut(s) 487
AseI ATTAAT 1 cut(s) 1323
Asp700I GAANNNNTTC 2 cut(s) 282, 447
AspS9I GGNCC 3 cut(s) 137, 712, 1272
AsuC2I CCSGG 3 cut(s) 235, 315, 453
AsuHPI GGTGA 8 cut(s) 467, 511, 574, 779, 788, 1073, 1210, 1448
AsuII TTCGAA 1 cut(s) 168
AsuNHI GCTAGC 1 cut(s) 812
AvaI CYCGRG 1 cut(s) 648
AvaII GGWCC 2 cut(s) 137, 1272
BaeI ACNNNNGTAYC 2 cut(s) 1374, 1407
BbsI GAAGAC 3 cut(s) 88, 582, 1026
BbvI GCAGC 2 cut(s) 297, 417
BccI CCATC 5 cut(s) 185, 524, 809, 1163, 1427
BceAI ACGGC 1 cut(s) 812
BcgI CGANNNNNNTGC 2 cut(s) 784, 818
BclI TGATCA 1 cut(s) 1189
BcnI CCSGG 3 cut(s) 235, 315, 453
BcoDI GTCTC 4 cut(s) 4, 38, 486, 1243
BfaI CTAG 8 cut(s) 72, 467, 701, 813, 975, 1103, 1143, 1448
BisI GCNGC 2 cut(s) 311, 431
BlsI GCNGC 2 cut(s) 312, 432
BmcAI AGTACT 1 cut(s) 1147
Bme1390I CCNGG 3 cut(s) 235, 315, 453
Bme18I GGWCC 2 cut(s) 137, 1272
BmeT110I CYCGRG 1 cut(s) 648
BmgT120I GGNCC 3 cut(s) 137, 712, 1272
BmiI GGNNCC 3 cut(s) 389, 1139, 1273
BmrFI CCNGG 3 cut(s) 235, 315, 453
BmrI ACTGGG 3 cut(s) 1019, 1143, 1294
BmsI GCATC 1 cut(s) 1054
BmtI GCTAGC 1 cut(s) 816
BmuI ACTGGG 3 cut(s) 1019, 1143, 1294
BpiI GAAGAC 3 cut(s) 88, 582, 1026
Bpu14I TTCGAA 1 cut(s) 168
BpuMI CCSGG 3 cut(s) 235, 315, 453
Bsa29I ATCGAT 1 cut(s) 804
BsaI GGTCTC 3 cut(s) 4, 38, 486
BsaJI CCNNGG 2 cut(s) 234, 1155
BsaWI WCCGGW 2 cut(s) 134, 1317
BsaXI ACNNNNNCTCC 4 cut(s) 324, 354, 1240, 1270
Bsc4I CCNNNNNNNGG 2 cut(s) 235, 401
Bse118I RCCGGY 1 cut(s) 791
Bse1I ACTGG 5 cut(s) 928, 1025, 1138, 1300, 1459
Bse3DI GCAATG 1 cut(s) 823
BseCI ATCGAT 1 cut(s) 804
BseDI CCNNGG 2 cut(s) 234, 1155
BseGI GGATG 2 cut(s) 196, 1230
BseLI CCNNNNNNNGG 2 cut(s) 235, 401
BseMI GCAATG 1 cut(s) 823
BseNI ACTGG 5 cut(s) 928, 1025, 1138, 1300, 1459
BseRI GAGGAG 2 cut(s) 633, 636
BseXI GCAGC 2 cut(s) 297, 417
BseYI CCCAGC 1 cut(s) 375
Bsh1285I CGRYCG 1 cut(s) 213
BshFI GGCC 1 cut(s) 714
BshVI ATCGAT 1 cut(s) 804
BsiEI CGRYCG 1 cut(s) 213
BsiHKCI CYCGRG 1 cut(s) 648
BsiSI CCGG 6 cut(s) 135, 234, 314, 453, 792, 1318
BslFI GGGAC 3 cut(s) 759, 1196, 1285
BslI CCNNNNNNNGG 2 cut(s) 235, 401
BsmAI GTCTC 4 cut(s) 4, 38, 486, 1243
BsmFI GGGAC 3 cut(s) 759, 1196, 1285
BsnI GGCC 1 cut(s) 714
Bso31I GGTCTC 3 cut(s) 4, 38, 486
BsoBI CYCGRG 1 cut(s) 648
Bsp119I TTCGAA 1 cut(s) 168
Bsp143I GATC 4 cut(s) 210, 346, 805, 1189
Bsp19I CCATGG 1 cut(s) 1155
BspACI CCGC 3 cut(s) 149, 460, 555
BspANI GGCC 1 cut(s) 714
BspDI ATCGAT 1 cut(s) 804
BspHI TCATGA 1 cut(s) 118
BspLI GGNNCC 3 cut(s) 389, 1139, 1273
BspOI GCTAGC 1 cut(s) 816
BspT104I TTCGAA 1 cut(s) 168
BspTNI GGTCTC 3 cut(s) 4, 38, 486
BsrDI GCAATG 1 cut(s) 823
BsrFI RCCGGY 1 cut(s) 791
BsrI ACTGG 5 cut(s) 928, 1025, 1138, 1300, 1459
BssAI RCCGGY 1 cut(s) 791
BssECI CCNNGG 2 cut(s) 234, 1155
BssMI GATC 4 cut(s) 210, 346, 805, 1189
BssT1I CCWWGG 1 cut(s) 1155
Bst4CI ACNGT 5 cut(s) 132, 387, 760, 1150, 1243
BstBI TTCGAA 1 cut(s) 168
BstC8I GCNNGC 2 cut(s) 435, 814
BstDEI CTNAG 1 cut(s) 1253
BstDSI CCRYGG 1 cut(s) 1155
BstEII GGTNACC 1 cut(s) 455
BstF5I GGATG 2 cut(s) 196, 1230
BstKTI GATC 4 cut(s) 213, 349, 808, 1192
BstMAI GTCTC 4 cut(s) 4, 38, 486, 1243
BstMBI GATC 4 cut(s) 210, 346, 805, 1189
BstMCI CGRYCG 1 cut(s) 213
BstMWI GCNNNNNNNGC 2 cut(s) 46, 307
BstNSI RCATGY 1 cut(s) 1379
BstPI GGTNACC 1 cut(s) 455
BstSCI CCNGG 3 cut(s) 233, 313, 451
BstV1I GCAGC 2 cut(s) 297, 417
BstV2I GAAGAC 3 cut(s) 88, 582, 1026
BstXI CCANNNNNNTGG 1 cut(s) 1282
Bsu15I ATCGAT 1 cut(s) 804
BsuRI GGCC 1 cut(s) 714
BsuTUI ATCGAT 1 cut(s) 804
BtgI CCRYGG 1 cut(s) 1155
BtsCI GGATG 2 cut(s) 196, 1230
BtsIMutI CAGTG 3 cut(s) 128, 321, 1131
Cac8I GCNNGC 2 cut(s) 435, 814
CciI TCATGA 1 cut(s) 118
Cfr10I RCCGGY 1 cut(s) 791
Cfr13I GGNCC 3 cut(s) 137, 712, 1272
ClaI ATCGAT 1 cut(s) 804
Csp6I GTAC 3 cut(s) 217, 902, 1146
CviAII CATG 7 cut(s) 86, 119, 889, 1015, 1037, 1156, 1376
CviQI GTAC 3 cut(s) 217, 902, 1146
DdeI CTNAG 1 cut(s) 1253
DpnI GATC 4 cut(s) 212, 348, 807, 1191
DpnII GATC 4 cut(s) 210, 346, 805, 1189
Eco130I CCWWGG 1 cut(s) 1155
Eco31I GGTCTC 3 cut(s) 4, 38, 486
Eco47I GGWCC 2 cut(s) 137, 1272
Eco88I CYCGRG 1 cut(s) 648
Eco91I GGTNACC 1 cut(s) 455
EcoO65I GGTNACC 1 cut(s) 455
EcoT14I CCWWGG 1 cut(s) 1155
ErhI CCWWGG 1 cut(s) 1155
FaeI CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1159, 1379
FaqI GGGAC 3 cut(s) 759, 1196, 1285
FatI CATG 7 cut(s) 85, 118, 888, 1014, 1036, 1155, 1375
FbaI TGATCA 1 cut(s) 1189
Fnu4HI GCNGC 2 cut(s) 311, 431
FokI GGATG 2 cut(s) 203, 1237
Fsp4HI GCNGC 2 cut(s) 311, 431
FspBI CTAG 8 cut(s) 72, 467, 701, 813, 975, 1103, 1143, 1448
GluI GCNGC 2 cut(s) 311, 431
GsaI CCCAGC 1 cut(s) 379
HaeIII GGCC 1 cut(s) 714
HapII CCGG 6 cut(s) 135, 234, 314, 453, 792, 1318
Hin1II CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1159, 1379
HindIII AAGCTT 6 cut(s) 113, 171, 267, 279, 497, 610
HinfI GANTC 7 cut(s) 318, 564, 605, 641, 697, 1099, 1417
HpaII CCGG 6 cut(s) 135, 234, 314, 453, 792, 1318
HphI GGTGA 8 cut(s) 467, 511, 574, 779, 788, 1073, 1210, 1448
Hpy166II GTNNAC 4 cut(s) 1120, 1131, 1368, 1456
Hpy188I TCNGA 1 cut(s) 442
Hpy188III TCNNGA 2 cut(s) 78, 119
Hpy8I GTNNAC 4 cut(s) 1120, 1131, 1368, 1456
HpyAV CCTTC 2 cut(s) 545, 748
HpyCH4III ACNGT 5 cut(s) 132, 387, 760, 1150, 1243
HpyCH4V TGCA 1 cut(s) 352
HpyF10VI GCNNNNNNNGC 2 cut(s) 46, 307
HpyF3I CTNAG 1 cut(s) 1253
Hsp92II CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1159, 1379
Ksp22I TGATCA 1 cut(s) 1189
Kzo9I GATC 4 cut(s) 210, 346, 805, 1189
LmnI GCTCC 1 cut(s) 45
Lsp1109I GCAGC 2 cut(s) 297, 417
LweI GCATC 1 cut(s) 1054
MaeI CTAG 8 cut(s) 72, 467, 701, 813, 975, 1103, 1143, 1448
MaeIII GTNAC 6 cut(s) 455, 767, 829, 892, 1039, 1381
MalI GATC 4 cut(s) 212, 348, 807, 1191
MboI GATC 4 cut(s) 210, 346, 805, 1189
MboII GAAGA 6 cut(s) 71, 93, 523, 587, 1031, 1287
MfeI CAATTG 1 cut(s) 985
MluCI AATT 9 cut(s) 361, 473, 487, 527, 664, 858, 985, 1163, 1175
MlyI GAGTC 1 cut(s) 1426
MmeI TCCRAC 2 cut(s) 164, 270
MroXI GAANNNNTTC 2 cut(s) 282, 447
MseI TTAA 3 cut(s) 872, 1109, 1323
MspA1I CMGCKG 1 cut(s) 854
MspI CCGG 6 cut(s) 135, 234, 314, 453, 792, 1318
MspR9I CCNGG 3 cut(s) 235, 315, 453
MunI CAATTG 1 cut(s) 985
MwoI GCNNNNNNNGC 2 cut(s) 46, 307
NciI CCSGG 3 cut(s) 235, 315, 453
NcoI CCATGG 1 cut(s) 1155
NdeII GATC 4 cut(s) 210, 346, 805, 1189
NheI GCTAGC 1 cut(s) 812
NlaIII CATG 7 cut(s) 89, 122, 892, 1018, 1040, 1159, 1379
NlaIV GGNNCC 3 cut(s) 389, 1139, 1273
NmuCI GTSAC 5 cut(s) 455, 767, 892, 1039, 1381
NspI RCATGY 1 cut(s) 1379
NspV TTCGAA 1 cut(s) 168
PaeR7I CTCGAG 1 cut(s) 648
PagI TCATGA 1 cut(s) 118
PdmI GAANNNNTTC 2 cut(s) 282, 447
PfeI GAWTC 6 cut(s) 318, 564, 605, 641, 697, 1099
PkrI GCNGC 2 cut(s) 312, 432
Ple19I CGATCG 1 cut(s) 213
PleI GAGTC 1 cut(s) 1425
PpsI GAGTC 1 cut(s) 1425
PshBI ATTAAT 1 cut(s) 1323
PsiI TTATAA 1 cut(s) 912
PspEI GGTNACC 1 cut(s) 455
PspFI CCCAGC 1 cut(s) 375
PspN4I GGNNCC 3 cut(s) 389, 1139, 1273
PspPI GGNCC 3 cut(s) 137, 712, 1272
PspXI VCTCGAGB 1 cut(s) 648
PvuI CGATCG 1 cut(s) 213
PvuII CAGCTG 1 cut(s) 854
RsaI GTAC 3 cut(s) 218, 903, 1147
RsaNI GTAC 3 cut(s) 217, 902, 1146
SaqAI TTAA 3 cut(s) 872, 1109, 1323
SatI GCNGC 2 cut(s) 311, 431
Sau3AI GATC 4 cut(s) 210, 346, 805, 1189
Sau96I GGNCC 3 cut(s) 137, 712, 1272
ScaI AGTACT 1 cut(s) 1147
SchI GAGTC 1 cut(s) 1426
ScrFI CCNGG 3 cut(s) 235, 315, 453
SfaNI GCATC 1 cut(s) 1054
Sfr274I CTCGAG 1 cut(s) 648
SfuI TTCGAA 1 cut(s) 168
SinI GGWCC 2 cut(s) 137, 1272
SlaI CTCGAG 1 cut(s) 648
SmlI CTYRAG 1 cut(s) 648
SmoI CTYRAG 1 cut(s) 648
Sse9I AATT 9 cut(s) 361, 473, 487, 527, 664, 858, 985, 1163, 1175
SsiI CCGC 3 cut(s) 149, 460, 555
SspI AATATT 2 cut(s) 846, 1114
SspMI CTAG 8 cut(s) 72, 467, 701, 813, 975, 1103, 1143, 1448
StyD4I CCNGG 3 cut(s) 233, 313, 451
StyI CCWWGG 1 cut(s) 1155
TaaI ACNGT 5 cut(s) 132, 387, 760, 1150, 1243
TaqI TCGA 9 cut(s) 168, 471, 549, 603, 639, 649, 705, 804, 1394
TasI AATT 9 cut(s) 361, 473, 487, 527, 664, 858, 985, 1163, 1175
TatI WGTACW 1 cut(s) 1145
TfiI GAWTC 6 cut(s) 318, 564, 605, 641, 697, 1099
Tru1I TTAA 3 cut(s) 872, 1109, 1323
Tru9I TTAA 3 cut(s) 872, 1109, 1323
TscAI CASTG 3 cut(s) 135, 328, 1138
TseFI GTSAC 5 cut(s) 455, 767, 892, 1039, 1381
TseI GCWGC 2 cut(s) 310, 430
Tsp45I GTSAC 5 cut(s) 455, 767, 892, 1039, 1381
TspDTI ATGAA 5 cut(s) 102, 107, 135, 622, 1025
TspRI CASTG 3 cut(s) 135, 328, 1138
VpaK11BI GGWCC 2 cut(s) 137, 1272
VspI ATTAAT 1 cut(s) 1323
XapI RAATTY 1 cut(s) 487
XceI RCATGY 1 cut(s) 1379
XhoI CTCGAG 1 cut(s) 648
XmnI GAANNNNTTC 2 cut(s) 282, 447
XspI CTAG 8 cut(s) 72, 467, 701, 813, 975, 1103, 1143, 1448
ZrmI AGTACT 1 cut(s) 1147
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.