RLG00000006749

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0015960
Physical Location & Seq
Forward (+)
10184132 .. 10186272
2141 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000006749

Sequence Viewer

Length: 1398 bp
ATGACTTCGTCCACTCTACTACTGTTTTTATGGATTGTTTTTGTCACATTTTCCATAACTTCGGTTGAGGCAAGAAAGCACCAAACCAAGAAGAGCAAACCCCAAAAACATCAAAAAAGTGGTAATAACACTCATGAGTCACATTTGCCTCGTCCTGCTCCAACTCCAGTTCCTCAGTATGGTTCCTTTTCTGTCTTGTCCTTTGGAGCCAAGGGTGATGGTGTCTCCGACGATTCTAAGGCGCTCATAGCGGCATGGAAAGCTGCCTGCAAAGTGAATGGGGCTAGTGTAGAAATCCCTTCAGGATTCAAGTTCCTCATCAAGCCAATAACTCTTCAAGGCCCTTGTATGCCTGACGTTGTTCTTCAGATAGATGGAACTCTAATGGCTCCTCCAAAAGTTAGCTCATGGTCAAAGTCCAGTTTGTTTCAGTGGATAAACTTCAAATGGGTTCATAACTTCACCATCCAGGGCACCGGAGTTGTCGATGGCCAGGGCTCTGACTGGTGGACTAGTAGTTCCTCTTCCTCTTCAATCCATAATTACTTGCAGAAGAAGTCCAACAAGCATATGCCGAATTTCAAACCCACTGCTTTGAGATTCTATTCAAGCTATGATGTGACAGTACGAGATATCAGAATCATAAACAGCCCTCAGTGCCATTTGAAATTTGACAGCTCTGGAGGGATCATAGTTGACAACATTACCATATCTTCACCACAGAATAGTCCAAATACTGATGGAATTCACTTGCAGAACACCCAAAATGTCGAAATTCATCATTCTACTATTGGTTGTGGAGATGACTGTGTATCCATACAAACTGGCTGCTCCAATGTTCATGTTCATCATATCAATTGTGGCCCTGGCCATGGCATAAGTCTAGGAGGACTTGGAAAAGACAGAAGTCTTGCTTGTGTCTCAAATATAATTGTCAATGACATTACATTTCAAAACACTCTATCTGGAGTTAGGATCAAAACATGGCAGGGAGGCATTGGGTCTGTGAAGAATGTATCTTTTTCCAATATCCAAGTTTCGTATGTGAAGGTTCCGATAATGATAGACCAGTACTACTGTGACAAGAAGTCCTGCAAGAACCAAACAGGAGCTGTAGCAATCTCAGGTGTGAAATATGACCAAATAATTGGCACTTATTCGGTGCAGCCTGTTCATCTTGCTTGCAGCAGCGACATTCCATGCACAGATGTTGACCTCATTGATATTCAGCTCAAGCCCTCAGCAGGGTACCAGAGATTTCAACACGCTTTGTGTTGGAACTCTTATGGCAAGTCACAAGCTCCTTTGGTCCCTTCAGGCATAGACTACTGCTTGAGAAGAGATGAAAATCCAGTCGAGAGAATCGCAGAGTCACATTATCGTCAGCATCTGTGCTAG

Protein Analysis

466

Amino Acids

50.98

Weight (kDa)

8.85

Isoelectric Point (pI)

41.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 95 - 414 5.3e-80 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: OG0015960)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26610
fragaria_vesca FvH4_4g26050
malus_domestica MD16G1097700.v1.1
prunus_persica Prupe.1G249200_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0433511
rosa_laevigata RLG00000006749
rosa_multiflora Rmu_sc0000312.1_g000004
rosa_roxburghii Rroxscaffold_5G00375030
rosa_rugosa Rorug04G0269200
rosa_samantha Rh4AG323800 Rh4BG331800 Rh4CG347100 Rh4DG328300
rosa_wichuraiana Rw0G020120 Rw4G028060

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 1248
AccB1I GGYRCC 2 cut(s) 473, 1248
AciI CCGC 1 cut(s) 251
AclWI GGATC 2 cut(s) 695, 983
AcoI YGGCCR 2 cut(s) 490, 868
AcsI RAATTY 4 cut(s) 577, 668, 744, 774
AcuI CTGAAG 3 cut(s) 285, 350, 1299
AfaI GTAC 3 cut(s) 627, 1073, 1250
AfiI CCNNNNNNNGG 4 cut(s) 179, 872, 1244, 1245
AgsI TTSAA 9 cut(s) 310, 338, 445, 534, 583, 609, 667, 953, 1262
AhdI GACNNNNNGTC 1 cut(s) 1087
AhlI ACTAGT 1 cut(s) 512
AjnI CCWGG 3 cut(s) 468, 492, 865
AloI GAACNNNNNNTCC 2 cut(s) 502, 534
AluBI AGCT 7 cut(s) 263, 405, 612, 678, 1112, 1231, 1301
AluI AGCT 7 cut(s) 263, 405, 612, 678, 1112, 1231, 1301
Alw26I GTCTC 2 cut(s) 229, 925
AlwI GGATC 2 cut(s) 695, 983
AlwNI CAGNNNCTG 2 cut(s) 1112, 1390
AoxI GGCC 4 cut(s) 340, 490, 862, 868
ApeKI GCWGC 5 cut(s) 263, 828, 1165, 1185, 1188
ApoI RAATTY 4 cut(s) 577, 668, 744, 774
Asp718I GGTACC 1 cut(s) 1248
AspLEI GCGC 1 cut(s) 244
AspS9I GGNCC 3 cut(s) 341, 863, 1309
AsuHPI GGTGA 3 cut(s) 227, 454, 708
AvaII GGWCC 1 cut(s) 1309
BaeGI GKGCMC 1 cut(s) 476
BalI TGGCCA 2 cut(s) 492, 870
BanI GGYRCC 2 cut(s) 473, 1248
BanII GRGCYC 1 cut(s) 500
BarI GAAGNNNNNNTAC 2 cut(s) 508, 540
BbvCI CCTCAGC 1 cut(s) 1240
BbvI GCAGC 5 cut(s) 250, 815, 1177, 1197, 1200
BccI CCATC 5 cut(s) 212, 368, 473, 482, 734
BciT130I CCWGG 3 cut(s) 470, 494, 867
BciVI GTATCC 1 cut(s) 823
BcoDI GTCTC 2 cut(s) 229, 925
BcuI ACTAGT 1 cut(s) 512
BfaI CTAG 4 cut(s) 285, 513, 884, 1396
BfmI CTRYAG 1 cut(s) 1113
BfoI RGCGCY 1 cut(s) 245
BfuI GTATCC 1 cut(s) 823
BisI GCNGC 6 cut(s) 252, 264, 829, 1166, 1186, 1189
BlsI GCNGC 6 cut(s) 253, 265, 830, 1167, 1187, 1190
BmcAI AGTACT 1 cut(s) 1073
Bme1390I CCNGG 3 cut(s) 470, 494, 867
Bme18I GGWCC 1 cut(s) 1309
BmeRI GACNNNNNGTC 1 cut(s) 1087
BmgT120I GGNCC 3 cut(s) 341, 863, 1309
BmiI GGNNCC 7 cut(s) 184, 208, 390, 475, 1053, 1250, 1311
BmrFI CCNGG 3 cut(s) 470, 494, 867
BoxI GACNNNNGTC 1 cut(s) 906
BpmI CTGGAG 3 cut(s) 150, 702, 987
Bpu10I CCTNAGC 1 cut(s) 1240
BpuEI CTTGAG 2 cut(s) 1217, 1354
BsaBI GATNNNNATC 1 cut(s) 1347
BsaJI CCNNGG 5 cut(s) 210, 469, 493, 865, 871
BsaWI WCCGGW 1 cut(s) 476
Bsc4I CCNNNNNNNGG 4 cut(s) 179, 872, 1244, 1245
Bse1I ACTGG 6 cut(s) 167, 420, 509, 829, 1069, 1352
Bse8I GATNNNNATC 1 cut(s) 1347
BseBI CCWGG 3 cut(s) 470, 494, 867
BseDI CCNNGG 5 cut(s) 210, 469, 493, 865, 871
BseGI GGATG 1 cut(s) 465
BseJI GATNNNNATC 1 cut(s) 1347
BseLI CCNNNNNNNGG 4 cut(s) 179, 872, 1244, 1245
BseMII CTCAG 4 cut(s) 188, 668, 1137, 1254
BseNI ACTGG 6 cut(s) 167, 420, 509, 829, 1069, 1352
BseRI GAGGAG 1 cut(s) 381
BseSI GKGCMC 1 cut(s) 476
BseXI GCAGC 5 cut(s) 250, 815, 1177, 1197, 1200
BsgI GTGCAG 1 cut(s) 1184
BshFI GGCC 4 cut(s) 342, 492, 864, 870
BshNI GGYRCC 2 cut(s) 473, 1248
BsiSI CCGG 1 cut(s) 477
BslFI GGGAC 1 cut(s) 1295
BslI CCNNNNNNNGG 4 cut(s) 179, 872, 1244, 1245
BsmAI GTCTC 2 cut(s) 229, 925
BsmFI GGGAC 1 cut(s) 1295
BsnI GGCC 4 cut(s) 342, 492, 864, 870
Bsp1286I GDGCHC 2 cut(s) 476, 500
Bsp143I GATC 2 cut(s) 687, 975
Bsp19I CCATGG 1 cut(s) 871
BspACI CCGC 1 cut(s) 251
BspANI GGCC 4 cut(s) 342, 492, 864, 870
BspCNI CTCAG 4 cut(s) 187, 667, 1136, 1253
BspHI TCATGA 1 cut(s) 133
BspLI GGNNCC 7 cut(s) 184, 208, 390, 475, 1053, 1250, 1311
BspPI GGATC 2 cut(s) 695, 983
BspQI GCTCTTC 1 cut(s) 86
BspT107I GGYRCC 2 cut(s) 473, 1248
BsrI ACTGG 6 cut(s) 167, 420, 509, 829, 1069, 1352
BssECI CCNNGG 5 cut(s) 210, 469, 493, 865, 871
BssMI GATC 2 cut(s) 687, 975
BssT1I CCWWGG 2 cut(s) 210, 871
Bst2UI CCWGG 3 cut(s) 470, 494, 867
Bst4CI ACNGT 4 cut(s) 24, 625, 809, 1079
Bst6I CTCTTC 5 cut(s) 86, 339, 529, 535, 1333
BstC8I GCNNGC 2 cut(s) 268, 1183
BstDEI CTNAG 5 cut(s) 174, 237, 654, 1123, 1240
BstDSI CCRYGG 1 cut(s) 871
BstF5I GGATG 1 cut(s) 465
BstH2I RGCGCY 1 cut(s) 245
BstHHI GCGC 1 cut(s) 244
BstKTI GATC 2 cut(s) 690, 978
BstMAI GTCTC 2 cut(s) 229, 925
BstMBI GATC 2 cut(s) 687, 975
BstMWI GCNNNNNNNGC 3 cut(s) 248, 260, 657
BstNI CCWGG 3 cut(s) 470, 494, 867
BstPAI GACNNNNGTC 1 cut(s) 906
BstSCI CCNGG 3 cut(s) 468, 492, 865
BstSFI CTRYAG 1 cut(s) 1113
BstSLI GKGCMC 1 cut(s) 476
BstV1I GCAGC 5 cut(s) 250, 815, 1177, 1197, 1200
BstXI CCANNNNNNTGG 1 cut(s) 1148
BsuI GTATCC 1 cut(s) 823
BsuRI GGCC 4 cut(s) 342, 492, 864, 870
BtgI CCRYGG 1 cut(s) 871
BtsCI GGATG 1 cut(s) 465
BtsI GCAGTG 1 cut(s) 588
BtsIMutI CAGTG 3 cut(s) 437, 588, 662
Cac8I GCNNGC 2 cut(s) 268, 1183
CaiI CAGNNNCTG 2 cut(s) 1112, 1390
CciI TCATGA 1 cut(s) 133
CfoI GCGC 1 cut(s) 244
Cfr13I GGNCC 3 cut(s) 341, 863, 1309
Csp6I GTAC 3 cut(s) 626, 1072, 1249
CviAII CATG 7 cut(s) 134, 255, 408, 842, 872, 984, 1200
CviQI GTAC 3 cut(s) 626, 1072, 1249
DdeI CTNAG 5 cut(s) 174, 237, 654, 1123, 1240
DpnI GATC 2 cut(s) 689, 977
DpnII GATC 2 cut(s) 687, 975
DriI GACNNNNNGTC 1 cut(s) 1087
EaeI YGGCCR 2 cut(s) 490, 868
Eam1104I CTCTTC 5 cut(s) 86, 339, 529, 535, 1333
Eam1105I GACNNNNNGTC 1 cut(s) 1087
EarI CTCTTC 5 cut(s) 86, 339, 529, 535, 1333
Eco130I CCWWGG 2 cut(s) 210, 871
Eco24I GRGCYC 1 cut(s) 500
Eco32I GATATC 1 cut(s) 634
Eco47I GGWCC 1 cut(s) 1309
Eco57I CTGAAG 3 cut(s) 285, 350, 1299
EcoO109I RGGNCCY 1 cut(s) 341
EcoRI GAATTC 1 cut(s) 744
EcoRII CCWGG 3 cut(s) 468, 492, 865
EcoRV GATATC 1 cut(s) 634
EcoT14I CCWWGG 2 cut(s) 210, 871
EcoT38I GRGCYC 1 cut(s) 500
ErhI CCWWGG 2 cut(s) 210, 871
FaeI CATG 7 cut(s) 137, 258, 411, 845, 875, 987, 1203
FalI AAGNNNNNCTT 2 cut(s) 898, 930
FaqI GGGAC 1 cut(s) 1295
FatI CATG 7 cut(s) 133, 254, 407, 841, 871, 983, 1199
FauNDI CATATG 1 cut(s) 570
Fnu4HI GCNGC 6 cut(s) 252, 264, 829, 1166, 1186, 1189
FokI GGATG 1 cut(s) 452
FriOI GRGCYC 1 cut(s) 500
Fsp4HI GCNGC 6 cut(s) 252, 264, 829, 1166, 1186, 1189
FspBI CTAG 4 cut(s) 285, 513, 884, 1396
GlaI GCGC 1 cut(s) 243
GluI GCNGC 6 cut(s) 252, 264, 829, 1166, 1186, 1189
GsuI CTGGAG 3 cut(s) 150, 702, 987
HaeII RGCGCY 1 cut(s) 245
HaeIII GGCC 4 cut(s) 342, 492, 864, 870
HapII CCGG 1 cut(s) 477
HhaI GCGC 1 cut(s) 244
Hin1II CATG 7 cut(s) 137, 258, 411, 845, 875, 987, 1203
Hin6I GCGC 1 cut(s) 242
HinP1I GCGC 1 cut(s) 242
HincII GTYRAC 2 cut(s) 697, 1213
HindII GTYRAC 2 cut(s) 697, 1213
HinfI GANTC 7 cut(s) 137, 233, 306, 600, 639, 1362, 1370
HpaII CCGG 1 cut(s) 477
HphI GGTGA 3 cut(s) 227, 454, 708
Hpy166II GTNNAC 4 cut(s) 12, 510, 697, 1213
Hpy188I TCNGA 5 cut(s) 229, 369, 502, 638, 1056
Hpy188III TCNNGA 5 cut(s) 134, 303, 681, 966, 1357
Hpy8I GTNNAC 4 cut(s) 12, 510, 697, 1213
Hpy99I CGWCG 1 cut(s) 233
HpyAV CCTTC 3 cut(s) 309, 1042, 1323
HpyCH4III ACNGT 4 cut(s) 24, 625, 809, 1079
HpyCH4IV ACGT 1 cut(s) 357
HpyCH4V TGCA 7 cut(s) 270, 550, 754, 1095, 1165, 1185, 1203
HpyF10VI GCNNNNNNNGC 3 cut(s) 248, 260, 657
HpyF3I CTNAG 5 cut(s) 174, 237, 654, 1123, 1240
HpySE526I ACGT 1 cut(s) 357
Hsp92II CATG 7 cut(s) 137, 258, 411, 845, 875, 987, 1203
HspAI GCGC 1 cut(s) 242
KpnI GGTACC 1 cut(s) 1252
Kzo9I GATC 2 cut(s) 687, 975
LguI GCTCTTC 1 cut(s) 86
LmnI GCTCC 6 cut(s) 163, 206, 394, 836, 1109, 1306
Lsp1109I GCAGC 5 cut(s) 250, 815, 1177, 1197, 1200
MaeI CTAG 4 cut(s) 285, 513, 884, 1396
MaeII ACGT 1 cut(s) 357
MaeIII GTNAC 6 cut(s) 43, 138, 619, 1079, 1293, 1371
MalI GATC 2 cut(s) 689, 977
MboI GATC 2 cut(s) 687, 975
MboII GAAGA 9 cut(s) 103, 326, 356, 516, 522, 565, 705, 1021, 1350
MfeI CAATTG 1 cut(s) 856
MhlI GDGCHC 2 cut(s) 476, 500
MlsI TGGCCA 2 cut(s) 492, 870
MluCI AATT 8 cut(s) 541, 577, 668, 744, 774, 856, 930, 1146
MluNI TGGCCA 2 cut(s) 492, 870
MlyI GAGTC 2 cut(s) 146, 1379
MmeI TCCRAC 4 cut(s) 185, 252, 585, 1256
Mox20I TGGCCA 2 cut(s) 492, 870
MscI TGGCCA 2 cut(s) 492, 870
Msp20I TGGCCA 2 cut(s) 492, 870
MspI CCGG 1 cut(s) 477
MspR9I CCNGG 3 cut(s) 470, 494, 867
MunI CAATTG 1 cut(s) 856
MvaI CCWGG 3 cut(s) 470, 494, 867
MwoI GCNNNNNNNGC 3 cut(s) 248, 260, 657
NcoI CCATGG 1 cut(s) 871
NdeI CATATG 1 cut(s) 570
NdeII GATC 2 cut(s) 687, 975
NlaIII CATG 7 cut(s) 137, 258, 411, 845, 875, 987, 1203
NlaIV GGNNCC 7 cut(s) 184, 208, 390, 475, 1053, 1250, 1311
NmuCI GTSAC 6 cut(s) 43, 138, 619, 1079, 1293, 1371
PagI TCATGA 1 cut(s) 133
PciSI GCTCTTC 1 cut(s) 86
PfeI GAWTC 5 cut(s) 233, 306, 600, 639, 1362
PflFI GACNNNGTC 1 cut(s) 7
PkrI GCNGC 6 cut(s) 253, 265, 830, 1167, 1187, 1190
PleI GAGTC 2 cut(s) 145, 1378
PpsI GAGTC 2 cut(s) 145, 1378
PshAI GACNNNNGTC 1 cut(s) 906
Psp6I CCWGG 3 cut(s) 468, 492, 865
PspGI CCWGG 3 cut(s) 468, 492, 865
PspN4I GGNNCC 7 cut(s) 184, 208, 390, 475, 1053, 1250, 1311
PspPI GGNCC 3 cut(s) 341, 863, 1309
PstNI CAGNNNCTG 2 cut(s) 1112, 1390
PsyI GACNNNGTC 1 cut(s) 7
RsaI GTAC 3 cut(s) 627, 1073, 1250
RsaNI GTAC 3 cut(s) 626, 1072, 1249
SapI GCTCTTC 1 cut(s) 86
SatI GCNGC 6 cut(s) 252, 264, 829, 1166, 1186, 1189
Sau3AI GATC 2 cut(s) 687, 975
Sau96I GGNCC 3 cut(s) 341, 863, 1309
ScaI AGTACT 1 cut(s) 1073
SchI GAGTC 2 cut(s) 146, 1379
ScrFI CCNGG 3 cut(s) 470, 494, 867
SduI GDGCHC 2 cut(s) 476, 500
SfcI CTRYAG 1 cut(s) 1113
SinI GGWCC 1 cut(s) 1309
SmlI CTYRAG 2 cut(s) 1232, 1333
SmoI CTYRAG 2 cut(s) 1232, 1333
SpeI ACTAGT 1 cut(s) 512
Sse9I AATT 8 cut(s) 541, 577, 668, 744, 774, 856, 930, 1146
SsiI CCGC 1 cut(s) 251
SspMI CTAG 4 cut(s) 285, 513, 884, 1396
StyD4I CCNGG 3 cut(s) 468, 492, 865
StyI CCWWGG 2 cut(s) 210, 871
TaaI ACNGT 4 cut(s) 24, 625, 809, 1079
TaiI ACGT 1 cut(s) 360
TaqI TCGA 3 cut(s) 486, 771, 1356
TasI AATT 8 cut(s) 541, 577, 668, 744, 774, 856, 930, 1146
TatI WGTACW 1 cut(s) 1071
TauI GCSGC 1 cut(s) 254
TfiI GAWTC 5 cut(s) 233, 306, 600, 639, 1362
TscAI CASTG 3 cut(s) 437, 595, 662
TseFI GTSAC 6 cut(s) 43, 138, 619, 1079, 1293, 1371
TseI GCWGC 5 cut(s) 263, 828, 1165, 1185, 1188
Tsp45I GTSAC 6 cut(s) 43, 138, 619, 1079, 1293, 1371
TspDTI ATGAA 6 cut(s) 443, 767, 830, 836, 1163, 1359
TspRI CASTG 3 cut(s) 437, 595, 662
Tth111I GACNNNGTC 1 cut(s) 7
VpaK11BI GGWCC 1 cut(s) 1309
XapI RAATTY 4 cut(s) 577, 668, 744, 774
XspI CTAG 4 cut(s) 285, 513, 884, 1396
ZrmI AGTACT 1 cut(s) 1073
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.