Rw6G025820

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0016261
Physical Location & Seq
Reverse (-)
49272633 .. 49275645
3013 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G025820.1

Sequence Viewer

Length: 1458 bp
ATGGCTCCACAAAGACAATTATTCTCGTTCTGTATTTTTAGTGTCCTCTCCTTTAGTACTATAACTTCAGGCTATGGTGGAACTTTGCCAGATAACAAACCAAGCACTCAGCGCTTCGCTTCTATGTACTCATATAAATTGGGTAAATCGGTTCCCCAGGAGGCCGGTCCTGAAAGGTTCTCCCTTCACACATTGGGTAGCACACTGCAATCAAAGCGGATGGTGACTAATCCTTTTCATCCCATTCACAATGTGAGTGGCGCACGACCATCAACTCCGGCTCCGATTAGCGTTGATAAGTTTGGAGCTAAAGGGATTGATCATACAGATGACACAAAGGCATTTCAGAAGGCGTGGCTGGAAGCTTGTTCCTCCAACGGAGCGGTGGTTCTTCTGGTGCCGCCCCACAGGAGCTATTTCGTTAAGCAATTCACATTCTCAGGCGCGCAATGCAAATCCCATATTACAATGCAGATCCAAGGAACGATAATGGCATTTGAGGATCCGAAAACCTACCGTTTTCCAAATAAAAGTAAGCAGCAGTACTGGCTTACCTTTGAGAGGGTTCAGAACTTGGTGGTTGAAGGTCCTGGAACCATCAATGGCAACGGAGAAAAATGGTGGCAAAGCTCATGCAAACAAAACAATATAACTCGCACGCTGCCCAATTGCAATAACGACGCACCAACTGCTGTAACCTTCAAGACGTGCAATAACTTGACGGTGCATAATCTGAATTTTGAAAAGGCACAGCAGAAGCATGTTTCGTTTGAAAATTGCACGGATGTTAAAGCTTCCCGTCTTAGAATAAATACAACAGAGGCTAGTCCCAACACTGATGGAATTCACGTTACAGAAACCAAGAACATCGACATTTCAATGAGTCGTATAAGCACAGGTGATGATTGTATATCCATTATGGGAGGATCCCAGAATGTTTACGTCGCAAACATAGCTTGCGGACCAGGCCATGGAATCAGCATTGGTAGCTTGGGAAGAGGTGGCTCAGAAGACCATGTTTCCGACGTAACAGTCTTTGGATCAAGGCTAACTGGAACCATGTATGGAGTGAGGATCAAGACATGGCCGGGAGGGTCAGGGTATGCAACCAACATCACATTTCAGATGATACAGATGGATAATGTGACCAACCCCATAATCATCGACCAAAACTACTGCGACACTGCAACCAAAGTCATCAACGGAGAATGCAAACCACCACCACTGCAGAAAAATACAGCAGTTAAAGTGCATAATGTTATGTACCAGAGCATAAATGGGACAGTTTCTAAGGACGGCCAAGCCATAGTATTTAATTGCAGCAGTGTTCCTGGTGGTGCATGTGAGAAGATTGTGCTGGACGATGTTAGACTTGAGAAAGGAGGAGCTGCTGTATGCAGCAACGTCAAACCGACTTACAGCAGAGTAGATTTGCCCCTCAATCGATGCCCTAACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

485

Amino Acids

52.89

Weight (kDa)

8.92

Isoelectric Point (pI)

37.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 123 - 471 1.2e-86 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: OG0016261)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g20980
rosa_chinensis RchiOBHm_Chr6g0287361
rosa_laevigata RLG00000012495
rosa_multiflora Rmu_sc0007029.1_g000028
rosa_roxburghii Rroxscaffold_7G00181500
rosa_rugosa Rorug06G0187300 Rorug06G0187400 Rorug06G0187500 Rorug06G0187600.1
rosa_samantha Rh6AG298800 Rh6BG304300 Rh6CG305300 Rh6CG312900 Rh6DG296200
rosa_wichuraiana Rw6G025820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1031
AccB1I GGYRCC 1 cut(s) 397
AccB7I CCANNNNNTGG 1 cut(s) 971
AccBSI CCGCTC 1 cut(s) 383
AccII CGCG 1 cut(s) 446
AciI CCGC 4 cut(s) 217, 383, 401, 960
AclWI GGATC 7 cut(s) 469, 497, 510, 921, 934, 1048, 1082
AcoI YGGCCR 2 cut(s) 1085, 1297
AcsI RAATTY 2 cut(s) 736, 843
AcuI CTGAAG 1 cut(s) 51
AdeI CACNNNGTG 1 cut(s) 253
AfaI GTAC 4 cut(s) 58, 128, 545, 1265
AfeI AGCGCT 1 cut(s) 113
AfiI CCNNNNNNNGG 2 cut(s) 561, 971
AgsI TTSAA 5 cut(s) 584, 703, 743, 773, 879
AjiI CACGTC 1 cut(s) 708
AjnI CCWGG 4 cut(s) 156, 589, 964, 1330
AloI GAACNNNNNNTCC 2 cut(s) 372, 404
AluBI AGCT 8 cut(s) 308, 365, 414, 630, 794, 956, 990, 1388
AluI AGCT 8 cut(s) 308, 365, 414, 630, 794, 956, 990, 1388
AlwI GGATC 7 cut(s) 469, 497, 510, 921, 934, 1048, 1082
Aor51HI AGCGCT 1 cut(s) 113
AoxI GGCC 4 cut(s) 162, 967, 1085, 1297
ApeKI GCWGC 5 cut(s) 538, 661, 1320, 1388, 1398
ApoI RAATTY 2 cut(s) 736, 843
AspLEI GCGC 4 cut(s) 114, 263, 446, 448
AspS9I GGNCC 3 cut(s) 167, 587, 962
AsuC2I CCSGG 1 cut(s) 1089
AsuHPI GGTGA 2 cut(s) 235, 911
AvaII GGWCC 3 cut(s) 167, 587, 962
BamHI GGATCC 2 cut(s) 502, 926
BanI GGYRCC 1 cut(s) 397
BarI GAAGNNNNNNTAC 2 cut(s) 49, 81
BbsI GAAGAC 1 cut(s) 1017
BbvI GCAGC 5 cut(s) 550, 648, 1332, 1375, 1410
BccI CCATC 5 cut(s) 214, 277, 605, 833, 1129
BceAI ACGGC 1 cut(s) 1312
BciT130I CCWGG 4 cut(s) 158, 591, 966, 1332
BclI TGATCA 1 cut(s) 319
BcnI CCSGG 1 cut(s) 1089
BfaI CTAG 1 cut(s) 825
BfmI CTRYAG 1 cut(s) 1226
BfoI RGCGCY 1 cut(s) 115
BisI GCNGC 6 cut(s) 401, 539, 662, 1321, 1389, 1399
BlsI GCNGC 6 cut(s) 402, 540, 663, 1322, 1390, 1400
BmcAI AGTACT 2 cut(s) 58, 545
Bme1390I CCNGG 5 cut(s) 158, 591, 966, 1089, 1332
Bme18I GGWCC 3 cut(s) 167, 587, 962
BmgBI CACGTC 1 cut(s) 708
BmgT120I GGNCC 3 cut(s) 167, 587, 962
BmiI GGNNCC 8 cut(s) 6, 153, 282, 399, 504, 595, 928, 1057
BmrFI CCNGG 5 cut(s) 158, 591, 966, 1089, 1332
BmsI GCATC 1 cut(s) 1436
BpiI GAAGAC 1 cut(s) 1017
BpuEI CTTGAG 1 cut(s) 1394
BpuMI CCSGG 1 cut(s) 1089
Bsa29I ATCGAT 1 cut(s) 1444
BsaJI CCNNGG 3 cut(s) 156, 478, 970
BsaXI ACNNNNNCTCC 6 cut(s) 265, 295, 372, 402, 1377, 1407
Bsc4I CCNNNNNNNGG 2 cut(s) 561, 971
Bse118I RCCGGY 1 cut(s) 164
Bse1I ACTGG 2 cut(s) 551, 1057
Bse3DI GCAATG 1 cut(s) 455
BseBI CCWGG 4 cut(s) 158, 591, 966, 1332
BseCI ATCGAT 1 cut(s) 1444
BseDI CCNNGG 3 cut(s) 156, 478, 970
BseGI GGATG 3 cut(s) 225, 238, 790
BseLI CCNNNNNNNGG 2 cut(s) 561, 971
BseMI GCAATG 1 cut(s) 455
BseMII CTCAG 3 cut(s) 122, 453, 1020
BseNI ACTGG 2 cut(s) 551, 1057
BsePI GCGCGC 1 cut(s) 444
BseRI GAGGAG 1 cut(s) 1398
BseXI GCAGC 5 cut(s) 550, 648, 1332, 1375, 1410
Bsh1236I CGCG 1 cut(s) 446
BshFI GGCC 4 cut(s) 164, 969, 1087, 1299
BshNI GGYRCC 1 cut(s) 397
BshVI ATCGAT 1 cut(s) 1444
BsiSI CCGG 3 cut(s) 165, 278, 1088
BslFI GGGAC 2 cut(s) 813, 1294
BslI CCNNNNNNNGG 2 cut(s) 561, 971
BsmFI GGGAC 2 cut(s) 813, 1294
BsmI GAATGC 1 cut(s) 1214
BsnI GGCC 4 cut(s) 164, 969, 1087, 1299
Bsp143I GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
Bsp19I CCATGG 1 cut(s) 970
BspACI CCGC 4 cut(s) 217, 383, 401, 960
BspANI GGCC 4 cut(s) 164, 969, 1087, 1299
BspCNI CTCAG 3 cut(s) 121, 452, 1019
BspDI ATCGAT 1 cut(s) 1444
BspFNI CGCG 1 cut(s) 446
BspLI GGNNCC 8 cut(s) 6, 153, 282, 399, 504, 595, 928, 1057
BspMAI CTGCAG 1 cut(s) 1230
BspPI GGATC 7 cut(s) 469, 497, 510, 921, 934, 1048, 1082
BspT107I GGYRCC 1 cut(s) 397
BsrBI CCGCTC 1 cut(s) 383
BsrDI GCAATG 1 cut(s) 455
BsrFI RCCGGY 1 cut(s) 164
BsrI ACTGG 2 cut(s) 551, 1057
BssAI RCCGGY 1 cut(s) 164
BssECI CCNNGG 3 cut(s) 156, 478, 970
BssHII GCGCGC 1 cut(s) 444
BssMI GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
BssT1I CCWWGG 2 cut(s) 478, 970
Bst2UI CCWGG 4 cut(s) 158, 591, 966, 1332
Bst4CI ACNGT 4 cut(s) 518, 724, 1033, 1285
Bst6I CTCTTC 1 cut(s) 991
BstAPI GCANNNNNTGC 1 cut(s) 689
BstC8I GCNNGC 3 cut(s) 446, 659, 958
BstDEI CTNAG 5 cut(s) 108, 439, 803, 1006, 1290
BstDSI CCRYGG 1 cut(s) 970
BstENI CCTNNNNNAGG 1 cut(s) 559
BstF5I GGATG 3 cut(s) 225, 238, 790
BstFNI CGCG 1 cut(s) 446
BstH2I RGCGCY 1 cut(s) 115
BstHHI GCGC 4 cut(s) 114, 263, 446, 448
BstKTI GATC 6 cut(s) 322, 477, 505, 929, 1043, 1077
BstMBI GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
BstMWI GCNNNNNNNGC 8 cut(s) 111, 214, 450, 547, 689, 953, 966, 987
BstNI CCWGG 4 cut(s) 158, 591, 966, 1332
BstNSI RCATGY 2 cut(s) 764, 1344
BstSCI CCNGG 5 cut(s) 156, 589, 964, 1087, 1330
BstSFI CTRYAG 1 cut(s) 1226
BstUI CGCG 1 cut(s) 446
BstV1I GCAGC 5 cut(s) 550, 648, 1332, 1375, 1410
BstV2I GAAGAC 1 cut(s) 1017
BstX2I RGATCY 3 cut(s) 474, 502, 926
BstYI RGATCY 3 cut(s) 474, 502, 926
Bsu15I ATCGAT 1 cut(s) 1444
BsuRI GGCC 4 cut(s) 164, 969, 1087, 1299
BsuTUI ATCGAT 1 cut(s) 1444
BtgI CCRYGG 1 cut(s) 970
BtrI CACGTC 1 cut(s) 708
BtsCI GGATG 3 cut(s) 225, 238, 790
BtsI GCAGTG 4 cut(s) 203, 1182, 1223, 1330
BtsIMutI CAGTG 5 cut(s) 203, 834, 1182, 1223, 1330
Cac8I GCNNGC 3 cut(s) 446, 659, 958
CfoI GCGC 4 cut(s) 114, 263, 446, 448
Cfr10I RCCGGY 1 cut(s) 164
Cfr13I GGNCC 3 cut(s) 167, 587, 962
ClaI ATCGAT 1 cut(s) 1444
CseI GACGC 1 cut(s) 689
Csp6I GTAC 4 cut(s) 57, 127, 544, 1264
CspCI CAANNNNNGTGG 2 cut(s) 238, 273
CviAII CATG 7 cut(s) 633, 761, 971, 1016, 1060, 1083, 1341
CviQI GTAC 4 cut(s) 57, 127, 544, 1264
DdeI CTNAG 5 cut(s) 108, 439, 803, 1006, 1290
DpnI GATC 6 cut(s) 321, 476, 504, 928, 1042, 1076
DpnII GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
DraIII CACNNNGTG 1 cut(s) 253
DrdI GACNNNNNNGTC 1 cut(s) 1031
DseDI GACNNNNNNGTC 1 cut(s) 1031
EaeI YGGCCR 2 cut(s) 1085, 1297
Eam1104I CTCTTC 1 cut(s) 991
EarI CTCTTC 1 cut(s) 991
Eco130I CCWWGG 2 cut(s) 478, 970
Eco47I GGWCC 3 cut(s) 167, 587, 962
Eco47III AGCGCT 1 cut(s) 113
Eco57I CTGAAG 1 cut(s) 51
EcoNI CCTNNNNNAGG 1 cut(s) 559
EcoO109I RGGNCCY 1 cut(s) 587
EcoRI GAATTC 1 cut(s) 843
EcoRII CCWGG 4 cut(s) 156, 589, 964, 1330
EcoT14I CCWWGG 2 cut(s) 478, 970
ErhI CCWWGG 2 cut(s) 478, 970
FaeI CATG 7 cut(s) 636, 764, 974, 1019, 1063, 1086, 1344
FaqI GGGAC 2 cut(s) 813, 1294
FatI CATG 7 cut(s) 632, 760, 970, 1015, 1059, 1082, 1340
FbaI TGATCA 1 cut(s) 319
Fnu4HI GCNGC 6 cut(s) 401, 539, 662, 1321, 1389, 1399
FokI GGATG 3 cut(s) 225, 232, 797
Fsp4HI GCNGC 6 cut(s) 401, 539, 662, 1321, 1389, 1399
FspBI CTAG 1 cut(s) 825
GlaI GCGC 4 cut(s) 113, 262, 445, 447
GluI GCNGC 6 cut(s) 401, 539, 662, 1321, 1389, 1399
HaeII RGCGCY 1 cut(s) 115
HaeIII GGCC 4 cut(s) 164, 969, 1087, 1299
HapII CCGG 3 cut(s) 165, 278, 1088
HgaI GACGC 1 cut(s) 689
HhaI GCGC 4 cut(s) 114, 263, 446, 448
Hin1II CATG 7 cut(s) 636, 764, 974, 1019, 1063, 1086, 1344
Hin6I GCGC 4 cut(s) 112, 261, 444, 446
HinP1I GCGC 4 cut(s) 112, 261, 444, 446
HindIII AAGCTT 2 cut(s) 363, 792
HinfI GANTC 2 cut(s) 883, 975
HpaII CCGG 3 cut(s) 165, 278, 1088
HphI GGTGA 2 cut(s) 235, 911
Hpy166II GTNNAC 1 cut(s) 940
Hpy188I TCNGA 8 cut(s) 285, 348, 507, 570, 735, 1009, 1024, 1125
Hpy188III TCNNGA 3 cut(s) 170, 703, 1078
Hpy8I GTNNAC 1 cut(s) 940
Hpy99I CGWCG 3 cut(s) 683, 947, 1028
HpyAV CCTTC 4 cut(s) 194, 343, 578, 709
HpyCH4III ACNGT 4 cut(s) 518, 724, 1033, 1285
HpyCH4IV ACGT 5 cut(s) 707, 849, 942, 1026, 1404
HpyF10VI GCNNNNNNNGC 8 cut(s) 111, 214, 450, 547, 689, 953, 966, 987
HpyF3I CTNAG 5 cut(s) 108, 439, 803, 1006, 1290
HpySE526I ACGT 5 cut(s) 707, 849, 942, 1026, 1404
Hsp92II CATG 7 cut(s) 636, 764, 974, 1019, 1063, 1086, 1344
HspAI GCGC 4 cut(s) 112, 261, 444, 446
Ksp22I TGATCA 1 cut(s) 319
Kzo9I GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
LmnI GCTCC 6 cut(s) 10, 286, 305, 380, 411, 1385
Lsp1109I GCAGC 5 cut(s) 550, 648, 1332, 1375, 1410
LweI GCATC 1 cut(s) 1436
MaeI CTAG 1 cut(s) 825
MaeII ACGT 5 cut(s) 707, 849, 942, 1026, 1404
MaeIII GTNAC 5 cut(s) 223, 694, 850, 1027, 1144
MalI GATC 6 cut(s) 321, 476, 504, 928, 1042, 1076
MbiI CCGCTC 1 cut(s) 383
MboI GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
MboII GAAGA 4 cut(s) 383, 1008, 1022, 1360
MfeI CAATTG 1 cut(s) 667
MflI RGATCY 3 cut(s) 474, 502, 926
MluCI AATT 8 cut(s) 17, 137, 428, 667, 736, 775, 843, 1315
MlyI GAGTC 1 cut(s) 892
MmeI TCCRAC 2 cut(s) 399, 1047
MseI TTAA 4 cut(s) 423, 789, 1245, 1314
MslI CAYNNNNRTG 2 cut(s) 327, 878
MspI CCGG 3 cut(s) 165, 278, 1088
MspR9I CCNGG 5 cut(s) 158, 591, 966, 1089, 1332
MunI CAATTG 1 cut(s) 667
Mva1269I GAATGC 1 cut(s) 1214
MvaI CCWGG 4 cut(s) 158, 591, 966, 1332
MvnI CGCG 1 cut(s) 446
MwoI GCNNNNNNNGC 8 cut(s) 111, 214, 450, 547, 689, 953, 966, 987
NciI CCSGG 1 cut(s) 1089
NcoI CCATGG 1 cut(s) 970
NdeII GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
NlaIII CATG 7 cut(s) 636, 764, 974, 1019, 1063, 1086, 1344
NlaIV GGNNCC 8 cut(s) 6, 153, 282, 399, 504, 595, 928, 1057
NmuCI GTSAC 2 cut(s) 223, 1144
NspI RCATGY 2 cut(s) 764, 1344
PauI GCGCGC 1 cut(s) 444
PctI GAATGC 1 cut(s) 1214
PfeI GAWTC 1 cut(s) 975
PflMI CCANNNNNTGG 1 cut(s) 971
PfoI TCCNGGA 1 cut(s) 589
PkrI GCNGC 6 cut(s) 402, 540, 663, 1322, 1390, 1400
PleI GAGTC 1 cut(s) 891
PpsI GAGTC 1 cut(s) 891
PpuMI RGGWCCY 1 cut(s) 587
Psp5II RGGWCCY 1 cut(s) 587
Psp6I CCWGG 4 cut(s) 156, 589, 964, 1330
PspGI CCWGG 4 cut(s) 156, 589, 964, 1330
PspN4I GGNNCC 8 cut(s) 6, 153, 282, 399, 504, 595, 928, 1057
PspPI GGNCC 3 cut(s) 167, 587, 962
PspPPI RGGWCCY 1 cut(s) 587
PstI CTGCAG 1 cut(s) 1230
PsuI RGATCY 3 cut(s) 474, 502, 926
PteI GCGCGC 1 cut(s) 444
RsaI GTAC 4 cut(s) 58, 128, 545, 1265
RsaNI GTAC 4 cut(s) 57, 127, 544, 1264
RseI CAYNNNNRTG 2 cut(s) 327, 878
SaqAI TTAA 4 cut(s) 423, 789, 1245, 1314
SatI GCNGC 6 cut(s) 401, 539, 662, 1321, 1389, 1399
Sau3AI GATC 6 cut(s) 319, 474, 502, 926, 1040, 1074
Sau96I GGNCC 3 cut(s) 167, 587, 962
ScaI AGTACT 2 cut(s) 58, 545
SchI GAGTC 1 cut(s) 892
ScrFI CCNGG 5 cut(s) 158, 591, 966, 1089, 1332
SfaNI GCATC 1 cut(s) 1436
SfcI CTRYAG 1 cut(s) 1226
SinI GGWCC 3 cut(s) 167, 587, 962
SmiMI CAYNNNNRTG 2 cut(s) 327, 878
SmlI CTYRAG 1 cut(s) 1373
SmoI CTYRAG 1 cut(s) 1373
Sse9I AATT 8 cut(s) 17, 137, 428, 667, 736, 775, 843, 1315
SsiI CCGC 4 cut(s) 217, 383, 401, 960
SspMI CTAG 1 cut(s) 825
StyD4I CCNGG 5 cut(s) 156, 589, 964, 1087, 1330
StyI CCWWGG 2 cut(s) 478, 970
TaaI ACNGT 4 cut(s) 518, 724, 1033, 1285
TaiI ACGT 5 cut(s) 710, 852, 945, 1029, 1407
TaqI TCGA 3 cut(s) 870, 1164, 1444
TasI AATT 8 cut(s) 17, 137, 428, 667, 736, 775, 843, 1315
TatI WGTACW 3 cut(s) 56, 126, 543
TauI GCSGC 1 cut(s) 403
TfiI GAWTC 1 cut(s) 975
Tru1I TTAA 4 cut(s) 423, 789, 1245, 1314
Tru9I TTAA 4 cut(s) 423, 789, 1245, 1314
TscAI CASTG 5 cut(s) 210, 841, 1189, 1230, 1330
TseFI GTSAC 2 cut(s) 223, 1144
TseI GCWGC 5 cut(s) 538, 661, 1320, 1388, 1398
Tsp45I GTSAC 2 cut(s) 223, 1144
TspDTI ATGAA 1 cut(s) 227
TspGWI ACGGA 4 cut(s) 393, 624, 797, 1218
TspRI CASTG 5 cut(s) 210, 841, 1189, 1230, 1330
Van91I CCANNNNNTGG 1 cut(s) 971
VpaK11BI GGWCC 3 cut(s) 167, 587, 962
XagI CCTNNNNNAGG 1 cut(s) 559
XapI RAATTY 2 cut(s) 736, 843
XceI RCATGY 2 cut(s) 764, 1344
XcmI CCANNNNNNNNNTGG 2 cut(s) 382, 1274
XspI CTAG 1 cut(s) 825
ZrmI AGTACT 2 cut(s) 58, 545
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.