FvH4_6g36530

Polygalacturonase QRT3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0002395
Physical Location & Seq
Reverse (-)
28759298 .. 28760840
1543 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g36530.t1

Sequence Viewer

Length: 1437 bp
ATGATTTCTCTGCTTCCTACGTTGGTGAAGCTGTTAATGGGGTTTCTGTGTGTTGTATTCTATGTCAATCATGGAGACAGCTCATACCCAAGTCCAAGTACTCATGACCCAATAAGGCGCATGGCTTTGATGAAGGCTTCATTACAGACCCTCCGCACCGTTGCCGCCTCAACACCTCAAGGATCATCATCATCATCATCACGTGTTCATCATGCGACTGAGTACGGTGCTGACCCGACCGGAATATCCGACAGCACCGAAGCACTCCAGCAAGCTATTTCTGATGCCTTCATATCTCGTATTGAAGGGACACACTTGATGGAGGGTATTGCCGATCTTGGAGGCACTCAGCTTCATCTTGATGGAGGGACATACAAGATCAGCCGTCCGTTGCGTTTACCAGATACCACCGGCGCCGGAAACTTTATGCTACATGGTGGTTCACTTCTTGCTTCCCACGATTTTCCGACCGATCGCCATATGATCGAGTTGTGGTCAAAGTCAAACTCTTTCATGTATGAGGACATTACGCTCAAGGACCTTATGATAAACTCAAATTTCAGAGGTGGTGGAATTGCGGTGATTAATTCACTAAGGACTACCATAGACAATTGTTACATTTCACGTTTCACTAGCAATGGCATACTAATCCAGGGTGGCCATGAAACATTTGTTACAAACTCCTTCATCGGCCAACACATCAACGTCGGGGGCGACCATCGTGAAAAGAACTTTTCCGGCATTGGAATTAACATAAACGGCAACGACAATTCCGTTTCCGATGTGGTCATTTTCTCAGCAGCGGTCGGCATAATGGTACAAGGACAAGCCAACATTTTCACCGGGGTACATTGTTATAACAAAGCCACTGGATGGGGAGGGATTGGAATTCATATCCGGTCACCGGGGCTAACCCAAACCCGGATTCTGAATTCTTATTTTGATTTCACGGGGATTGTGGCCGAGGACCCTGTGCAACTCCATATATCCGGGTCATTTTTCTTAGGCAATGCCTTTGTTATGATCAAATCCTTGAAGGGTGTGATGTCGGGGCTAACCATCGTCGACAATATGTTCTCAGGTGACTATACAGGTGTTCAAATAGTCCAATTTGATCAATCAAATGGACATTATTTCACTACTATTGATCAAGTTGTGGTAGATCGAAACGTAGTACGTGGTATGATCCTTAAAACGACGGTGGCTAAAGGGTCAAAGTGGAGTAACGGGACAAAGTGGACAGTCGATTTCTCAAAGGTCCTCCTCTTCCCTGACCTGATACAAAATGTGCAATACACATTGCAGGCAGCAGGTTCATCTTTTCCTAACCATATTCTACGGAATGTGAGTCACAACTGTGTCACAGTAGAATCAGACGTGCCCGTATCAGCTACACTGCATGTATTAGTGGATCAAAGCATGCTTGGCTATGTATAA
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 Pectate_lyase_3

Protein Analysis

479

Amino Acids

51.82

Weight (kDa)

6.33

Isoelectric Point (pI)

33.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 72 - 291 9.6e-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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 858
Acc36I ACCTGC 1 cut(s) 1301
AccB1I GGYRCC 1 cut(s) 413
AccB7I CCANNNNNTGG 1 cut(s) 873
AccI GTMKAC 1 cut(s) 1065
AciI CCGC 4 cut(s) 154, 165, 578, 803
AclWI GGATC 3 cut(s) 190, 1180, 1419
AcoI YGGCCR 3 cut(s) 658, 691, 960
AcsI RAATTY 3 cut(s) 556, 888, 931
AcvI CACGTG 1 cut(s) 203
AcyI GRCGYC 1 cut(s) 414
AfaI GTAC 5 cut(s) 100, 224, 819, 849, 1176
AfiI CCNNNNNNNGG 3 cut(s) 873, 904, 921
AflIII ACRYGT 1 cut(s) 202
AgsI TTSAA 3 cut(s) 305, 1036, 1100
AjiI CACGTC 1 cut(s) 1378
AjnI CCWGG 1 cut(s) 651
AjuI GAANNNNNNNTTGG 2 cut(s) 909, 941
AleI CACNNNNGTG 1 cut(s) 1356
AluBI AGCT 5 cut(s) 31, 81, 275, 352, 1391
AluI AGCT 5 cut(s) 31, 81, 275, 352, 1391
Alw26I GTCTC 1 cut(s) 69
AlwI GGATC 3 cut(s) 190, 1180, 1419
AoxI GGCC 3 cut(s) 658, 691, 960
ApeKI GCWGC 2 cut(s) 800, 1307
ApoI RAATTY 3 cut(s) 556, 888, 931
AseI ATTAAT 1 cut(s) 585
AspLEI GCGC 2 cut(s) 120, 416
AspS9I GGNCC 3 cut(s) 538, 967, 1258
AsuC2I CCSGG 4 cut(s) 844, 906, 922, 991
AsuHPI GGTGA 5 cut(s) 37, 592, 832, 894, 1094
AvaII GGWCC 3 cut(s) 538, 967, 1258
BaeGI GKGCMC 1 cut(s) 1383
BalI TGGCCA 1 cut(s) 660
BanI GGYRCC 1 cut(s) 413
BbrPI CACGTG 1 cut(s) 203
BbvI GCAGC 2 cut(s) 812, 1319
BccI CCATC 5 cut(s) 313, 356, 726, 867, 1067
BceAI ACGGC 2 cut(s) 369, 775
BciT130I CCWGG 1 cut(s) 653
BclI TGATCA 3 cut(s) 1023, 1114, 1147
BcnI CCSGG 4 cut(s) 844, 906, 922, 991
BcoDI GTCTC 1 cut(s) 69
BfaI CTAG 1 cut(s) 633
BfoI RGCGCY 1 cut(s) 417
BfuAI ACCTGC 1 cut(s) 1301
BisI GCNGC 3 cut(s) 165, 801, 1308
BlsI GCNGC 3 cut(s) 166, 802, 1309
BmcAI AGTACT 1 cut(s) 100
Bme1390I CCNGG 5 cut(s) 653, 844, 906, 922, 991
Bme18I GGWCC 3 cut(s) 538, 967, 1258
BmgBI CACGTC 1 cut(s) 1378
BmgT120I GGNCC 3 cut(s) 538, 967, 1258
BmiI GGNNCC 2 cut(s) 415, 969
BmrFI CCNGG 5 cut(s) 653, 844, 906, 922, 991
BmsI GCATC 1 cut(s) 274
BpmI CTGGAG 1 cut(s) 251
BpuEI CTTGAG 2 cut(s) 162, 518
BpuMI CCSGG 4 cut(s) 844, 906, 922, 991
BsaAI YACGTR 2 cut(s) 203, 1178
BsaBI GATNNNNATC 1 cut(s) 187
BsaHI GRCGYC 1 cut(s) 414
BsaJI CCNNGG 4 cut(s) 652, 843, 905, 963
BsaWI WCCGGW 2 cut(s) 239, 897
BsaXI ACNNNNNCTCC 2 cut(s) 135, 165
Bsc4I CCNNNNNNNGG 3 cut(s) 873, 904, 921
Bse118I RCCGGY 1 cut(s) 410
Bse1I ACTGG 1 cut(s) 874
Bse3DI GCAATG 3 cut(s) 643, 1015, 1298
Bse8I GATNNNNATC 1 cut(s) 187
BseBI CCWGG 1 cut(s) 653
BseDI CCNNGG 4 cut(s) 652, 843, 905, 963
BseGI GGATG 1 cut(s) 878
BseJI GATNNNNATC 1 cut(s) 187
BseLI CCNNNNNNNGG 3 cut(s) 873, 904, 921
BseMI GCAATG 3 cut(s) 643, 1015, 1298
BseMII CTCAG 4 cut(s) 210, 362, 810, 1092
BseNI ACTGG 1 cut(s) 874
BseRI GAGGAG 1 cut(s) 1253
BseSI GKGCMC 1 cut(s) 1383
BseXI GCAGC 2 cut(s) 812, 1319
Bsh1285I CGRYCG 4 cut(s) 240, 471, 475, 807
BshFI GGCC 3 cut(s) 660, 693, 962
BshNI GGYRCC 1 cut(s) 413
BsiEI CGRYCG 4 cut(s) 240, 471, 475, 807
BsiSI CCGG 9 cut(s) 240, 411, 417, 738, 843, 898, 905, 922, 990
BslFI GGGAC 3 cut(s) 322, 382, 1243
BslI CCNNNNNNNGG 3 cut(s) 873, 904, 921
BsmAI GTCTC 1 cut(s) 69
BsmFI GGGAC 3 cut(s) 322, 382, 1243
BsnI GGCC 3 cut(s) 660, 693, 962
Bsp1286I GDGCHC 1 cut(s) 1383
BspACI CCGC 4 cut(s) 154, 165, 578, 803
BspANI GGCC 3 cut(s) 660, 693, 962
BspCNI CTCAG 4 cut(s) 211, 361, 809, 1091
BspHI TCATGA 1 cut(s) 103
BspLI GGNNCC 2 cut(s) 415, 969
BspMI ACCTGC 1 cut(s) 1301
BspPI GGATC 3 cut(s) 190, 1180, 1419
BspT107I GGYRCC 1 cut(s) 413
BsrDI GCAATG 3 cut(s) 643, 1015, 1298
BsrFI RCCGGY 1 cut(s) 410
BsrI ACTGG 1 cut(s) 874
BssAI RCCGGY 1 cut(s) 410
BssECI CCNNGG 4 cut(s) 652, 843, 905, 963
BssNI GRCGYC 1 cut(s) 414
Bst2UI CCWGG 1 cut(s) 653
Bst4CI ACNGT 6 cut(s) 160, 227, 1201, 1243, 1358, 1366
Bst6I CTCTTC 1 cut(s) 1271
BstACI GRCGYC 1 cut(s) 414
BstBAI YACGTR 2 cut(s) 203, 1178
BstC8I GCNNGC 3 cut(s) 273, 1305, 1421
BstDEI CTNAG 6 cut(s) 219, 348, 593, 796, 1003, 1078
BstEII GGTNACC 1 cut(s) 900
BstF5I GGATG 1 cut(s) 878
BstH2I RGCGCY 1 cut(s) 417
BstHHI GCGC 2 cut(s) 120, 416
BstMAI GTCTC 1 cut(s) 69
BstMCI CGRYCG 4 cut(s) 240, 471, 475, 807
BstMWI GCNNNNNNNGC 1 cut(s) 1425
BstNI CCWGG 1 cut(s) 653
BstNSI RCATGY 2 cut(s) 1403, 1423
BstPI GGTNACC 1 cut(s) 900
BstSCI CCNGG 5 cut(s) 651, 842, 904, 920, 989
BstSLI GKGCMC 1 cut(s) 1383
BstV1I GCAGC 2 cut(s) 812, 1319
BsuRI GGCC 3 cut(s) 660, 693, 962
BtrI CACGTC 1 cut(s) 1378
BtsCI GGATG 1 cut(s) 878
BtsI GCAGTG 1 cut(s) 1394
BtsIMutI CAGTG 2 cut(s) 867, 1394
BveI ACCTGC 1 cut(s) 1301
Cac8I GCNNGC 3 cut(s) 273, 1305, 1421
CciI TCATGA 1 cut(s) 103
CfoI GCGC 2 cut(s) 120, 416
Cfr10I RCCGGY 1 cut(s) 410
Cfr13I GGNCC 3 cut(s) 538, 967, 1258
Csp6I GTAC 5 cut(s) 99, 223, 818, 848, 1175
CviAII CATG 9 cut(s) 71, 104, 121, 212, 434, 514, 662, 1400, 1420
CviQI GTAC 5 cut(s) 99, 223, 818, 848, 1175
DdeI CTNAG 6 cut(s) 219, 348, 593, 796, 1003, 1078
DinI GGCGCC 1 cut(s) 415
EaeI YGGCCR 3 cut(s) 658, 691, 960
Eam1104I CTCTTC 1 cut(s) 1271
EarI CTCTTC 1 cut(s) 1271
Eco47I GGWCC 3 cut(s) 538, 967, 1258
Eco72I CACGTG 1 cut(s) 203
Eco91I GGTNACC 1 cut(s) 900
EcoO109I RGGNCCY 3 cut(s) 538, 967, 1258
EcoO65I GGTNACC 1 cut(s) 900
EcoRI GAATTC 2 cut(s) 888, 931
EcoRII CCWGG 1 cut(s) 651
EgeI GGCGCC 1 cut(s) 415
EheI GGCGCC 1 cut(s) 415
FaeI CATG 9 cut(s) 74, 107, 124, 215, 437, 517, 665, 1403, 1423
FaqI GGGAC 3 cut(s) 322, 382, 1243
FatI CATG 9 cut(s) 70, 103, 120, 211, 433, 513, 661, 1399, 1419
FauNDI CATATG 1 cut(s) 480
FbaI TGATCA 3 cut(s) 1023, 1114, 1147
FblI GTMKAC 1 cut(s) 1065
Fnu4HI GCNGC 3 cut(s) 165, 801, 1308
FokI GGATG 1 cut(s) 885
Fsp4HI GCNGC 3 cut(s) 165, 801, 1308
FspBI CTAG 1 cut(s) 633
GlaI GCGC 2 cut(s) 119, 415
GluI GCNGC 3 cut(s) 165, 801, 1308
GsuI CTGGAG 1 cut(s) 251
HaeII RGCGCY 1 cut(s) 417
HaeIII GGCC 3 cut(s) 660, 693, 962
HapII CCGG 9 cut(s) 240, 411, 417, 738, 843, 898, 905, 922, 990
HhaI GCGC 2 cut(s) 120, 416
Hin1I GRCGYC 1 cut(s) 414
Hin1II CATG 9 cut(s) 74, 107, 124, 215, 437, 517, 665, 1403, 1423
Hin6I GCGC 2 cut(s) 118, 414
HinP1I GCGC 2 cut(s) 118, 414
HincII GTYRAC 1 cut(s) 1066
HindII GTYRAC 1 cut(s) 1066
HinfI GANTC 3 cut(s) 925, 1348, 1370
HpaII CCGG 9 cut(s) 240, 411, 417, 738, 843, 898, 905, 922, 990
HphI GGTGA 5 cut(s) 37, 592, 832, 894, 1094
Hpy166II GTNNAC 4 cut(s) 398, 443, 1066, 1239
Hpy188I TCNGA 7 cut(s) 250, 283, 468, 563, 781, 930, 1375
Hpy188III TCNNGA 3 cut(s) 104, 359, 722
Hpy8I GTNNAC 4 cut(s) 398, 443, 1066, 1239
Hpy99I CGWCG 3 cut(s) 710, 1067, 1201
HpyAV CCTTC 5 cut(s) 127, 298, 299, 694, 1030
HpyCH4III ACNGT 6 cut(s) 160, 227, 1201, 1243, 1358, 1366
HpyCH4IV ACGT 7 cut(s) 20, 202, 625, 705, 1170, 1177, 1377
HpyCH4V TGCA 4 cut(s) 976, 1291, 1303, 1399
HpyF10VI GCNNNNNNNGC 1 cut(s) 1425
HpyF3I CTNAG 6 cut(s) 219, 348, 593, 796, 1003, 1078
HpySE526I ACGT 7 cut(s) 20, 202, 625, 705, 1170, 1177, 1377
Hsp92I GRCGYC 1 cut(s) 414
Hsp92II CATG 9 cut(s) 74, 107, 124, 215, 437, 517, 665, 1403, 1423
HspAI GCGC 2 cut(s) 118, 414
KasI GGCGCC 1 cut(s) 413
Ksp22I TGATCA 3 cut(s) 1023, 1114, 1147
Lsp1109I GCAGC 2 cut(s) 812, 1319
LweI GCATC 1 cut(s) 274
MaeI CTAG 1 cut(s) 633
MaeII ACGT 7 cut(s) 20, 202, 625, 705, 1170, 1177, 1377
MaeIII GTNAC 7 cut(s) 614, 673, 900, 1082, 1223, 1349, 1360
MboII GAAGA 1 cut(s) 1258
MfeI CAATTG 1 cut(s) 610
MhlI GDGCHC 1 cut(s) 1383
MlsI TGGCCA 1 cut(s) 660
MluCI AATT 9 cut(s) 556, 573, 586, 610, 747, 769, 888, 931, 1109
MluNI TGGCCA 1 cut(s) 660
Mly113I GGCGCC 1 cut(s) 414
MlyI GAGTC 1 cut(s) 1357
MmeI TCCRAC 2 cut(s) 273, 491
Mox20I TGGCCA 1 cut(s) 660
MscI TGGCCA 1 cut(s) 660
MseI TTAA 4 cut(s) 35, 585, 750, 1191
MslI CAYNNNNRTG 2 cut(s) 360, 1356
Msp20I TGGCCA 1 cut(s) 660
MspA1I CMGCKG 1 cut(s) 803
MspI CCGG 9 cut(s) 240, 411, 417, 738, 843, 898, 905, 922, 990
MspR9I CCNGG 5 cut(s) 653, 844, 906, 922, 991
MunI CAATTG 1 cut(s) 610
MvaI CCWGG 1 cut(s) 653
MwoI GCNNNNNNNGC 1 cut(s) 1425
NarI GGCGCC 1 cut(s) 414
NciI CCSGG 4 cut(s) 844, 906, 922, 991
NdeI CATATG 1 cut(s) 480
NlaIII CATG 9 cut(s) 74, 107, 124, 215, 437, 517, 665, 1403, 1423
NlaIV GGNNCC 2 cut(s) 415, 969
NmeAIII GCCGAG 1 cut(s) 988
NmuCI GTSAC 4 cut(s) 900, 1082, 1349, 1360
NspI RCATGY 2 cut(s) 1403, 1423
OliI CACNNNNGTG 1 cut(s) 1356
PaeI GCATGC 1 cut(s) 1423
PagI TCATGA 1 cut(s) 103
PcsI WCGNNNNNNNCGW 2 cut(s) 711, 771
PfeI GAWTC 2 cut(s) 925, 1370
PflMI CCANNNNNTGG 1 cut(s) 873
PkrI GCNGC 3 cut(s) 166, 802, 1309
Ple19I CGATCG 1 cut(s) 475
PleI GAGTC 1 cut(s) 1356
PluTI GGCGCC 1 cut(s) 417
PmaCI CACGTG 1 cut(s) 203
PmlI CACGTG 1 cut(s) 203
PpsI GAGTC 1 cut(s) 1356
Ppu21I YACGTR 2 cut(s) 203, 1178
PpuMI RGGWCCY 3 cut(s) 538, 967, 1258
PshBI ATTAAT 1 cut(s) 585
PsiI TTATAA 1 cut(s) 858
Psp5II RGGWCCY 3 cut(s) 538, 967, 1258
Psp6I CCWGG 1 cut(s) 651
PspCI CACGTG 1 cut(s) 203
PspEI GGTNACC 1 cut(s) 900
PspGI CCWGG 1 cut(s) 651
PspN4I GGNNCC 2 cut(s) 415, 969
PspPI GGNCC 3 cut(s) 538, 967, 1258
PspPPI RGGWCCY 3 cut(s) 538, 967, 1258
PvuI CGATCG 1 cut(s) 475
RsaI GTAC 5 cut(s) 100, 224, 819, 849, 1176
RsaNI GTAC 5 cut(s) 99, 223, 818, 848, 1175
RseI CAYNNNNRTG 2 cut(s) 360, 1356
SalI GTCGAC 1 cut(s) 1064
SaqAI TTAA 4 cut(s) 35, 585, 750, 1191
SatI GCNGC 3 cut(s) 165, 801, 1308
Sau96I GGNCC 3 cut(s) 538, 967, 1258
ScaI AGTACT 1 cut(s) 100
SchI GAGTC 1 cut(s) 1357
ScrFI CCNGG 5 cut(s) 653, 844, 906, 922, 991
SduI GDGCHC 1 cut(s) 1383
SfaNI GCATC 1 cut(s) 274
SfoI GGCGCC 1 cut(s) 415
SgrAI CRCCGGYG 1 cut(s) 410
SinI GGWCC 3 cut(s) 538, 967, 1258
SmiMI CAYNNNNRTG 2 cut(s) 360, 1356
SmlI CTYRAG 2 cut(s) 177, 533
SmoI CTYRAG 2 cut(s) 177, 533
SphI GCATGC 1 cut(s) 1423
Sse9I AATT 9 cut(s) 556, 573, 586, 610, 747, 769, 888, 931, 1109
SsiI CCGC 4 cut(s) 154, 165, 578, 803
SspDI GGCGCC 1 cut(s) 413
SspMI CTAG 1 cut(s) 633
StyD4I CCNGG 5 cut(s) 651, 842, 904, 920, 989
TaaI ACNGT 6 cut(s) 160, 227, 1201, 1243, 1358, 1366
TaiI ACGT 7 cut(s) 23, 205, 628, 708, 1173, 1180, 1380
TaqI TCGA 4 cut(s) 486, 1065, 1165, 1245
TaqII GACCGA 1 cut(s) 485
TasI AATT 9 cut(s) 556, 573, 586, 610, 747, 769, 888, 931, 1109
TatI WGTACW 1 cut(s) 98
TauI GCSGC 1 cut(s) 167
TfiI GAWTC 2 cut(s) 925, 1370
Tru1I TTAA 4 cut(s) 35, 585, 750, 1191
Tru9I TTAA 4 cut(s) 35, 585, 750, 1191
TscAI CASTG 2 cut(s) 874, 1401
TseFI GTSAC 4 cut(s) 900, 1082, 1349, 1360
TseI GCWGC 2 cut(s) 800, 1307
Tsp45I GTSAC 4 cut(s) 900, 1082, 1349, 1360
TspGWI ACGGA 3 cut(s) 378, 763, 1354
TspRI CASTG 2 cut(s) 874, 1401
Van91I CCANNNNNTGG 1 cut(s) 873
VpaK11BI GGWCC 3 cut(s) 538, 967, 1258
VspI ATTAAT 1 cut(s) 585
XapI RAATTY 3 cut(s) 556, 888, 931
XceI RCATGY 2 cut(s) 1403, 1423
XmiI GTMKAC 1 cut(s) 1065
XspI CTAG 1 cut(s) 633
ZrmI AGTACT 1 cut(s) 100
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.