FvH4_4g07190

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000579
Physical Location & Seq
Forward (+)
6603111 .. 6605681
2571 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g07190.t1

Sequence Viewer

Length: 1239 bp
ATGGTACGCATGGGCTTCGTTCACTACTACACTGTTGTGTTTCTATGGATTATCGCTTCATTTAGTTTTGGCAATGGGTATGGTCAAAATGGTACTCTTAGTGTGCTTGATTTTGGTGCTCATGGCGATGGCGTAGCAGATGATACTCAAGCTTTCATCAATGCATGGAATAAGCTTTGCTCTACCAGCCAACTCCTAAAAATCCCTGCAGGGAAGACCTTTGTAGTCAAACCTTTTGAACTTTTAGGTCCTTGCAAATTCAGTAGTGTCATACTTCAGATTGATGGGAATATTGTTGCTCCATCCACTCGTAAAGGATGGGGCGATGTGTGCAAATTGGGATGTTGGCTATGCTTCCGAAACGTGAAGGGTCTCATCATCAAGGGGGGAGGACTTATAAATGGCAAGGGTGCAATTTGGTGGAGCCAAAAAACCCAATTCATAAATGCTTTACACTTCATCAAATGCGATCAACTTCAATTATCCGGATTTACATCTCGTGACAGCCCTAAAATTCATATATTTATATACAACTGTCATGGTGTACGTATATCAAACATTCATGTGAATGCACCAGAAAACAGCCCGAATACTGATGGCATCGACATCTCTTTATCAAGCCAAGTAACCATACAAGATTCGGTCATCAGAACAGGTGATGACTGTGTTGCAATTAAGGGAGGCTCCTCTTTTGTAAACGTAACTCATGTGACTTGCGGACCAGGTCATGGTTTCAGCCTGGGCAGTTTAGGACAAGATCCAACTACTGAGGACAAAGTCGAGCATATATACTTTCAGAATTGTAATTGTGAAAGAACTATGAACTGCGCAAGAATTAAAACATATATGGGAGGAGTCGGGTATGCCAGGGAAATTTTCTTCAAAGGAATGACCCTTGTACAATCAAGAAATCCTATTCTGATTGACCAACACTATGTAGCTGTTGCAGCTAATTTCCCAGCTAAGAATGGAGGGGTGAAAGTTAGTGAGGTAGAATTCATTGGCTTCACCGGAACTTCATCGAGTGAGGAAGCAATAACATTGGATTGCTCCGACTTGGGTTGCTCCAATATTTTGATGGATCATGTCATCCTAACTTCTGCAACCGGAAAGCCACTTAGGTCTGTATGCCGCAAGGCCACTGGAAGAGCTACGTTTACTAAGCCTCTTGTTCCTTGTTTGTCGGGGAAGCAATCCTTGTCACCGACCATTGCACCGATCTCTGTCGACATGCATTAG

Protein Analysis

413

Amino Acids

44.58

Weight (kDa)

8.53

Isoelectric Point (pI)

37.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 34 - 238 6e-10 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 64 - 377 3.5e-70 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: OG0000579)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G32370 AT4G32375 AT4G32380 AT4G32380
fragaria_vesca FvH4_2g29242 FvH4_2g29270 FvH4_4g07180 FvH4_4g07190 FvH4_6g32320 FvH4_6g35100
malus_domestica MD03G1260700.v1.1 MD03G1260800.v1.1 MD09G1203400.v1.1 MD15G1065500.v1.1 MD15G1124200.v1.1 MD15G1124300.v1.1
prunus_persica Prupe.1G247300_v2.0.a1 Prupe.1G247300_v2.0.a1 Prupe.1G479600_v2.0.a1 Prupe.1G479700_v2.0.a1 Prupe.3G043600_v2.0.a1 Prupe.4G130600_v2.0.a1 Prupe.7G064200_v2.0.a1
pyrus_communis pycom03g20830 pycom15g06200
rosa_chinensis RchiOBHm_Chr2g0140421 RchiOBHm_Chr2g0146281 RchiOBHm_Chr3g0458021 RchiOBHm_Chr3g0481551 RchiOBHm_Chr4g0399361 RchiOBHm_Chr4g0399381 RchiOBHm_Chr4g0399391 RchiOBHm_Chr4g0399401 RchiOBHm_Chr4g0399411 RchiOBHm_Chr4g0399471
rosa_laevigata RLG00000009265 RLG00000009272 RLG00000011536 RLG00000011537 RLG00000019863 RLG00000020193 RLG00000023386
rosa_multiflora Rmu_sc0000384.1_g000011 Rmu_sc0002800.1_g000011 Rmu_sc0002800.1_g000012 Rmu_sc0017309.1_g000001 Rmu_sc0022824.1_g000003
rosa_roxburghii Rroxscaffold_153G00436780 Rroxscaffold_2G00100180 Rroxscaffold_5G00344320 Rroxscaffold_5G00344370 Rroxscaffold_6G00400330 Rroxscaffold_6G00421350 Rroxscaffold_7G00169940 Rroxscaffold_7G00169950
rosa_rugosa Rorug02G0362600 Rorug02G0394100 Rorug03G0024300 Rorug03G0192500 Rorug04G0016900 Rorug04G0017100 Rorug06G0278700
rosa_samantha Rh2CG399600 Rh2CG437200 Rh3AG084800 Rh3BG087600 Rh3CG088100 Rh3DG088500 Rh3DG270800 Rh4BG091900 Rh4BG092300 Rh5AG287300 Rh6DG389600
rosa_wichuraiana Rw0G012400 Rw2G033880 Rw2G036760 Rw3G007220 Rw3G021790 Rw4G007750 Rw4G007770 Rw4G007810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 398
Acc16I TGCGCA 1 cut(s) 829
AccB7I CCANNNNNTGG 1 cut(s) 728
AccI GTMKAC 1 cut(s) 1227
AccIII TCCGGA 1 cut(s) 485
AciI CCGC 2 cut(s) 717, 1132
AclWI GGATC 2 cut(s) 752, 1089
AcsI RAATTY 4 cut(s) 257, 513, 873, 995
AcuI CTGAAG 1 cut(s) 260
AfaI GTAC 4 cut(s) 6, 94, 546, 900
AfiI CCNNNNNNNGG 1 cut(s) 728
AgsI TTSAA 3 cut(s) 239, 479, 883
AjnI CCWGG 3 cut(s) 721, 738, 866
AleI CACNNNNGTG 1 cut(s) 35
AluBI AGCT 6 cut(s) 152, 175, 941, 950, 962, 1151
AluI AGCT 6 cut(s) 152, 175, 941, 950, 962, 1151
Alw21I GWGCWC 1 cut(s) 121
Alw26I GTCTC 1 cut(s) 377
AlwI GGATC 2 cut(s) 752, 1089
Aor13HI TCCGGA 1 cut(s) 485
AoxI GGCC 1 cut(s) 1137
ApeKI GCWGC 1 cut(s) 947
ApoI RAATTY 4 cut(s) 257, 513, 873, 995
AspLEI GCGC 1 cut(s) 830
AspS9I GGNCC 2 cut(s) 248, 719
AsuHPI GGTGA 4 cut(s) 668, 988, 1000, 1194
AvaII GGWCC 2 cut(s) 248, 719
BauI CACGAG 1 cut(s) 498
BbsI GAAGAC 1 cut(s) 221
Bbv12I GWGCWC 1 cut(s) 121
BbvI GCAGC 1 cut(s) 959
BccI CCATC 6 cut(s) 122, 278, 310, 312, 590, 1072
BcgI CGANNNNNNTGC 1 cut(s) 32
BciT130I CCWGG 3 cut(s) 723, 740, 868
BcoDI GTCTC 1 cut(s) 377
BfmI CTRYAG 1 cut(s) 207
BisI GCNGC 2 cut(s) 948, 1132
BlsI GCNGC 2 cut(s) 949, 1133
Bme1390I CCNGG 3 cut(s) 723, 740, 868
Bme18I GGWCC 2 cut(s) 248, 719
BmgT120I GGNCC 2 cut(s) 248, 719
BmiI GGNNCC 2 cut(s) 425, 685
BmrFI CCNGG 3 cut(s) 723, 740, 868
BmsI GCATC 1 cut(s) 609
BpiI GAAGAC 1 cut(s) 221
BpuEI CTTGAG 1 cut(s) 132
BsaAI YACGTR 1 cut(s) 548
BsaBI GATNNNNATC 1 cut(s) 493
BsaI GGTCTC 1 cut(s) 377
BsaJI CCNNGG 2 cut(s) 739, 867
BsaWI WCCGGW 3 cut(s) 485, 1010, 1106
Bsc4I CCNNNNNNNGG 1 cut(s) 728
Bse1I ACTGG 1 cut(s) 1147
Bse3DI GCAATG 2 cut(s) 79, 1209
Bse8I GATNNNNATC 1 cut(s) 493
BseAI TCCGGA 1 cut(s) 485
BseBI CCWGG 3 cut(s) 723, 740, 868
BseDI CCNNGG 2 cut(s) 739, 867
BseGI GGATG 4 cut(s) 302, 323, 347, 1089
BseJI GATNNNNATC 1 cut(s) 493
BseLI CCNNNNNNNGG 1 cut(s) 728
BseMI GCAATG 2 cut(s) 79, 1209
BseMII CTCAG 1 cut(s) 759
BseNI ACTGG 1 cut(s) 1147
BseRI GAGGAG 2 cut(s) 676, 867
BseXI GCAGC 1 cut(s) 959
BseYI CCCAGC 1 cut(s) 958
BshFI GGCC 1 cut(s) 1139
BsiHKAI GWGCWC 1 cut(s) 121
BsiSI CCGG 3 cut(s) 486, 1011, 1107
BslI CCNNNNNNNGG 1 cut(s) 728
BsmAI GTCTC 1 cut(s) 377
BsmI GAATGC 1 cut(s) 574
BsnI GGCC 1 cut(s) 1139
Bso31I GGTCTC 1 cut(s) 377
Bsp1286I GDGCHC 1 cut(s) 121
Bsp13I TCCGGA 1 cut(s) 485
Bsp1407I TGTACA 1 cut(s) 898
Bsp143I GATC 4 cut(s) 469, 757, 1081, 1218
BspACI CCGC 2 cut(s) 717, 1132
BspANI GGCC 1 cut(s) 1139
BspCNI CTCAG 1 cut(s) 760
BspEI TCCGGA 1 cut(s) 485
BspLI GGNNCC 2 cut(s) 425, 685
BspMAI CTGCAG 1 cut(s) 211
BspPI GGATC 2 cut(s) 752, 1089
BspQI GCTCTTC 1 cut(s) 1141
BspTNI GGTCTC 1 cut(s) 377
BsrDI GCAATG 2 cut(s) 79, 1209
BsrGI TGTACA 1 cut(s) 898
BsrI ACTGG 1 cut(s) 1147
BssECI CCNNGG 2 cut(s) 739, 867
BssMI GATC 4 cut(s) 469, 757, 1081, 1218
BssSI CACGAG 1 cut(s) 498
Bst2BI CACGAG 1 cut(s) 498
Bst2UI CCWGG 3 cut(s) 723, 740, 868
Bst4CI ACNGT 3 cut(s) 34, 536, 665
Bst6I CTCTTC 1 cut(s) 1141
BstAUI TGTACA 1 cut(s) 898
BstBAI YACGTR 1 cut(s) 548
BstDEI CTNAG 5 cut(s) 98, 768, 963, 1118, 1161
BstF5I GGATG 4 cut(s) 302, 323, 347, 1089
BstHHI GCGC 1 cut(s) 830
BstKTI GATC 4 cut(s) 472, 760, 1084, 1221
BstMAI GTCTC 1 cut(s) 377
BstMBI GATC 4 cut(s) 469, 757, 1081, 1218
BstMWI GCNNNNNNNGC 3 cut(s) 186, 330, 947
BstNI CCWGG 3 cut(s) 723, 740, 868
BstNSI RCATGY 1 cut(s) 1234
BstSCI CCNGG 3 cut(s) 721, 738, 866
BstSFI CTRYAG 1 cut(s) 207
BstSNI TACGTA 1 cut(s) 548
BstV1I GCAGC 1 cut(s) 959
BstV2I GAAGAC 1 cut(s) 221
BstX2I RGATCY 1 cut(s) 757
BstYI RGATCY 1 cut(s) 757
BsuRI GGCC 1 cut(s) 1139
BtgZI GCGATG 2 cut(s) 141, 339
BtsCI GGATG 4 cut(s) 302, 323, 347, 1089
BtsIMutI CAGTG 2 cut(s) 30, 1140
CfoI GCGC 1 cut(s) 830
Cfr13I GGNCC 2 cut(s) 248, 719
CsiI ACCWGGT 1 cut(s) 721
Csp6I GTAC 4 cut(s) 5, 93, 545, 899
CviAII CATG 9 cut(s) 10, 122, 165, 539, 563, 707, 728, 1085, 1231
CviQI GTAC 4 cut(s) 5, 93, 545, 899
DdeI CTNAG 5 cut(s) 98, 768, 963, 1118, 1161
DpnI GATC 4 cut(s) 471, 759, 1083, 1220
DpnII GATC 4 cut(s) 469, 757, 1081, 1218
Eam1104I CTCTTC 1 cut(s) 1141
EarI CTCTTC 1 cut(s) 1141
Eco105I TACGTA 1 cut(s) 548
Eco31I GGTCTC 1 cut(s) 377
Eco47I GGWCC 2 cut(s) 248, 719
Eco57I CTGAAG 1 cut(s) 260
EcoO109I RGGNCCY 1 cut(s) 248
EcoRI GAATTC 1 cut(s) 995
EcoRII CCWGG 3 cut(s) 721, 738, 866
EcoT22I ATGCAT 2 cut(s) 166, 1236
FaeI CATG 9 cut(s) 13, 125, 168, 542, 566, 710, 731, 1088, 1234
FalI AAGNNNNNCTT 2 cut(s) 1181, 1213
FatI CATG 9 cut(s) 9, 121, 164, 538, 562, 706, 727, 1084, 1230
FblI GTMKAC 1 cut(s) 1227
Fnu4HI GCNGC 2 cut(s) 948, 1132
FokI GGATG 4 cut(s) 289, 330, 354, 1076
Fsp4HI GCNGC 2 cut(s) 948, 1132
FspI TGCGCA 1 cut(s) 829
GlaI GCGC 1 cut(s) 829
GluI GCNGC 2 cut(s) 948, 1132
GsaI CCCAGC 1 cut(s) 962
HaeIII GGCC 1 cut(s) 1139
HapII CCGG 3 cut(s) 486, 1011, 1107
HhaI GCGC 1 cut(s) 830
Hin1II CATG 9 cut(s) 13, 125, 168, 542, 566, 710, 731, 1088, 1234
Hin6I GCGC 1 cut(s) 828
HinP1I GCGC 1 cut(s) 828
HincII GTYRAC 1 cut(s) 1228
HindII GTYRAC 1 cut(s) 1228
HindIII AAGCTT 2 cut(s) 150, 173
HinfI GANTC 2 cut(s) 638, 855
HpaII CCGG 3 cut(s) 486, 1011, 1107
HphI GGTGA 4 cut(s) 668, 988, 1000, 1194
Hpy166II GTNNAC 5 cut(s) 22, 545, 697, 1158, 1228
Hpy188I TCNGA 6 cut(s) 279, 359, 650, 798, 921, 1054
Hpy188III TCNNGA 3 cut(s) 486, 500, 906
Hpy8I GTNNAC 5 cut(s) 22, 545, 697, 1158, 1228
HpyAV CCTTC 1 cut(s) 361
HpyCH4III ACNGT 3 cut(s) 34, 536, 665
HpyCH4IV ACGT 4 cut(s) 363, 547, 699, 1154
HpyF10VI GCNNNNNNNGC 3 cut(s) 186, 330, 947
HpyF3I CTNAG 5 cut(s) 98, 768, 963, 1118, 1161
HpySE526I ACGT 4 cut(s) 363, 547, 699, 1154
Hsp92II CATG 9 cut(s) 13, 125, 168, 542, 566, 710, 731, 1088, 1234
HspAI GCGC 1 cut(s) 828
Kpn2I TCCGGA 1 cut(s) 485
Kzo9I GATC 4 cut(s) 469, 757, 1081, 1218
LguI GCTCTTC 1 cut(s) 1141
LmnI GCTCC 5 cut(s) 304, 423, 689, 1055, 1070
Lsp1109I GCAGC 1 cut(s) 959
LweI GCATC 1 cut(s) 609
MabI ACCWGGT 1 cut(s) 721
MaeII ACGT 4 cut(s) 363, 547, 699, 1154
MaeIII GTNAC 5 cut(s) 500, 625, 700, 709, 1200
MalI GATC 4 cut(s) 471, 759, 1083, 1220
MboI GATC 4 cut(s) 469, 757, 1081, 1218
MboII GAAGA 3 cut(s) 226, 871, 1158
MflI RGATCY 1 cut(s) 757
MhlI GDGCHC 1 cut(s) 121
MlyI GAGTC 1 cut(s) 864
MmeI TCCRAC 2 cut(s) 785, 1077
MnlI CCTC 9 cut(s) 383, 674, 697, 763, 845, 965, 982, 1021, 1176
Mph1103I ATGCAT 2 cut(s) 166, 1236
MroI TCCGGA 1 cut(s) 485
MseI TTAA 2 cut(s) 675, 837
MslI CAYNNNNRTG 4 cut(s) 35, 126, 563, 567
MspI CCGG 3 cut(s) 486, 1011, 1107
MspR9I CCNGG 3 cut(s) 723, 740, 868
Mva1269I GAATGC 1 cut(s) 574
MvaI CCWGG 3 cut(s) 723, 740, 868
MwoI GCNNNNNNNGC 3 cut(s) 186, 330, 947
NdeII GATC 4 cut(s) 469, 757, 1081, 1218
NlaIII CATG 9 cut(s) 13, 125, 168, 542, 566, 710, 731, 1088, 1234
NlaIV GGNNCC 2 cut(s) 425, 685
NmuCI GTSAC 3 cut(s) 500, 709, 1200
NsbI TGCGCA 1 cut(s) 829
NsiI ATGCAT 2 cut(s) 166, 1236
NspI RCATGY 1 cut(s) 1234
OliI CACNNNNGTG 1 cut(s) 35
PciSI GCTCTTC 1 cut(s) 1141
PctI GAATGC 1 cut(s) 574
PfeI GAWTC 1 cut(s) 638
PflFI GACNNNGTC 2 cut(s) 723, 776
PflMI CCANNNNNTGG 1 cut(s) 728
PkrI GCNGC 2 cut(s) 949, 1133
PleI GAGTC 1 cut(s) 863
PpsI GAGTC 1 cut(s) 863
Ppu21I YACGTR 1 cut(s) 548
PpuMI RGGWCCY 1 cut(s) 248
PsiI TTATAA 1 cut(s) 398
Psp5II RGGWCCY 1 cut(s) 248
Psp6I CCWGG 3 cut(s) 721, 738, 866
PspFI CCCAGC 1 cut(s) 958
PspGI CCWGG 3 cut(s) 721, 738, 866
PspN4I GGNNCC 2 cut(s) 425, 685
PspPI GGNCC 2 cut(s) 248, 719
PspPPI RGGWCCY 1 cut(s) 248
PstI CTGCAG 1 cut(s) 211
PsuI RGATCY 1 cut(s) 757
PsyI GACNNNGTC 2 cut(s) 723, 776
RsaI GTAC 4 cut(s) 6, 94, 546, 900
RsaNI GTAC 4 cut(s) 5, 93, 545, 899
RseI CAYNNNNRTG 4 cut(s) 35, 126, 563, 567
SalI GTCGAC 1 cut(s) 1226
SapI GCTCTTC 1 cut(s) 1141
SaqAI TTAA 2 cut(s) 675, 837
SatI GCNGC 2 cut(s) 948, 1132
Sau3AI GATC 4 cut(s) 469, 757, 1081, 1218
Sau96I GGNCC 2 cut(s) 248, 719
SbfI CCTGCAGG 1 cut(s) 211
SchI GAGTC 1 cut(s) 864
ScrFI CCNGG 3 cut(s) 723, 740, 868
SdaI CCTGCAGG 1 cut(s) 211
SduI GDGCHC 1 cut(s) 121
SexAI ACCWGGT 1 cut(s) 721
SfaNI GCATC 1 cut(s) 609
SfcI CTRYAG 1 cut(s) 207
SinI GGWCC 2 cut(s) 248, 719
SmiMI CAYNNNNRTG 4 cut(s) 35, 126, 563, 567
SmlI CTYRAG 1 cut(s) 147
SmoI CTYRAG 1 cut(s) 147
SnaBI TACGTA 1 cut(s) 548
Sse8387I CCTGCAGG 1 cut(s) 211
SsiI CCGC 2 cut(s) 717, 1132
SspI AATATT 2 cut(s) 292, 1072
StyD4I CCNGG 3 cut(s) 721, 738, 866
TaaI ACNGT 3 cut(s) 34, 536, 665
TaiI ACGT 4 cut(s) 366, 550, 702, 1157
TaqI TCGA 4 cut(s) 603, 780, 1022, 1227
TaqII GACCGA 1 cut(s) 631
TatI WGTACW 1 cut(s) 898
TauI GCSGC 1 cut(s) 1134
TfiI GAWTC 1 cut(s) 638
Tru1I TTAA 2 cut(s) 675, 837
Tru9I TTAA 2 cut(s) 675, 837
TscAI CASTG 2 cut(s) 37, 1147
TseFI GTSAC 3 cut(s) 500, 709, 1200
TseI GCWGC 1 cut(s) 947
Tsp45I GTSAC 3 cut(s) 500, 709, 1200
TspDTI ATGAA 9 cut(s) 48, 145, 430, 448, 506, 551, 836, 988, 1008
TspRI CASTG 2 cut(s) 37, 1147
Tth111I GACNNNGTC 2 cut(s) 723, 776
Van91I CCANNNNNTGG 1 cut(s) 728
VpaK11BI GGWCC 2 cut(s) 248, 719
XapI RAATTY 4 cut(s) 257, 513, 873, 995
XceI RCATGY 1 cut(s) 1234
XcmI CCANNNNNNNNNTGG 1 cut(s) 1075
XmiI GTMKAC 1 cut(s) 1227
Zsp2I ATGCAT 2 cut(s) 166, 1236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.