FvH4_2g20980

Polygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0016261
Physical Location & Seq
Reverse (-)
17494048 .. 17496992
2945 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g20980.t1

Sequence Viewer

Length: 1317 bp
ATGGCTCCAGAAAGACGATCATTCTCGTTCTGCATTGTTATTGTCCTCTCCTTTATTACTAAAACTTCATGTCATGGTGGCATTCTACCTTGGTTTCACTTTAACAATGTGAGTGGCGCACGACCATCGACACCAGCTCCGATTAGCGTTGATAAGTTTGGAGCTAAAGGGATTGATCATACAGATGACACAGAGGCATTTGAGAAGGCGTGGGCGGAGGCTTGTTCCTCCAACGGAAAGGCGGTTCTTCTGCTGCCGCCCCACCGGAGCTATTTCGTTAAGCCAGTCACATTCTCCGGCGCCAAATGCAAAGCCCACCATCTTACAATGCAGATCCAAGGAACGATAATGGCATTTGAGGATCCGAAAACCTACCATTTTCCAAATGAAAATAAGGTGCAGGACTGGCTTACCTTTGAGAGCGTTGAGAGCTTGGTGGTTGAAGGTCCTGGAACCATCAATGGCAACGGAGAAAAATGGTGGCAAAGCTCATGCAAACAAAACAGTAAAACTCAAACGCGGGAGCCCCATTGCAATAAGGACGCACCAACTGCTGTGACGTTCAAGAAGTGCAATAACTTGACGGTGAATAATCTGAATATCGAAAAGGCACAGCGAATGCATGTTACATTCAAAAATTGCACGAATGTTAAAGCTTCCGGACTTAGTATAAACACATCAGAGGCTAGTCCCAACACTGATGGAATTCACATTGCAGAAACCAACAAGATCCACATTTCAGACTGTCGTATAAGCACAGGTGATGATTGTATATCCATTATAGGAGGATCCCGGGATGTTCAAGCCACAAACATCACTTGCGGACCAGGCCATGGAATCAGCATTGGTAGCTTGGGAAAAGGCGGATCCGAAGACCATGTTTCCGACGTAACAGTGGATGGAGCTAAGCTAACTGGAACCATGTATGGAGTGAGGATCAAAACATGGCCGGGAGGGTCAGGGTATGCAAACAGAATCATATTTCAGAACATACAGATGGAGAATGTGACCGACCCCATAATAATTGACCAAAACTACTGCGACGCTGCAACCAAAGTCACAAAGGGAGAATGCAAACCACCACCAGTGCAGAAAAATACAGCAGTTCAAGTGCGTAATGTTATGTACCGGAACATAAAGGGGACGGTTTCTAAGGATGGCAAAGCCATAGTATTCAATTGCAGCAGCGTTCCTGGTGCATGTGAGTTGATTGATCTGGAAGATATTAGACTTGAGAAAGGAGGAGCTGCAGTATGCAGCAACGTCAAACCGACTTACAGCAGAGTCGATTTGCCTCTCAATCGATGCCCTAACTAA
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

439

Amino Acids

47.56

Weight (kDa)

8.37

Isoelectric Point (pI)

36.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 75 - 424 3.7e-85 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)
AccB1I GGYRCC 1 cut(s) 299
AccB7I CCANNNNNTGG 1 cut(s) 833
AccII CGCG 1 cut(s) 520
AccIII TCCGGA 1 cut(s) 659
AciI CCGC 6 cut(s) 215, 242, 257, 520, 822, 864
AclWI GGATC 9 cut(s) 328, 356, 369, 724, 783, 796, 861, 874, 944
AcoI YGGCCR 1 cut(s) 947
AcsI RAATTY 1 cut(s) 705
AcyI GRCGYC 1 cut(s) 300
AfaI GTAC 1 cut(s) 1127
AfiI CCNNNNNNNGG 1 cut(s) 833
AgsI TTSAA 6 cut(s) 443, 565, 634, 803, 1109, 1177
AjnI CCWGG 3 cut(s) 448, 826, 1192
AloI GAACNNNNNNTCC 2 cut(s) 228, 260
AlwI GGATC 9 cut(s) 328, 356, 369, 724, 783, 796, 861, 874, 944
Ama87I CYCGRG 1 cut(s) 792
Aor13HI TCCGGA 1 cut(s) 659
AoxI GGCC 2 cut(s) 829, 947
ApeKI GCWGC 6 cut(s) 253, 1046, 1182, 1185, 1247, 1257
ApoI RAATTY 1 cut(s) 705
AspLEI GCGC 2 cut(s) 119, 302
AspS9I GGNCC 2 cut(s) 446, 824
AsuC2I CCSGG 3 cut(s) 793, 794, 951
AsuHPI GGTGA 2 cut(s) 598, 773
AvaI CYCGRG 1 cut(s) 792
AvaII GGWCC 2 cut(s) 446, 824
BamHI GGATCC 3 cut(s) 361, 788, 866
BanI GGYRCC 1 cut(s) 299
BanII GRGCYC 1 cut(s) 528
BbsI GAAGAC 1 cut(s) 879
BbvI GCAGC 6 cut(s) 240, 1033, 1194, 1197, 1234, 1269
BccI CCATC 7 cut(s) 133, 327, 464, 695, 893, 991, 1151
BcgI CGANNNNNNTGC 2 cut(s) 108, 142
BciT130I CCWGG 3 cut(s) 450, 828, 1194
BclI TGATCA 1 cut(s) 175
BcnI CCSGG 3 cut(s) 793, 794, 951
BfaI CTAG 1 cut(s) 687
BfmI CTRYAG 1 cut(s) 1248
BfoI RGCGCY 1 cut(s) 303
BisI GCNGC 7 cut(s) 254, 257, 1047, 1183, 1186, 1248, 1258
BlpI GCTNAGC 1 cut(s) 906
BlsI GCNGC 7 cut(s) 255, 258, 1048, 1184, 1187, 1249, 1259
Bme1390I CCNGG 6 cut(s) 450, 793, 794, 828, 951, 1194
Bme18I GGWCC 2 cut(s) 446, 824
BmeT110I CYCGRG 1 cut(s) 792
BmgT120I GGNCC 2 cut(s) 446, 824
BmiI GGNNCC 8 cut(s) 6, 301, 363, 454, 525, 790, 868, 919
BmrFI CCNGG 6 cut(s) 450, 793, 794, 828, 951, 1194
BmsI GCATC 1 cut(s) 1295
BpiI GAAGAC 1 cut(s) 879
Bpu1102I GCTNAGC 1 cut(s) 906
BpuEI CTTGAG 1 cut(s) 1253
BpuMI CCSGG 3 cut(s) 793, 794, 951
Bsa29I ATCGAT 1 cut(s) 1303
BsaHI GRCGYC 1 cut(s) 300
BsaJI CCNNGG 4 cut(s) 89, 337, 792, 832
BsaWI WCCGGW 3 cut(s) 264, 659, 1128
BsaXI ACNNNNNCTCC 4 cut(s) 121, 151, 1236, 1266
Bsc4I CCNNNNNNNGG 1 cut(s) 833
Bse1I ACTGG 4 cut(s) 284, 410, 919, 1085
Bse3DI GCAATG 2 cut(s) 529, 711
BseAI TCCGGA 1 cut(s) 659
BseBI CCWGG 3 cut(s) 450, 828, 1194
BseCI ATCGAT 1 cut(s) 1303
BseDI CCNNGG 4 cut(s) 89, 337, 792, 832
BseGI GGATG 3 cut(s) 802, 904, 1162
BseLI CCNNNNNNNGG 1 cut(s) 833
BseMI GCAATG 2 cut(s) 529, 711
BseNI ACTGG 4 cut(s) 284, 410, 919, 1085
BseRI GAGGAG 1 cut(s) 1257
BseXI GCAGC 6 cut(s) 240, 1033, 1194, 1197, 1234, 1269
BsgI GTGCAG 2 cut(s) 419, 1109
Bsh1236I CGCG 1 cut(s) 520
BshFI GGCC 2 cut(s) 831, 949
BshNI GGYRCC 1 cut(s) 299
BshVI ATCGAT 1 cut(s) 1303
BsiHKCI CYCGRG 1 cut(s) 792
BsiSI CCGG 6 cut(s) 265, 297, 660, 793, 950, 1129
BslFI GGGAC 2 cut(s) 675, 1156
BslI CCNNNNNNNGG 1 cut(s) 833
BsmFI GGGAC 2 cut(s) 675, 1156
BsmI GAATGC 3 cut(s) 81, 624, 1076
BsnI GGCC 2 cut(s) 831, 949
BsoBI CYCGRG 1 cut(s) 792
Bsp1286I GDGCHC 1 cut(s) 528
Bsp13I TCCGGA 1 cut(s) 659
Bsp143I GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
Bsp1720I GCTNAGC 1 cut(s) 906
Bsp19I CCATGG 1 cut(s) 832
BspACI CCGC 6 cut(s) 215, 242, 257, 520, 822, 864
BspANI GGCC 2 cut(s) 831, 949
BspDI ATCGAT 1 cut(s) 1303
BspEI TCCGGA 1 cut(s) 659
BspFNI CGCG 1 cut(s) 520
BspLI GGNNCC 8 cut(s) 6, 301, 363, 454, 525, 790, 868, 919
BspMAI CTGCAG 1 cut(s) 1252
BspPI GGATC 9 cut(s) 328, 356, 369, 724, 783, 796, 861, 874, 944
BspT107I GGYRCC 1 cut(s) 299
BsrDI GCAATG 2 cut(s) 529, 711
BsrI ACTGG 4 cut(s) 284, 410, 919, 1085
BssECI CCNNGG 4 cut(s) 89, 337, 792, 832
BssMI GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
BssNI GRCGYC 1 cut(s) 300
BssT1I CCWWGG 3 cut(s) 89, 337, 832
Bst2UI CCWGG 3 cut(s) 450, 828, 1194
Bst4CI ACNGT 5 cut(s) 506, 586, 746, 895, 1147
BstACI GRCGYC 1 cut(s) 300
BstAPI GCANNNNNTGC 1 cut(s) 551
BstDEI CTNAG 3 cut(s) 665, 906, 1152
BstDSI CCRYGG 1 cut(s) 832
BstF5I GGATG 3 cut(s) 802, 904, 1162
BstFNI CGCG 1 cut(s) 520
BstH2I RGCGCY 1 cut(s) 303
BstHHI GCGC 2 cut(s) 119, 302
BstKTI GATC 9 cut(s) 20, 178, 336, 364, 732, 791, 869, 939, 1216
BstMBI GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
BstMWI GCNNNNNNNGC 6 cut(s) 306, 406, 429, 551, 828, 849
BstNI CCWGG 3 cut(s) 450, 828, 1194
BstNSI RCATGY 2 cut(s) 626, 1203
BstSCI CCNGG 6 cut(s) 448, 791, 792, 826, 949, 1192
BstSFI CTRYAG 1 cut(s) 1248
BstUI CGCG 1 cut(s) 520
BstV1I GCAGC 6 cut(s) 240, 1033, 1194, 1197, 1234, 1269
BstV2I GAAGAC 1 cut(s) 879
BstX2I RGATCY 5 cut(s) 333, 361, 729, 788, 866
BstYI RGATCY 5 cut(s) 333, 361, 729, 788, 866
Bsu15I ATCGAT 1 cut(s) 1303
BsuRI GGCC 2 cut(s) 831, 949
BsuTUI ATCGAT 1 cut(s) 1303
BtgI CCRYGG 1 cut(s) 832
BtsCI GGATG 3 cut(s) 802, 904, 1162
BtsIMutI CAGTG 3 cut(s) 696, 900, 1092
CfoI GCGC 2 cut(s) 119, 302
Cfr13I GGNCC 2 cut(s) 446, 824
Cfr9I CCCGGG 1 cut(s) 792
ClaI ATCGAT 1 cut(s) 1303
CseI GACGC 2 cut(s) 551, 1052
Csp6I GTAC 1 cut(s) 1126
CspCI CAANNNNNGTGG 2 cut(s) 94, 129
CviAII CATG 9 cut(s) 69, 74, 492, 623, 833, 878, 922, 945, 1200
CviQI GTAC 1 cut(s) 1126
DdeI CTNAG 3 cut(s) 665, 906, 1152
DinI GGCGCC 1 cut(s) 301
DpnI GATC 9 cut(s) 19, 177, 335, 363, 731, 790, 868, 938, 1215
DpnII GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
EaeI YGGCCR 1 cut(s) 947
EciI GGCGGA 2 cut(s) 230, 879
Eco130I CCWWGG 3 cut(s) 89, 337, 832
Eco24I GRGCYC 1 cut(s) 528
Eco47I GGWCC 2 cut(s) 446, 824
Eco88I CYCGRG 1 cut(s) 792
EcoO109I RGGNCCY 1 cut(s) 446
EcoRI GAATTC 1 cut(s) 705
EcoRII CCWGG 3 cut(s) 448, 826, 1192
EcoT14I CCWWGG 3 cut(s) 89, 337, 832
EcoT22I ATGCAT 1 cut(s) 624
EcoT38I GRGCYC 1 cut(s) 528
EgeI GGCGCC 1 cut(s) 301
EheI GGCGCC 1 cut(s) 301
ErhI CCWWGG 3 cut(s) 89, 337, 832
FaeI CATG 9 cut(s) 72, 77, 495, 626, 836, 881, 925, 948, 1203
FaqI GGGAC 2 cut(s) 675, 1156
FatI CATG 9 cut(s) 68, 73, 491, 622, 832, 877, 921, 944, 1199
FauI CCCGC 1 cut(s) 513
FbaI TGATCA 1 cut(s) 175
Fnu4HI GCNGC 7 cut(s) 254, 257, 1047, 1183, 1186, 1248, 1258
FokI GGATG 3 cut(s) 809, 911, 1169
FriOI GRGCYC 1 cut(s) 528
Fsp4HI GCNGC 7 cut(s) 254, 257, 1047, 1183, 1186, 1248, 1258
FspBI CTAG 1 cut(s) 687
GlaI GCGC 2 cut(s) 118, 301
GluI GCNGC 7 cut(s) 254, 257, 1047, 1183, 1186, 1248, 1258
HaeII RGCGCY 1 cut(s) 303
HaeIII GGCC 2 cut(s) 831, 949
HapII CCGG 6 cut(s) 265, 297, 660, 793, 950, 1129
HgaI GACGC 2 cut(s) 551, 1052
HhaI GCGC 2 cut(s) 119, 302
Hin1I GRCGYC 1 cut(s) 300
Hin1II CATG 9 cut(s) 72, 77, 495, 626, 836, 881, 925, 948, 1203
Hin6I GCGC 2 cut(s) 117, 300
HinP1I GCGC 2 cut(s) 117, 300
HindIII AAGCTT 1 cut(s) 654
HinfI GANTC 3 cut(s) 837, 975, 1284
HpaII CCGG 6 cut(s) 265, 297, 660, 793, 950, 1129
HphI GGTGA 2 cut(s) 598, 773
Hpy188I TCNGA 8 cut(s) 141, 366, 597, 682, 742, 871, 886, 987
Hpy188III TCNNGA 4 cut(s) 8, 565, 660, 1217
Hpy99I CGWCG 2 cut(s) 890, 1046
HpyAV CCTTC 2 cut(s) 199, 437
HpyCH4III ACNGT 5 cut(s) 506, 586, 746, 895, 1147
HpyCH4IV ACGT 3 cut(s) 560, 888, 1263
HpyF10VI GCNNNNNNNGC 6 cut(s) 306, 406, 429, 551, 828, 849
HpyF3I CTNAG 3 cut(s) 665, 906, 1152
HpySE526I ACGT 3 cut(s) 560, 888, 1263
Hsp92I GRCGYC 1 cut(s) 300
Hsp92II CATG 9 cut(s) 72, 77, 495, 626, 836, 881, 925, 948, 1203
HspAI GCGC 2 cut(s) 117, 300
KasI GGCGCC 1 cut(s) 299
Kpn2I TCCGGA 1 cut(s) 659
Ksp22I TGATCA 1 cut(s) 175
Kzo9I GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
LmnI GCTCC 7 cut(s) 10, 142, 161, 267, 523, 902, 1244
Lsp1109I GCAGC 6 cut(s) 240, 1033, 1194, 1197, 1234, 1269
LweI GCATC 1 cut(s) 1295
MaeI CTAG 1 cut(s) 687
MaeII ACGT 3 cut(s) 560, 888, 1263
MaeIII GTNAC 6 cut(s) 286, 556, 625, 889, 1006, 1057
MalI GATC 9 cut(s) 19, 177, 335, 363, 731, 790, 868, 938, 1215
MboI GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
MboII GAAGA 3 cut(s) 239, 884, 1232
MfeI CAATTG 1 cut(s) 1177
MflI RGATCY 5 cut(s) 333, 361, 729, 788, 866
MhlI GDGCHC 1 cut(s) 528
MluCI AATT 4 cut(s) 637, 705, 1023, 1177
Mly113I GGCGCC 1 cut(s) 300
MlyI GAGTC 1 cut(s) 1293
MmeI TCCRAC 2 cut(s) 255, 909
Mph1103I ATGCAT 1 cut(s) 624
MroI TCCGGA 1 cut(s) 659
MseI TTAA 3 cut(s) 102, 279, 651
MslI CAYNNNNRTG 2 cut(s) 183, 995
MspI CCGG 6 cut(s) 265, 297, 660, 793, 950, 1129
MspR9I CCNGG 6 cut(s) 450, 793, 794, 828, 951, 1194
MunI CAATTG 1 cut(s) 1177
Mva1269I GAATGC 3 cut(s) 81, 624, 1076
MvaI CCWGG 3 cut(s) 450, 828, 1194
MvnI CGCG 1 cut(s) 520
MwoI GCNNNNNNNGC 6 cut(s) 306, 406, 429, 551, 828, 849
NarI GGCGCC 1 cut(s) 300
NciI CCSGG 3 cut(s) 793, 794, 951
NcoI CCATGG 1 cut(s) 832
NdeII GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
NlaIII CATG 9 cut(s) 72, 77, 495, 626, 836, 881, 925, 948, 1203
NlaIV GGNNCC 8 cut(s) 6, 301, 363, 454, 525, 790, 868, 919
NmuCI GTSAC 4 cut(s) 286, 556, 1006, 1057
NsiI ATGCAT 1 cut(s) 624
NspI RCATGY 2 cut(s) 626, 1203
PctI GAATGC 3 cut(s) 81, 624, 1076
PfeI GAWTC 2 cut(s) 837, 975
PflMI CCANNNNNTGG 1 cut(s) 833
PfoI TCCNGGA 1 cut(s) 448
PkrI GCNGC 7 cut(s) 255, 258, 1048, 1184, 1187, 1249, 1259
PleI GAGTC 1 cut(s) 1292
PluTI GGCGCC 1 cut(s) 303
PpsI GAGTC 1 cut(s) 1292
PpuMI RGGWCCY 1 cut(s) 446
Psp5II RGGWCCY 1 cut(s) 446
Psp6I CCWGG 3 cut(s) 448, 826, 1192
PspGI CCWGG 3 cut(s) 448, 826, 1192
PspN4I GGNNCC 8 cut(s) 6, 301, 363, 454, 525, 790, 868, 919
PspPI GGNCC 2 cut(s) 446, 824
PspPPI RGGWCCY 1 cut(s) 446
PstI CTGCAG 1 cut(s) 1252
PsuI RGATCY 5 cut(s) 333, 361, 729, 788, 866
RsaI GTAC 1 cut(s) 1127
RsaNI GTAC 1 cut(s) 1126
RseI CAYNNNNRTG 2 cut(s) 183, 995
SaqAI TTAA 3 cut(s) 102, 279, 651
SatI GCNGC 7 cut(s) 254, 257, 1047, 1183, 1186, 1248, 1258
Sau3AI GATC 9 cut(s) 17, 175, 333, 361, 729, 788, 866, 936, 1213
Sau96I GGNCC 2 cut(s) 446, 824
SchI GAGTC 1 cut(s) 1293
ScrFI CCNGG 6 cut(s) 450, 793, 794, 828, 951, 1194
SduI GDGCHC 1 cut(s) 528
SfaNI GCATC 1 cut(s) 1295
SfcI CTRYAG 1 cut(s) 1248
SfoI GGCGCC 1 cut(s) 301
SinI GGWCC 2 cut(s) 446, 824
SmaI CCCGGG 1 cut(s) 794
SmiMI CAYNNNNRTG 2 cut(s) 183, 995
SmlI CTYRAG 1 cut(s) 1232
SmoI CTYRAG 1 cut(s) 1232
Sse9I AATT 4 cut(s) 637, 705, 1023, 1177
SsiI CCGC 6 cut(s) 215, 242, 257, 520, 822, 864
SspDI GGCGCC 1 cut(s) 299
SspMI CTAG 1 cut(s) 687
StyD4I CCNGG 6 cut(s) 448, 791, 792, 826, 949, 1192
StyI CCWWGG 3 cut(s) 89, 337, 832
TaaI ACNGT 5 cut(s) 506, 586, 746, 895, 1147
TaiI ACGT 3 cut(s) 563, 891, 1266
TaqI TCGA 4 cut(s) 128, 603, 1287, 1303
TaqII GACCGA 1 cut(s) 1025
TasI AATT 4 cut(s) 637, 705, 1023, 1177
TauI GCSGC 1 cut(s) 259
TfiI GAWTC 2 cut(s) 837, 975
Tru1I TTAA 3 cut(s) 102, 279, 651
Tru9I TTAA 3 cut(s) 102, 279, 651
TscAI CASTG 3 cut(s) 703, 900, 1092
TseFI GTSAC 4 cut(s) 286, 556, 1006, 1057
TseI GCWGC 6 cut(s) 253, 1046, 1182, 1185, 1247, 1257
Tsp45I GTSAC 4 cut(s) 286, 556, 1006, 1057
TspDTI ATGAA 2 cut(s) 57, 402
TspGWI ACGGA 2 cut(s) 249, 483
TspMI CCCGGG 1 cut(s) 792
TspRI CASTG 3 cut(s) 703, 900, 1092
Van91I CCANNNNNTGG 1 cut(s) 833
VpaK11BI GGWCC 2 cut(s) 446, 824
XapI RAATTY 1 cut(s) 705
XceI RCATGY 2 cut(s) 626, 1203
XmaI CCCGGG 1 cut(s) 792
XspI CTAG 1 cut(s) 687
Zsp2I ATGCAT 1 cut(s) 624
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.