FvH4_4g19561

PAPA-1-like conserved region

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0005591
Physical Location & Seq
Reverse (-)
23188125 .. 23191627
3503 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g19561.t4

Sequence Viewer

Length: 1419 bp
ATGGAAAGCTTAGGTGGCTGTGGGTTTTCTGTTGGAGGATGTGTTGTGAGGAAGAAAAGGAGTGTTGTATCGCATAAGCCTCGCTTGGATCCACTCACATTTTCTGAGAGGTCGAATATCTTGCTACCAATTGTACATCCCATTGGCAATGAAAGCCCTGATAAGAAGCATAATAGCAAAGAGAAACTATTACATTCTGATGGACTGCAAAGTGAGAAAAAGCCGAAGAAGTTAAAGCTTAAGCTTCGAGGTGTTACTCATACAATCCAAACAAAGTATACAGTTGATTCATGCCCGTCCAATGACCTCATACCCCAACCGAAGCCACTTCTCCAGGATGGCAAACCCATATGTTCTTCTGATCAGGGTAAAGGCATTGGAGTTAAACGAAAATACTCCTTGAAATTTGACTCTGCTTTGAGAAAGGAGTATCCTTCGAAAGGTGAAATCTCTGGGGAAAGTGTTCCTGAGGATGGAAAACCAGCTCGTAAGAGCAAGCGGATTCATGAGAGACGTGTCTTGGATGTGGGACTTAGTGAAGATGGTAATGAAGATGATGAAATTCGATTTCTTGAAAGACTAAATGCTTCAAAGGTTGCTCTTTCAAAGAGAAGTCAAATGGATGGCGCTCATGGAGGTGATATTGGAAACAGAAAATTACCAAGGCTGCAGAAACATGGTGGAAAAAAGTTAAGATCAGAAAAAAAGTATGAGGATAAAGACTATTTGGGAGAAGAAGAAGACGAAGAAGAAGAAGAAGAACTGACATCTGATGATGAACTTCAATCTAATAGGAAGACGCTGAAAAGAGGATCTCTTAGTTTACTTCTTGAAGGGCCACAAAAGTCCACGCCCACCACACGTAATCGGGCCCTTCAGTCTGGGATAGATGTCTTAACTGGCTCCGGTTCAAGCGTTGTTAACCTTGCAAATCATTTGCTTCCTGCCTCATCTAAAAAAAAGGAGAAAATCTCTGAAGAGGATAAGCAATCAAAGAAAGCCGAGGCTGCACAGAGACGTAAAATACAAACAGAAAAGATAGCTAGAGAAGCTGAGGCTGAGGCAATCAGAAAGATACTTGGTCAAGATTCGAAGAAGAAGAAGCGGGAAGAAGAACTAAAGCAGAAGAGGGATGAATTGTCACAGGGGAGGAATGCCAGTGCTGTCACACTGGCACCAAACACTGTCCGATGGGTGAATGGCCCCAATGGGACGGTCGTTACATTCTCTGGCGACATCGGTCTTCCTAACATTTTCAGTCCAGTGCCGTGCAGCTATCCTCCCCCACGTGAAAAATGTGCTGGTCCAAATTGTACAAATGCATACAAGTATCGGGATTCTAAGTCCAAGCTCCCCCTTTGCAGTCTCCATTGCTACAGGGCGTTGAACGGAAAGACACAGCCTCTAACTGCTTGTTGA
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
PAPA-1 zf-HIT

Protein Analysis

473

Amino Acids

52.31

Weight (kDa)

9.48

Isoelectric Point (pI)

55.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PAPA-1 PF04795 329 - 412 5.6e-19 PAPA-1-like conserved region
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)
AccB1I GGYRCC 1 cut(s) 1174
AccI GTMKAC 1 cut(s) 278
AciI CCGC 2 cut(s) 499, 1105
AclWI GGATC 3 cut(s) 83, 96, 820
AcsI RAATTY 2 cut(s) 404, 561
AcuI CTGAAG 2 cut(s) 860, 996
AcvI CACGTG 1 cut(s) 1289
AfaI GTAC 2 cut(s) 135, 1315
AfiI CCNNNNNNNGG 2 cut(s) 440, 473
AflII CTTAAG 1 cut(s) 239
AflIII ACRYGT 2 cut(s) 514, 860
AgsI TTSAA 8 cut(s) 403, 575, 591, 606, 785, 833, 912, 1387
AjiI CACGTC 1 cut(s) 515
AjnI CCWGG 1 cut(s) 333
AluBI AGCT 8 cut(s) 9, 238, 244, 485, 1043, 1052, 1275, 1351
AluI AGCT 8 cut(s) 9, 238, 244, 485, 1043, 1052, 1275, 1351
Alw26I GTCTC 3 cut(s) 505, 1009, 1370
AlwI GGATC 3 cut(s) 83, 96, 820
AoxI GGCC 3 cut(s) 836, 870, 1201
ApaI GGGCCC 1 cut(s) 874
ApeKI GCWGC 3 cut(s) 667, 1007, 1272
ApoI RAATTY 2 cut(s) 404, 561
Asp700I GAANNNNTTC 1 cut(s) 462
AspLEI GCGC 1 cut(s) 629
AspS9I GGNCC 5 cut(s) 836, 870, 871, 1202, 1304
AsuHPI GGTGA 3 cut(s) 455, 650, 1207
AsuII TTCGAA 2 cut(s) 437, 1091
AvaII GGWCC 1 cut(s) 1304
AxyI CCTNAGG 1 cut(s) 468
BaeGI GKGCMC 1 cut(s) 874
BamHI GGATCC 1 cut(s) 88
BanI GGYRCC 1 cut(s) 1174
BanII GRGCYC 1 cut(s) 874
BbrPI CACGTG 1 cut(s) 1289
BbsI GAAGAC 3 cut(s) 747, 803, 1235
BbvCI CCTCAGC 2 cut(s) 1053, 1059
BbvI GCAGC 3 cut(s) 654, 994, 1284
BccI CCATC 6 cut(s) 194, 332, 467, 536, 617, 1185
BceAI ACGGC 1 cut(s) 1252
BcgI CGANNNNNNTGC 4 cut(s) 62, 96, 103, 137
BciT130I CCWGG 1 cut(s) 335
BciVI GTATCC 1 cut(s) 441
BclI TGATCA 1 cut(s) 361
BcoDI GTCTC 3 cut(s) 505, 1009, 1370
BfaI CTAG 1 cut(s) 1044
BfmI CTRYAG 2 cut(s) 668, 1375
BfoI RGCGCY 1 cut(s) 630
BfrI CTTAAG 1 cut(s) 239
BfuI GTATCC 1 cut(s) 441
BisI GCNGC 3 cut(s) 668, 1008, 1273
BlsI GCNGC 3 cut(s) 669, 1009, 1274
Bme1390I CCNGG 1 cut(s) 335
Bme18I GGWCC 1 cut(s) 1304
BmgBI CACGTC 1 cut(s) 515
BmgT120I GGNCC 5 cut(s) 836, 870, 871, 1202, 1304
BmiI GGNNCC 5 cut(s) 90, 872, 904, 1176, 1204
BmrFI CCNGG 1 cut(s) 335
BoxI GACNNNNGTC 1 cut(s) 1239
BpiI GAAGAC 3 cut(s) 747, 803, 1235
BplI GAGNNNNNCTC 2 cut(s) 956, 988
BpmI CTGGAG 1 cut(s) 317
Bpu10I CCTNAGC 3 cut(s) 10, 1053, 1059
Bpu14I TTCGAA 2 cut(s) 437, 1091
BsaAI YACGTR 2 cut(s) 863, 1289
BsaJI CCNNGG 2 cut(s) 662, 1002
BsaWI WCCGGW 1 cut(s) 905
BsaXI ACNNNNNCTCC 2 cut(s) 27, 57
Bsc4I CCNNNNNNNGG 2 cut(s) 440, 473
Bse1I ACTGG 4 cut(s) 904, 1158, 1176, 1262
Bse21I CCTNAGG 1 cut(s) 468
Bse3DI GCAATG 2 cut(s) 154, 1369
BseBI CCWGG 1 cut(s) 335
BseDI CCNNGG 2 cut(s) 662, 1002
BseGI GGATG 7 cut(s) 44, 136, 343, 478, 529, 628, 1138
BseLI CCNNNNNNNGG 2 cut(s) 440, 473
BseMI GCAATG 2 cut(s) 154, 1369
BseMII CTCAG 4 cut(s) 96, 459, 1044, 1050
BseNI ACTGG 4 cut(s) 904, 1158, 1176, 1262
BseSI GKGCMC 1 cut(s) 874
BseXI GCAGC 3 cut(s) 654, 994, 1284
BsgI GTGCAG 2 cut(s) 993, 1291
Bsh1285I CGRYCG 1 cut(s) 1218
BshFI GGCC 3 cut(s) 838, 872, 1203
BshNI GGYRCC 1 cut(s) 1174
BsiEI CGRYCG 1 cut(s) 1218
BsiSI CCGG 1 cut(s) 906
BslFI GGGAC 2 cut(s) 543, 1225
BslI CCNNNNNNNGG 2 cut(s) 440, 473
BsmAI GTCTC 3 cut(s) 505, 1009, 1370
BsmBI CGTCTC 2 cut(s) 505, 1009
BsmFI GGGAC 2 cut(s) 543, 1225
BsmI GAATGC 1 cut(s) 1159
BsnI GGCC 3 cut(s) 838, 872, 1203
Bsp119I TTCGAA 2 cut(s) 437, 1091
Bsp120I GGGCCC 1 cut(s) 870
Bsp1286I GDGCHC 1 cut(s) 874
Bsp1407I TGTACA 2 cut(s) 133, 1313
Bsp143I GATC 4 cut(s) 88, 361, 695, 812
BspACI CCGC 2 cut(s) 499, 1105
BspANI GGCC 3 cut(s) 838, 872, 1203
BspCNI CTCAG 4 cut(s) 97, 460, 1045, 1051
BspHI TCATGA 1 cut(s) 505
BspLI GGNNCC 5 cut(s) 90, 872, 904, 1176, 1204
BspMAI CTGCAG 1 cut(s) 672
BspPI GGATC 3 cut(s) 83, 96, 820
BspT104I TTCGAA 2 cut(s) 437, 1091
BspT107I GGYRCC 1 cut(s) 1174
BspTI CTTAAG 1 cut(s) 239
BsrDI GCAATG 2 cut(s) 154, 1369
BsrGI TGTACA 2 cut(s) 133, 1313
BsrI ACTGG 4 cut(s) 904, 1158, 1176, 1262
BssECI CCNNGG 2 cut(s) 662, 1002
BssMI GATC 4 cut(s) 88, 361, 695, 812
BssNAI GTATAC 1 cut(s) 279
BssT1I CCWWGG 1 cut(s) 662
Bst1107I GTATAC 1 cut(s) 279
Bst2UI CCWGG 1 cut(s) 335
Bst4CI ACNGT 3 cut(s) 283, 1186, 1216
Bst6I CTCTTC 2 cut(s) 972, 1121
BstAFI CTTAAG 1 cut(s) 239
BstAUI TGTACA 2 cut(s) 133, 1313
BstBAI YACGTR 2 cut(s) 863, 1289
BstBI TTCGAA 2 cut(s) 437, 1091
BstC8I GCNNGC 1 cut(s) 497
BstDEI CTNAG 8 cut(s) 10, 105, 468, 533, 818, 1053, 1059, 1341
BstENI CCTNNNNNAGG 1 cut(s) 438
BstF5I GGATG 7 cut(s) 44, 136, 343, 478, 529, 628, 1138
BstH2I RGCGCY 1 cut(s) 630
BstHHI GCGC 1 cut(s) 629
BstKTI GATC 4 cut(s) 91, 364, 698, 815
BstMAI GTCTC 3 cut(s) 505, 1009, 1370
BstMBI GATC 4 cut(s) 88, 361, 695, 812
BstMCI CGRYCG 1 cut(s) 1218
BstMWI GCNNNNNNNGC 4 cut(s) 15, 153, 1007, 1049
BstNI CCWGG 1 cut(s) 335
BstPAI GACNNNNGTC 1 cut(s) 1239
BstSCI CCNGG 1 cut(s) 333
BstSFI CTRYAG 2 cut(s) 668, 1375
BstSLI GKGCMC 1 cut(s) 874
BstV1I GCAGC 3 cut(s) 654, 994, 1284
BstV2I GAAGAC 3 cut(s) 747, 803, 1235
BstX2I RGATCY 2 cut(s) 88, 812
BstYI RGATCY 2 cut(s) 88, 812
BstZ17I GTATAC 1 cut(s) 279
Bsu36I CCTNAGG 1 cut(s) 468
BsuI GTATCC 1 cut(s) 441
BsuRI GGCC 3 cut(s) 838, 872, 1203
BtrI CACGTC 1 cut(s) 515
BtsCI GGATG 7 cut(s) 44, 136, 343, 478, 529, 628, 1138
BtsIMutI CAGTG 4 cut(s) 1165, 1169, 1182, 1269
Cac8I GCNNGC 1 cut(s) 497
CciI TCATGA 1 cut(s) 505
CfoI GCGC 1 cut(s) 629
Cfr13I GGNCC 5 cut(s) 836, 870, 871, 1202, 1304
CseI GACGC 1 cut(s) 808
Csp6I GTAC 2 cut(s) 134, 1314
CviAII CATG 4 cut(s) 291, 506, 632, 677
CviQI GTAC 2 cut(s) 134, 1314
DdeI CTNAG 8 cut(s) 10, 105, 468, 533, 818, 1053, 1059, 1341
DpnI GATC 4 cut(s) 90, 363, 697, 814
DpnII GATC 4 cut(s) 88, 361, 695, 812
Eam1104I CTCTTC 2 cut(s) 972, 1121
EarI CTCTTC 2 cut(s) 972, 1121
Eco130I CCWWGG 1 cut(s) 662
Eco24I GRGCYC 1 cut(s) 874
Eco47I GGWCC 1 cut(s) 1304
Eco57I CTGAAG 2 cut(s) 860, 996
Eco72I CACGTG 1 cut(s) 1289
Eco81I CCTNAGG 1 cut(s) 468
EcoNI CCTNNNNNAGG 1 cut(s) 438
EcoO109I RGGNCCY 1 cut(s) 871
EcoRII CCWGG 1 cut(s) 333
EcoT14I CCWWGG 1 cut(s) 662
EcoT22I ATGCAT 1 cut(s) 1324
EcoT38I GRGCYC 1 cut(s) 874
ErhI CCWWGG 1 cut(s) 662
Esp3I CGTCTC 2 cut(s) 505, 1009
FaeI CATG 4 cut(s) 294, 509, 635, 680
FalI AAGNNNNNCTT 2 cut(s) 68, 100
FaqI GGGAC 2 cut(s) 543, 1225
FatI CATG 4 cut(s) 290, 505, 631, 676
FauI CCCGC 1 cut(s) 1098
FauNDI CATATG 1 cut(s) 350
FbaI TGATCA 1 cut(s) 361
FblI GTMKAC 1 cut(s) 278
Fnu4HI GCNGC 3 cut(s) 668, 1008, 1273
FokI GGATG 7 cut(s) 51, 123, 350, 485, 536, 635, 1145
FriOI GRGCYC 1 cut(s) 874
Fsp4HI GCNGC 3 cut(s) 668, 1008, 1273
FspBI CTAG 1 cut(s) 1044
GlaI GCGC 1 cut(s) 628
GluI GCNGC 3 cut(s) 668, 1008, 1273
GsuI CTGGAG 1 cut(s) 317
HaeII RGCGCY 1 cut(s) 630
HaeIII GGCC 3 cut(s) 838, 872, 1203
HapII CCGG 1 cut(s) 906
HgaI GACGC 1 cut(s) 808
HhaI GCGC 1 cut(s) 629
Hin1II CATG 4 cut(s) 294, 509, 635, 680
Hin6I GCGC 1 cut(s) 627
HinP1I GCGC 1 cut(s) 627
HincII GTYRAC 1 cut(s) 922
HindII GTYRAC 1 cut(s) 922
HindIII AAGCTT 3 cut(s) 7, 236, 242
HinfI GANTC 5 cut(s) 287, 410, 502, 1088, 1337
HpaI GTTAAC 1 cut(s) 922
HpaII CCGG 1 cut(s) 906
HphI GGTGA 3 cut(s) 455, 650, 1207
Hpy166II GTNNAC 4 cut(s) 279, 824, 849, 922
Hpy188I TCNGA 8 cut(s) 106, 199, 361, 700, 772, 976, 1070, 1190
Hpy188III TCNNGA 6 cut(s) 467, 506, 572, 830, 1085, 1334
Hpy8I GTNNAC 4 cut(s) 279, 824, 849, 922
HpyAV CCTTC 3 cut(s) 444, 827, 884
HpyCH4III ACNGT 3 cut(s) 283, 1186, 1216
HpyCH4IV ACGT 4 cut(s) 514, 862, 1018, 1288
HpyCH4V TGCA 7 cut(s) 208, 670, 929, 1010, 1272, 1322, 1362
HpyF10VI GCNNNNNNNGC 4 cut(s) 15, 153, 1007, 1049
HpyF3I CTNAG 8 cut(s) 10, 105, 468, 533, 818, 1053, 1059, 1341
HpySE526I ACGT 4 cut(s) 514, 862, 1018, 1288
Hsp92II CATG 4 cut(s) 294, 509, 635, 680
HspAI GCGC 1 cut(s) 627
Ksp22I TGATCA 1 cut(s) 361
KspAI GTTAAC 1 cut(s) 922
Kzo9I GATC 4 cut(s) 88, 361, 695, 812
LmnI GCTCC 2 cut(s) 908, 1356
Lsp1109I GCAGC 3 cut(s) 654, 994, 1284
MaeI CTAG 1 cut(s) 1044
MaeII ACGT 4 cut(s) 514, 862, 1018, 1288
MaeIII GTNAC 4 cut(s) 253, 1140, 1165, 1219
MalI GATC 4 cut(s) 90, 363, 697, 814
MboI GATC 4 cut(s) 88, 361, 695, 812
MfeI CAATTG 1 cut(s) 129
MflI RGATCY 2 cut(s) 88, 812
MhlI GDGCHC 1 cut(s) 874
MluCI AATT 6 cut(s) 129, 404, 561, 656, 1136, 1309
MlyI GAGTC 1 cut(s) 404
MmeI TCCRAC 1 cut(s) 13
Mph1103I ATGCAT 1 cut(s) 1324
MroXI GAANNNNTTC 1 cut(s) 462
MseI TTAA 6 cut(s) 233, 240, 384, 692, 896, 921
MslI CAYNNNNRTG 2 cut(s) 198, 636
MspCI CTTAAG 1 cut(s) 239
MspI CCGG 1 cut(s) 906
MspR9I CCNGG 1 cut(s) 335
MunI CAATTG 1 cut(s) 129
Mva1269I GAATGC 1 cut(s) 1159
MvaI CCWGG 1 cut(s) 335
MwoI GCNNNNNNNGC 4 cut(s) 15, 153, 1007, 1049
NdeI CATATG 1 cut(s) 350
NdeII GATC 4 cut(s) 88, 361, 695, 812
NlaIII CATG 4 cut(s) 294, 509, 635, 680
NlaIV GGNNCC 5 cut(s) 90, 872, 904, 1176, 1204
NmeAIII GCCGAG 1 cut(s) 1027
NmuCI GTSAC 2 cut(s) 1140, 1165
NsiI ATGCAT 1 cut(s) 1324
NspV TTCGAA 2 cut(s) 437, 1091
PagI TCATGA 1 cut(s) 505
PctI GAATGC 1 cut(s) 1159
PdmI GAANNNNTTC 1 cut(s) 462
PfeI GAWTC 4 cut(s) 287, 502, 1088, 1337
PfoI TCCNGGA 1 cut(s) 333
PkrI GCNGC 3 cut(s) 669, 1009, 1274
PleI GAGTC 1 cut(s) 404
PmaCI CACGTG 1 cut(s) 1289
PmlI CACGTG 1 cut(s) 1289
PpsI GAGTC 1 cut(s) 404
Ppu21I YACGTR 2 cut(s) 863, 1289
PshAI GACNNNNGTC 1 cut(s) 1239
Psp6I CCWGG 1 cut(s) 333
PspCI CACGTG 1 cut(s) 1289
PspGI CCWGG 1 cut(s) 333
PspN4I GGNNCC 5 cut(s) 90, 872, 904, 1176, 1204
PspOMI GGGCCC 1 cut(s) 870
PspPI GGNCC 5 cut(s) 836, 870, 871, 1202, 1304
PstI CTGCAG 1 cut(s) 672
PsuI RGATCY 2 cut(s) 88, 812
RsaI GTAC 2 cut(s) 135, 1315
RsaNI GTAC 2 cut(s) 134, 1314
RseI CAYNNNNRTG 2 cut(s) 198, 636
SaqAI TTAA 6 cut(s) 233, 240, 384, 692, 896, 921
SatI GCNGC 3 cut(s) 668, 1008, 1273
Sau3AI GATC 4 cut(s) 88, 361, 695, 812
Sau96I GGNCC 5 cut(s) 836, 870, 871, 1202, 1304
SchI GAGTC 1 cut(s) 404
ScrFI CCNGG 1 cut(s) 335
SduI GDGCHC 1 cut(s) 874
SfcI CTRYAG 2 cut(s) 668, 1375
SfuI TTCGAA 2 cut(s) 437, 1091
SinI GGWCC 1 cut(s) 1304
SmiMI CAYNNNNRTG 2 cut(s) 198, 636
SmlI CTYRAG 1 cut(s) 239
SmoI CTYRAG 1 cut(s) 239
Sse9I AATT 6 cut(s) 129, 404, 561, 656, 1136, 1309
SsiI CCGC 2 cut(s) 499, 1105
SspMI CTAG 1 cut(s) 1044
StyD4I CCNGG 1 cut(s) 333
StyI CCWWGG 1 cut(s) 662
TaaI ACNGT 3 cut(s) 283, 1186, 1216
TaiI ACGT 4 cut(s) 517, 865, 1021, 1291
TaqI TCGA 5 cut(s) 113, 247, 437, 565, 1091
TaqII GACCGA 1 cut(s) 1229
TasI AATT 6 cut(s) 129, 404, 561, 656, 1136, 1309
TatI WGTACW 2 cut(s) 133, 1313
TfiI GAWTC 4 cut(s) 287, 502, 1088, 1337
Tru1I TTAA 6 cut(s) 233, 240, 384, 692, 896, 921
Tru9I TTAA 6 cut(s) 233, 240, 384, 692, 896, 921
TscAI CASTG 4 cut(s) 1165, 1176, 1189, 1269
TseFI GTSAC 2 cut(s) 1140, 1165
TseI GCWGC 3 cut(s) 667, 1007, 1272
Tsp45I GTSAC 2 cut(s) 1140, 1165
TspDTI ATGAA 7 cut(s) 165, 279, 494, 564, 573, 792, 1149
TspGWI ACGGA 1 cut(s) 1404
TspRI CASTG 4 cut(s) 1165, 1176, 1189, 1269
Vha464I CTTAAG 1 cut(s) 239
VpaK11BI GGWCC 1 cut(s) 1304
XagI CCTNNNNNAGG 1 cut(s) 438
XapI RAATTY 2 cut(s) 404, 561
XmiI GTMKAC 1 cut(s) 278
XmnI GAANNNNTTC 1 cut(s) 462
XspI CTAG 1 cut(s) 1044
Zsp2I ATGCAT 1 cut(s) 1324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.