FvH4_4g06573

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000756
Physical Location & Seq
Reverse (-)
5836606 .. 5838074
1469 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g06573.t1

Sequence Viewer

Length: 1458 bp
ATGGATGTGAATATTGGGTCTCATTTAGATCAACAAGAGGTAATAAGGAGGGGTAAGAATGTGGTTGGTACAGTGGGATTAGATTATAATGCTTCTCCTTTTTCTCCTCAACCTGGTTTGAGTTACTCACAACCCATGCATGTGCAAACACAGGGACCTTTTAACGTGACTTATTCAGGGCCCTATCAAACCACCTCCATTGATTTTTCTCAGAAACACACTCACCCAAACACCAATTTCAGTTTGGCAGGCAATGTTTCCCGAGGCCAAACTATTTATACCACCAATTCTACTACAACCACTACACAAATTGGCCCTGGTCTGGCACAAAGACAGTGTCAACAATTTACTCAGCAGAGTTCTCAAACCCAACAACACCAACAATTTTCTCAAACTAGTTTTCAATCCCATTATGATCAATACCTGGACACCAACAACCAAACTGTTCATCAATATCATAATTTAGACCCCACTTTACCAACTATGAAACAAATGAGGTTGGAGCTGGCAGTTTTCAGTGGGGGTGATCCTGTTGAGTGGTTGAACAAGGCTGATCAATACTTTGAGTTTTACCAAATTCCGGAGGATAGGAAGCTTGCTCTTGCTACCATGCACTTAGCAGATAAAGCTTCAGACAGATGGTATACCTTTAGACATGAATTTCCTCTTACTTGGAAAGGCTTGTCTGACTTGTTGATGAGGGAATTTAGTGCGTACAATAGAATTGAATACCAAGCTGCTTTGGCTAGAATGGATCAGACTGGGAGAGTTGAGCAATATATGGAGGAGTTCACTAGGCTATCTAGAAGAGCTCCAGGTTTTTCCACTGAGCTACTTGTGTCTTTTTTCATTGGTGGCTTAAGAGAAGACATTAGAGGAGATGTCAGGACTCATAACCCTAAAAGTTTGTATGAGGCTTATGAGTTAGCTTGTAGTTATGAAAACAGGAATGATGGTTACAAAAGGTTTGCAAGGTCTTCAGCTCAGCCATTGAAGATTGCAAGCTCTAGTTCAATTCCGAGCCAAAATAAGTTTGGTGCTAGTTCAATTTACGGAGCCAAGGGGAGTAGCAACAATGCTAAGCTGGAACTGGTTGGAACAAATAGGGGTGCAGGTTACACCAAAAACAGTAAAGTCCTTTCTGATTTTGAGTTTGCTGCTAGGAGGGCAAGAAACCAATGCTACTTTTGTGATGCTCCATATACCAATGGTCACAATTGCAGAAAGAGAGGGCAGTTGATGATCATGGGAATTGTTCCAGACGAGGTCGGGGTGCATGACAGTGAGGATGATAGTAGTACCAATGAAGGGAAGGAGTTAGTAGAAGTTCCTCCCGTTGTAGACATTGAAGAGCCCTTGATCAAGTTACAGGTGATGACAGATGGTGGCTCTACTACTATGCAATTAAAGGGGAGTTTTACAAACAGGAGGGTGCATGCTCTACTACTATGCAATTAA
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

486

Amino Acids

54.71

Weight (kDa)

6.71

Isoelectric Point (pI)

41.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 188 - 317 1.7e-12 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 201 - 289 1.1e-10 Retrotransposon gag protein
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) 87
Acc36I ACCTGC 1 cut(s) 1103
AccI GTMKAC 2 cut(s) 644, 1341
AccIII TCCGGA 1 cut(s) 580
AclWI GGATC 2 cut(s) 521, 762
AcsI RAATTY 3 cut(s) 576, 659, 704
AcuI CTGAAG 2 cut(s) 615, 963
AfaI GTAC 3 cut(s) 70, 716, 1300
AfiI CCNNNNNNNGG 4 cut(s) 113, 322, 580, 1308
AflII CTTAAG 1 cut(s) 859
AgsI TTSAA 7 cut(s) 404, 544, 728, 994, 1014, 1047, 1349
AhlI ACTAGT 1 cut(s) 395
AjnI CCWGG 4 cut(s) 112, 316, 423, 814
Alw21I GWGCWC 1 cut(s) 814
Alw26I GTCTC 1 cut(s) 24
AlwI GGATC 2 cut(s) 521, 762
Ama87I CYCGRG 1 cut(s) 261
Aor13HI TCCGGA 1 cut(s) 580
AoxI GGCC 3 cut(s) 179, 265, 313
ApaI GGGCCC 1 cut(s) 183
ApeKI GCWGC 2 cut(s) 737, 1157
ApoI RAATTY 3 cut(s) 576, 659, 704
ArsI GACNNNNNNTTYG 2 cut(s) 322, 354
AspS9I GGNCC 4 cut(s) 155, 179, 180, 314
AsuHPI GGTGA 3 cut(s) 215, 536, 1384
AvaI CYCGRG 1 cut(s) 261
AvaII GGWCC 1 cut(s) 155
BaeGI GKGCMC 1 cut(s) 183
BanII GRGCYC 3 cut(s) 183, 814, 1356
BbsI GAAGAC 2 cut(s) 873, 969
Bbv12I GWGCWC 1 cut(s) 814
BbvI GCAGC 2 cut(s) 724, 1144
BccI CCATC 3 cut(s) 633, 947, 1376
BciT130I CCWGG 4 cut(s) 114, 318, 425, 816
BclI TGATCA 4 cut(s) 415, 553, 1242, 1359
BcoDI GTCTC 1 cut(s) 24
BcuI ACTAGT 1 cut(s) 395
BfaI CTAG 7 cut(s) 396, 747, 795, 804, 1008, 1041, 1161
BfrI CTTAAG 1 cut(s) 859
BfuAI ACCTGC 1 cut(s) 1103
BisI GCNGC 2 cut(s) 738, 1158
BlpI GCTNAGC 2 cut(s) 984, 1080
BlsI GCNGC 2 cut(s) 739, 1159
Bme1390I CCNGG 4 cut(s) 114, 318, 425, 816
Bme18I GGWCC 1 cut(s) 155
BmeT110I CYCGRG 1 cut(s) 261
BmgT120I GGNCC 4 cut(s) 155, 179, 180, 314
BmiI GGNNCC 3 cut(s) 156, 181, 1057
BmrFI CCNGG 4 cut(s) 114, 318, 425, 816
BmrI ACTGGG 1 cut(s) 771
BmsI GCATC 1 cut(s) 1183
BmuI ACTGGG 1 cut(s) 771
BpiI GAAGAC 2 cut(s) 873, 969
BpmI CTGGAG 1 cut(s) 798
Bpu1102I GCTNAGC 2 cut(s) 984, 1080
BsaI GGTCTC 1 cut(s) 24
BsaJI CCNNGG 3 cut(s) 262, 316, 1059
BsaWI WCCGGW 1 cut(s) 580
Bsc4I CCNNNNNNNGG 4 cut(s) 113, 322, 580, 1308
Bse1I ACTGG 2 cut(s) 766, 1095
Bse3DI GCAATG 1 cut(s) 259
BseAI TCCGGA 1 cut(s) 580
BseBI CCWGG 4 cut(s) 114, 318, 425, 816
BseDI CCNNGG 3 cut(s) 262, 316, 1059
BseGI GGATG 2 cut(s) 10, 1294
BseLI CCNNNNNNNGG 4 cut(s) 113, 322, 580, 1308
BseMI GCAATG 1 cut(s) 259
BseMII CTCAG 4 cut(s) 224, 365, 819, 998
BseNI ACTGG 2 cut(s) 766, 1095
BseRI GAGGAG 3 cut(s) 96, 800, 891
BseSI GKGCMC 1 cut(s) 183
BseXI GCAGC 2 cut(s) 724, 1144
BsgI GTGCAG 1 cut(s) 1131
BshFI GGCC 3 cut(s) 181, 267, 315
BsiHKAI GWGCWC 1 cut(s) 814
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 1 cut(s) 581
BslFI GGGAC 1 cut(s) 168
BslI CCNNNNNNNGG 4 cut(s) 113, 322, 580, 1308
BsmAI GTCTC 1 cut(s) 24
BsmFI GGGAC 1 cut(s) 168
BsnI GGCC 3 cut(s) 181, 267, 315
Bso31I GGTCTC 1 cut(s) 24
BsoBI CYCGRG 1 cut(s) 261
Bsp120I GGGCCC 1 cut(s) 179
Bsp1286I GDGCHC 3 cut(s) 183, 814, 1356
Bsp13I TCCGGA 1 cut(s) 580
Bsp143I GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
Bsp1720I GCTNAGC 2 cut(s) 984, 1080
BspANI GGCC 3 cut(s) 181, 267, 315
BspCNI CTCAG 4 cut(s) 223, 364, 820, 997
BspEI TCCGGA 1 cut(s) 580
BspLI GGNNCC 3 cut(s) 156, 181, 1057
BspMI ACCTGC 1 cut(s) 1103
BspPI GGATC 2 cut(s) 521, 762
BspQI GCTCTTC 2 cut(s) 802, 1344
BspTI CTTAAG 1 cut(s) 859
BspTNI GGTCTC 1 cut(s) 24
BsrDI GCAATG 1 cut(s) 259
BsrI ACTGG 2 cut(s) 766, 1095
BssECI CCNNGG 3 cut(s) 262, 316, 1059
BssMI GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
BssNAI GTATAC 1 cut(s) 645
BssT1I CCWWGG 1 cut(s) 1059
Bst1107I GTATAC 1 cut(s) 645
Bst2UI CCWGG 4 cut(s) 114, 318, 425, 816
Bst4CI ACNGT 5 cut(s) 73, 336, 445, 1130, 1283
Bst6I CTCTTC 2 cut(s) 802, 1344
BstAFI CTTAAG 1 cut(s) 859
BstC8I GCNNGC 5 cut(s) 250, 507, 597, 1003, 1437
BstDEI CTNAG 6 cut(s) 210, 351, 616, 828, 984, 1080
BstF5I GGATG 2 cut(s) 10, 1294
BstKTI GATC 7 cut(s) 31, 418, 529, 556, 757, 1245, 1362
BstMAI GTCTC 1 cut(s) 24
BstMBI GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
BstMWI GCNNNNNNNGC 3 cut(s) 626, 743, 1166
BstNI CCWGG 4 cut(s) 114, 318, 425, 816
BstNSI RCATGY 2 cut(s) 143, 1439
BstSCI CCNGG 4 cut(s) 112, 316, 423, 814
BstSLI GKGCMC 1 cut(s) 183
BstV1I GCAGC 2 cut(s) 724, 1144
BstV2I GAAGAC 2 cut(s) 873, 969
BstZ17I GTATAC 1 cut(s) 645
BsuRI GGCC 3 cut(s) 181, 267, 315
BtsCI GGATG 2 cut(s) 10, 1294
BtsIMutI CAGTG 5 cut(s) 78, 341, 523, 825, 1288
BveI ACCTGC 1 cut(s) 1103
Cac8I GCNNGC 5 cut(s) 250, 507, 597, 1003, 1437
Cfr13I GGNCC 4 cut(s) 155, 179, 180, 314
CsiI ACCWGGT 1 cut(s) 112
Csp6I GTAC 3 cut(s) 69, 715, 1299
CspCI CAANNNNNGTGG 2 cut(s) 181, 216
CviAII CATG 7 cut(s) 136, 140, 610, 656, 1246, 1277, 1436
CviQI GTAC 3 cut(s) 69, 715, 1299
DdeI CTNAG 6 cut(s) 210, 351, 616, 828, 984, 1080
DpnI GATC 7 cut(s) 30, 417, 528, 555, 756, 1244, 1361
DpnII GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
Eam1104I CTCTTC 2 cut(s) 802, 1344
EarI CTCTTC 2 cut(s) 802, 1344
Ecl136II GAGCTC 1 cut(s) 812
Eco130I CCWWGG 1 cut(s) 1059
Eco24I GRGCYC 3 cut(s) 183, 814, 1356
Eco31I GGTCTC 1 cut(s) 24
Eco47I GGWCC 1 cut(s) 155
Eco53kI GAGCTC 1 cut(s) 812
Eco57I CTGAAG 2 cut(s) 615, 963
Eco88I CYCGRG 1 cut(s) 261
EcoICRI GAGCTC 1 cut(s) 812
EcoO109I RGGNCCY 3 cut(s) 155, 179, 180
EcoRII CCWGG 4 cut(s) 112, 316, 423, 814
EcoT14I CCWWGG 1 cut(s) 1059
EcoT22I ATGCAT 1 cut(s) 141
EcoT38I GRGCYC 3 cut(s) 183, 814, 1356
ErhI CCWWGG 1 cut(s) 1059
FaeI CATG 7 cut(s) 139, 143, 613, 659, 1249, 1280, 1439
FaqI GGGAC 1 cut(s) 168
FatI CATG 7 cut(s) 135, 139, 609, 655, 1245, 1276, 1435
FbaI TGATCA 4 cut(s) 415, 553, 1242, 1359
FblI GTMKAC 2 cut(s) 644, 1341
Fnu4HI GCNGC 2 cut(s) 738, 1158
FokI GGATG 2 cut(s) 17, 1301
FriOI GRGCYC 3 cut(s) 183, 814, 1356
Fsp4HI GCNGC 2 cut(s) 738, 1158
FspBI CTAG 7 cut(s) 396, 747, 795, 804, 1008, 1041, 1161
GluI GCNGC 2 cut(s) 738, 1158
GsuI CTGGAG 1 cut(s) 798
HaeIII GGCC 3 cut(s) 181, 267, 315
HapII CCGG 1 cut(s) 581
Hin1II CATG 7 cut(s) 139, 143, 613, 659, 1249, 1280, 1439
HincII GTYRAC 1 cut(s) 341
HindII GTYRAC 1 cut(s) 341
HindIII AAGCTT 2 cut(s) 593, 627
HinfI GANTC 1 cut(s) 889
HpaII CCGG 1 cut(s) 581
HphI GGTGA 3 cut(s) 215, 536, 1384
Hpy166II GTNNAC 4 cut(s) 341, 645, 792, 1342
Hpy188I TCNGA 6 cut(s) 213, 634, 688, 759, 1020, 1144
Hpy188III TCNNGA 5 cut(s) 261, 581, 804, 886, 1259
Hpy8I GTNNAC 4 cut(s) 341, 645, 792, 1342
HpyAV CCTTC 2 cut(s) 1301, 1306
HpyCH4III ACNGT 5 cut(s) 73, 336, 445, 1130, 1283
HpyCH4IV ACGT 1 cut(s) 165
HpyF10VI GCNNNNNNNGC 3 cut(s) 626, 743, 1166
HpyF3I CTNAG 6 cut(s) 210, 351, 616, 828, 984, 1080
HpySE526I ACGT 1 cut(s) 165
Hsp92II CATG 7 cut(s) 139, 143, 613, 659, 1249, 1280, 1439
Kpn2I TCCGGA 1 cut(s) 580
Ksp22I TGATCA 4 cut(s) 415, 553, 1242, 1359
Kzo9I GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
LguI GCTCTTC 2 cut(s) 802, 1344
LmnI GCTCC 4 cut(s) 502, 817, 1055, 1201
Lsp1109I GCAGC 2 cut(s) 724, 1144
LweI GCATC 1 cut(s) 1183
MabI ACCWGGT 1 cut(s) 112
MaeI CTAG 7 cut(s) 396, 747, 795, 804, 1008, 1041, 1161
MaeII ACGT 1 cut(s) 165
MaeIII GTNAC 6 cut(s) 122, 166, 956, 1115, 1211, 1365
MalI GATC 7 cut(s) 30, 417, 528, 555, 756, 1244, 1361
MboI GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
MboII GAAGA 5 cut(s) 819, 878, 969, 1006, 1361
MfeI CAATTG 1 cut(s) 1216
MhlI GDGCHC 3 cut(s) 183, 814, 1356
MlyI GAGTC 1 cut(s) 883
MmeI TCCRAC 2 cut(s) 480, 1075
Mph1103I ATGCAT 1 cut(s) 141
MroI TCCGGA 1 cut(s) 580
MseI TTAA 4 cut(s) 162, 860, 1406, 1456
MslI CAYNNNNRTG 2 cut(s) 140, 1281
MspCI CTTAAG 1 cut(s) 859
MspI CCGG 1 cut(s) 581
MspR9I CCNGG 4 cut(s) 114, 318, 425, 816
MunI CAATTG 1 cut(s) 1216
MvaI CCWGG 4 cut(s) 114, 318, 425, 816
MwoI GCNNNNNNNGC 3 cut(s) 626, 743, 1166
NdeII GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
NlaIII CATG 7 cut(s) 139, 143, 613, 659, 1249, 1280, 1439
NlaIV GGNNCC 3 cut(s) 156, 181, 1057
NmuCI GTSAC 2 cut(s) 166, 1211
NsiI ATGCAT 1 cut(s) 141
NspI RCATGY 2 cut(s) 143, 1439
PaeI GCATGC 1 cut(s) 1439
PciSI GCTCTTC 2 cut(s) 802, 1344
PflFI GACNNNGTC 2 cut(s) 336, 1265
PkrI GCNGC 2 cut(s) 739, 1159
PleI GAGTC 1 cut(s) 883
PpsI GAGTC 1 cut(s) 883
PpuMI RGGWCCY 1 cut(s) 155
PsiI TTATAA 1 cut(s) 87
Psp124BI GAGCTC 1 cut(s) 814
Psp5II RGGWCCY 1 cut(s) 155
Psp6I CCWGG 4 cut(s) 112, 316, 423, 814
PspGI CCWGG 4 cut(s) 112, 316, 423, 814
PspN4I GGNNCC 3 cut(s) 156, 181, 1057
PspOMI GGGCCC 1 cut(s) 179
PspPI GGNCC 4 cut(s) 155, 179, 180, 314
PspPPI RGGWCCY 1 cut(s) 155
PsyI GACNNNGTC 2 cut(s) 336, 1265
RsaI GTAC 3 cut(s) 70, 716, 1300
RsaNI GTAC 3 cut(s) 69, 715, 1299
RseI CAYNNNNRTG 2 cut(s) 140, 1281
SacI GAGCTC 1 cut(s) 814
SapI GCTCTTC 2 cut(s) 802, 1344
SaqAI TTAA 4 cut(s) 162, 860, 1406, 1456
SatI GCNGC 2 cut(s) 738, 1158
Sau3AI GATC 7 cut(s) 28, 415, 526, 553, 754, 1242, 1359
Sau96I GGNCC 4 cut(s) 155, 179, 180, 314
SchI GAGTC 1 cut(s) 883
ScrFI CCNGG 4 cut(s) 114, 318, 425, 816
SduI GDGCHC 3 cut(s) 183, 814, 1356
SexAI ACCWGGT 1 cut(s) 112
SfaNI GCATC 1 cut(s) 1183
SinI GGWCC 1 cut(s) 155
SmiMI CAYNNNNRTG 2 cut(s) 140, 1281
SmlI CTYRAG 1 cut(s) 859
SmoI CTYRAG 1 cut(s) 859
SpeI ACTAGT 1 cut(s) 395
SphI GCATGC 1 cut(s) 1439
SspI AATATT 1 cut(s) 13
SspMI CTAG 7 cut(s) 396, 747, 795, 804, 1008, 1041, 1161
SstI GAGCTC 1 cut(s) 814
StyD4I CCNGG 4 cut(s) 112, 316, 423, 814
StyI CCWWGG 1 cut(s) 1059
TaaI ACNGT 5 cut(s) 73, 336, 445, 1130, 1283
TaiI ACGT 1 cut(s) 168
Tru1I TTAA 4 cut(s) 162, 860, 1406, 1456
Tru9I TTAA 4 cut(s) 162, 860, 1406, 1456
TscAI CASTG 5 cut(s) 78, 341, 523, 832, 1288
TseFI GTSAC 2 cut(s) 166, 1211
TseI GCWGC 2 cut(s) 737, 1157
Tsp45I GTSAC 2 cut(s) 166, 1211
TspDTI ATGAA 6 cut(s) 437, 500, 672, 838, 954, 1320
TspGWI ACGGA 1 cut(s) 1068
TspRI CASTG 5 cut(s) 78, 341, 523, 832, 1288
Tth111I GACNNNGTC 2 cut(s) 336, 1265
Vha464I CTTAAG 1 cut(s) 859
VpaK11BI GGWCC 1 cut(s) 155
XapI RAATTY 3 cut(s) 576, 659, 704
XbaI TCTAGA 1 cut(s) 803
XceI RCATGY 2 cut(s) 143, 1439
XcmI CCANNNNNNNNNTGG 2 cut(s) 241, 1031
XmiI GTMKAC 2 cut(s) 644, 1341
XspI CTAG 7 cut(s) 396, 747, 795, 804, 1008, 1041, 1161
Zsp2I ATGCAT 1 cut(s) 141
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.