FvH4_6g17710

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000385
Physical Location & Seq
Reverse (-)
11616591 .. 11618120
1530 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g17710.t1

Sequence Viewer

Length: 1530 bp
ATGGCATTGGTGAAAAGCGCAACAGCCAATGCCGGACTCAACATGGAGGGCGGCAATATTCAAAAAATTAGAGTCCCGGAGCCTAAGATGTTCAATGGAGAAAGGAATGCCAAAGGCTTGGAGAATTTTATATGGGACAACGAGCAATACTTCAAAACTGCTCGCATAGCGGAAGGGGAGAAAGTCTCAATGGCCTCAATGTACCTAGAAGGAGATGCAAAGTTATGGTGGAGAACGAGAGTGCAAGACGCGGAGGAGAATGAAGATGAGCACCTATTTGAAAATTGGGATGCTCTAAAGAGAGAATTAAGGAGTCAGTTTATGCCTTGCAACTCGGCATGGATGGCTCGTGAAGCATTAAAGAATCTAAGAATGGATTCCTCCATAAGAGAGTACGTCAAGGAGTTTTGTTCCTTGATGCTTGACATCCACAACATGGCAGAAGAAGACAAGCTATTTAGCTTCATGGCGGGATTACAACCTTGGGCAAAACAAGAACTACGAAGGCAAAACGTTGGGGATTTGCACTCTGCACTAGCCTTATCCGAAAGGTTGGTGGATTTTCGGACAAGCCCTGCATATTCAGACAAGAGGAGAGAGGCAAGCAAGAAATTCGGAGTTGACCCATTCCAAGAGCGTGGCAAGGGGCTAGAAAGTGGGAGAGGTTGTTACAAAACTGCCCACTCACCCACTACTTCCACAATGAGCAAATATAGGGTCACTACCCATGATCTTCCACACAACAAGGGGTTTACTTCATGCTTTATATGCAATGGACCTCATTTTGCGAAAAATTGCAGCCAAAAGCAAGCATTGAGTGCTCTAGTCTCAATTGCAAACAACATCAAAGAGAAAGAAACACAAGAAGATTCGGAGGCAATCATGAGTTCGATGGTGCTACTCAACACGTTGTCATTGGAGGGTGAGATGAAGCATGCAGATCTTGAGGTCTATGTTGATGTATTTGCCTATCACTATGGGCACTACACCATCATGTCCTCACTTGTCATTGAAGGGGACATCCTTTTCATTGACGAGATGATGCAATTTGACGATCCACTACTACCAACCTACACACTTGAGGAGGCGGAAGCTATTGCGGCAGCCAAGACCTTGAAGATGTGGGAAGAGCATTTGAAGGGAAGGAAATTCGAGCTATACACTAAGGTTTGGAGAGATATGCTCACCTTGAGCGTGTTTCCTCCTTTCCGAAGGTGGAGTGCACTTTATGAGGAGACCAAGCAAGTCATGAAGGACTATGAGTATGAATGGGTGATGAAGAGTGGAATACATGAGCAAATGAAGAAAGAAGACACAAATCTGCCGGATGTCATCGTCATAAGTGAAGACGAAGAAGAAGAGAGTCTCGAGAAGGAGACAAGCTTGGAAACCAACACTTGGACCGAGCATAAGAAGAATGAGCAAGCAGCAAACTGGCCTGCATGGGGAGAGCAAGAAAAGATGAACGAGGAGTCGTTATTCGACATCCTTGGTAAAAAAAATCACGGCAATCAGCCGAGGCTCAAGTAG
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
Asp_protease_2 Chromo RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

510

Amino Acids

58.95

Weight (kDa)

5.31

Isoelectric Point (pI)

45.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 64 - 161 1.2e-17 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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Orthologous Genes (Group: OG0000385)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23713 FvH4_1g25744 FvH4_2g00261 FvH4_2g00262 FvH4_2g15681 FvH4_2g17851 FvH4_2g35550 FvH4_3g05280 FvH4_3g10531 FvH4_3g25910 FvH4_3g28953 FvH4_3g33371 FvH4_3g33536 FvH4_3g36090 FvH4_4g03471 FvH4_4g03480 FvH4_4g06701 FvH4_4g19351 FvH4_4g34281 FvH4_5g00040 FvH4_5g03811 FvH4_5g03812 FvH4_5g11822 FvH4_5g30921 FvH4_5g31701 FvH4_6g12161 FvH4_6g15222 FvH4_6g15223 FvH4_6g17701 FvH4_6g17710 FvH4_6g19301 FvH4_6g33011 FvH4_6g34501 FvH4_6g50161 FvH4_7g04111 FvH4_7g04120 FvH4_7g04121 FvH4_7g04122 FvH4_7g04123 FvH4_7g28231 FvH4_c7g00010
malus_domestica MD12G1084200.v1.1
prunus_persica Prupe.1G206200_v2.0.a1 Prupe.8G085600_v2.0.a1
pyrus_communis pycom01g11080 pycom02g20500 pycom09g18370 pycom12555g00210 pycom13g23120 pycom14g10590 pycom16g17620 pycom16g22750
rosa_chinensis RchiOBHm_Chr2g0137481 RchiOBHm_Chr6g0251961 RchiOBHm_Chr7g0185821
rosa_laevigata RLG00000005585 RLG00000010281 RLG00000010912 RLG00000030342 RLG00000034281
rosa_multiflora Rmu_sc0000096.1_g000010 Rmu_sc0002481.1_g000045 Rmu_sc0003598.1_g000009 Rmu_sc0003863.1_g000019 Rmu_sc0003973.1_g000002 Rmu_sc0004823.1_g000050 Rmu_sc0005621.1_g000007 Rmu_sc0006537.1_g000030 Rmu_sc0006608.1_g000014 Rmu_sc0008506.1_g000007 Rmu_sc0014428.1_g000001 Rmu_sc0035437.1_g000001 Rmu_ssc0000396.1_g000022
rosa_roxburghii Rroxscaffold_175G00432300 Rroxscaffold_17G00435390 Rroxscaffold_27G00446590 Rroxscaffold_29G00441820 Rroxscaffold_31G00438110 Rroxscaffold_32G00442750 Rroxscaffold_33G00439810 Rroxscaffold_37G00445160 Rroxscaffold_4G00306500 Rroxscaffold_4G00327700 Rroxscaffold_4G00332630 Rroxscaffold_52G00439360 Rroxscaffold_63G00444420 Rroxscaffold_76G00448580 Rroxscaffold_7G00156270
rosa_rugosa Rorug03G0295200
rosa_samantha Rh1BG433700 Rh1CG115400 Rh2AG676300 Rh2CG341800 Rh2DG381400 Rh3BG370100 Rh3BG370200 Rh4AG441600 Rh4BG076500 Rh4BG107400 Rh5BG005600 Rh6BG010100 Rh7BG000200
rosa_wichuraiana Rw0G003820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 436, 1398
AccII CGCG 1 cut(s) 251
AciI CCGC 6 cut(s) 51, 170, 251, 470, 1088, 1100
AclI AACGTT 1 cut(s) 513
AclWI GGATC 1 cut(s) 1049
AcsI RAATTY 3 cut(s) 124, 611, 1148
AfaI GTAC 2 cut(s) 203, 395
AfiI CCNNNNNNNGG 3 cut(s) 436, 1398, 1445
AflIII ACRYGT 1 cut(s) 906
AgsI TTSAA 7 cut(s) 62, 94, 154, 281, 1013, 1117, 1138
AluBI AGCT 5 cut(s) 454, 462, 1094, 1156, 1383
AluI AGCT 5 cut(s) 454, 462, 1094, 1156, 1383
Alw21I GWGCWC 3 cut(s) 273, 823, 1225
Alw26I GTCTC 5 cut(s) 190, 832, 1229, 1370, 1370
Alw44I GTGCAC 1 cut(s) 1221
AlwI GGATC 1 cut(s) 1049
Ama87I CYCGRG 1 cut(s) 1367
AoxI GGCC 2 cut(s) 192, 1436
ApaLI GTGCAC 1 cut(s) 1221
ApeKI GCWGC 3 cut(s) 798, 1103, 1427
ApoI RAATTY 3 cut(s) 124, 611, 1148
ArsI GACNNNNNNTTYG 2 cut(s) 702, 734
Asp700I GAANNNNTTC 1 cut(s) 376
AspLEI GCGC 1 cut(s) 20
AspS9I GGNCC 2 cut(s) 776, 1401
AsuC2I CCSGG 1 cut(s) 77
AsuHPI GGTGA 5 cut(s) 22, 678, 935, 1177, 1285
AvaI CYCGRG 1 cut(s) 1367
AvaII GGWCC 2 cut(s) 776, 1401
BaeGI GKGCMC 2 cut(s) 984, 1225
BauI CACGAG 1 cut(s) 348
BbsI GAAGAC 3 cut(s) 453, 1317, 1353
Bbv12I GWGCWC 3 cut(s) 273, 823, 1225
BbvI GCAGC 3 cut(s) 810, 1115, 1439
BccI CCATC 3 cut(s) 337, 886, 998
BceAI ACGGC 1 cut(s) 1522
BcgI CGANNNNNNTGC 2 cut(s) 595, 629
BcnI CCSGG 1 cut(s) 77
BcoDI GTCTC 5 cut(s) 190, 832, 1229, 1370, 1370
BfaI CTAG 4 cut(s) 206, 536, 650, 824
BglII AGATCT 1 cut(s) 940
BisI GCNGC 5 cut(s) 52, 799, 1101, 1104, 1428
BlsI GCNGC 5 cut(s) 53, 800, 1102, 1105, 1429
Bme1390I CCNGG 1 cut(s) 77
Bme18I GGWCC 2 cut(s) 776, 1401
BmeT110I CYCGRG 1 cut(s) 1367
BmgT120I GGNCC 2 cut(s) 776, 1401
BmiI GGNNCC 1 cut(s) 81
BmrFI CCNGG 1 cut(s) 77
BmsI GCATC 4 cut(s) 205, 280, 408, 1032
BpiI GAAGAC 3 cut(s) 453, 1317, 1353
BplI GAGNNNNNCTC 4 cut(s) 170, 202, 1167, 1199
BpuEI CTTGAG 4 cut(s) 965, 1100, 1210, 1508
BpuMI CCSGG 1 cut(s) 77
BsaI GGTCTC 1 cut(s) 1229
BsaJI CCNNGG 3 cut(s) 482, 1489, 1517
BsaXI ACNNNNNCTCC 2 cut(s) 652, 682
Bsc4I CCNNNNNNNGG 3 cut(s) 436, 1398, 1445
Bse1I ACTGG 1 cut(s) 1439
Bse3DI GCAATG 1 cut(s) 778
BseDI CCNNGG 3 cut(s) 482, 1489, 1517
BseGI GGATG 6 cut(s) 295, 348, 426, 1020, 1333, 1485
BseLI CCNNNNNNNGG 3 cut(s) 436, 1398, 1445
BseMI GCAATG 1 cut(s) 778
BseNI ACTGG 1 cut(s) 1439
BseRI GAGGAG 5 cut(s) 269, 607, 1097, 1247, 1484
BseSI GKGCMC 2 cut(s) 984, 1225
BseXI GCAGC 3 cut(s) 810, 1115, 1439
BsgI GTGCAG 1 cut(s) 516
Bsh1236I CGCG 1 cut(s) 251
BshFI GGCC 2 cut(s) 194, 1438
BsiHKAI GWGCWC 3 cut(s) 273, 823, 1225
BsiHKCI CYCGRG 1 cut(s) 1367
BsiSI CCGG 3 cut(s) 33, 77, 1325
BslFI GGGAC 3 cut(s) 59, 149, 1031
BslI CCNNNNNNNGG 3 cut(s) 436, 1398, 1445
BsmAI GTCTC 5 cut(s) 190, 832, 1229, 1370, 1370
BsmFI GGGAC 3 cut(s) 59, 149, 1031
BsmI GAATGC 1 cut(s) 112
BsnI GGCC 2 cut(s) 194, 1438
Bso31I GGTCTC 1 cut(s) 1229
BsoBI CYCGRG 1 cut(s) 1367
Bsp1286I GDGCHC 4 cut(s) 273, 823, 984, 1225
Bsp143I GATC 3 cut(s) 730, 940, 1054
BspACI CCGC 6 cut(s) 51, 170, 251, 470, 1088, 1100
BspANI GGCC 2 cut(s) 194, 1438
BspFNI CGCG 1 cut(s) 251
BspHI TCATGA 2 cut(s) 882, 1248
BspLI GGNNCC 1 cut(s) 81
BspPI GGATC 1 cut(s) 1049
BspQI GCTCTTC 1 cut(s) 1122
BspTNI GGTCTC 1 cut(s) 1229
BsrDI GCAATG 1 cut(s) 778
BsrI ACTGG 1 cut(s) 1439
BssECI CCNNGG 3 cut(s) 482, 1489, 1517
BssMI GATC 3 cut(s) 730, 940, 1054
BssSI CACGAG 1 cut(s) 348
BssT1I CCWWGG 2 cut(s) 482, 1489
Bst2BI CACGAG 1 cut(s) 348
Bst6I CTCTTC 3 cut(s) 1122, 1274, 1353
BstAPI GCANNNNNTGC 1 cut(s) 818
BstC8I GCNNGC 6 cut(s) 163, 604, 810, 936, 1425, 1440
BstDEI CTNAG 3 cut(s) 84, 368, 1164
BstF5I GGATG 6 cut(s) 295, 348, 426, 1020, 1333, 1485
BstFNI CGCG 1 cut(s) 251
BstHHI GCGC 1 cut(s) 20
BstKTI GATC 3 cut(s) 733, 943, 1057
BstMAI GTCTC 5 cut(s) 190, 832, 1229, 1370, 1370
BstMBI GATC 3 cut(s) 730, 940, 1054
BstMWI GCNNNNNNNGC 6 cut(s) 167, 344, 353, 768, 818, 1100
BstNSI RCATGY 1 cut(s) 938
BstSCI CCNGG 1 cut(s) 75
BstSLI GKGCMC 2 cut(s) 984, 1225
BstUI CGCG 1 cut(s) 251
BstV1I GCAGC 3 cut(s) 810, 1115, 1439
BstV2I GAAGAC 3 cut(s) 453, 1317, 1353
BstX2I RGATCY 1 cut(s) 940
BstXI CCANNNNNNTGG 2 cut(s) 118, 638
BstYI RGATCY 1 cut(s) 940
BsuRI GGCC 2 cut(s) 194, 1438
BtsCI GGATG 6 cut(s) 295, 348, 426, 1020, 1333, 1485
Cac8I GCNNGC 6 cut(s) 163, 604, 810, 936, 1425, 1440
CciI TCATGA 2 cut(s) 882, 1248
CfoI GCGC 1 cut(s) 20
Cfr13I GGNCC 2 cut(s) 776, 1401
CseI GACGC 1 cut(s) 257
Csp6I GTAC 2 cut(s) 202, 394
CviQI GTAC 2 cut(s) 202, 394
DdeI CTNAG 3 cut(s) 84, 368, 1164
DpnI GATC 3 cut(s) 732, 942, 1056
DpnII GATC 3 cut(s) 730, 940, 1054
Eam1104I CTCTTC 3 cut(s) 1122, 1274, 1353
EarI CTCTTC 3 cut(s) 1122, 1274, 1353
EciI GGCGGA 1 cut(s) 1103
Eco130I CCWWGG 2 cut(s) 482, 1489
Eco31I GGTCTC 1 cut(s) 1229
Eco47I GGWCC 2 cut(s) 776, 1401
Eco88I CYCGRG 1 cut(s) 1367
EcoT14I CCWWGG 2 cut(s) 482, 1489
ErhI CCWWGG 2 cut(s) 482, 1489
FaqI GGGAC 3 cut(s) 59, 149, 1031
FauI CCCGC 1 cut(s) 463
Fnu4HI GCNGC 5 cut(s) 52, 799, 1101, 1104, 1428
FokI GGATG 6 cut(s) 302, 355, 413, 1007, 1340, 1472
Fsp4HI GCNGC 5 cut(s) 52, 799, 1101, 1104, 1428
FspBI CTAG 4 cut(s) 206, 536, 650, 824
GlaI GCGC 1 cut(s) 19
GluI GCNGC 5 cut(s) 52, 799, 1101, 1104, 1428
HaeIII GGCC 2 cut(s) 194, 1438
HapII CCGG 3 cut(s) 33, 77, 1325
HgaI GACGC 1 cut(s) 257
HhaI GCGC 1 cut(s) 20
Hin6I GCGC 1 cut(s) 18
HinP1I GCGC 1 cut(s) 18
HincII GTYRAC 1 cut(s) 622
HindII GTYRAC 1 cut(s) 622
HindIII AAGCTT 1 cut(s) 1381
HinfI GANTC 8 cut(s) 36, 72, 313, 364, 377, 869, 1363, 1472
HpaII CCGG 3 cut(s) 33, 77, 1325
HphI GGTGA 5 cut(s) 22, 678, 935, 1177, 1285
Hpy166II GTNNAC 3 cut(s) 622, 753, 1223
Hpy188I TCNGA 6 cut(s) 547, 567, 586, 617, 874, 1211
Hpy188III TCNNGA 6 cut(s) 350, 883, 944, 1249, 1367, 1369
Hpy8I GTNNAC 3 cut(s) 622, 753, 1223
HpyAV CCTTC 9 cut(s) 167, 203, 498, 1007, 1132, 1137, 1206, 1246, 1366
HpyCH4IV ACGT 3 cut(s) 396, 513, 908
HpyF10VI GCNNNNNNNGC 6 cut(s) 167, 344, 353, 768, 818, 1100
HpyF3I CTNAG 3 cut(s) 84, 368, 1164
HpySE526I ACGT 3 cut(s) 396, 513, 908
HspAI GCGC 1 cut(s) 18
Kzo9I GATC 3 cut(s) 730, 940, 1054
LguI GCTCTTC 1 cut(s) 1122
LmnI GCTCC 1 cut(s) 79
LpnPI CCDG 6 cut(s) 46, 90, 588, 1338, 1420, 1452
Lsp1109I GCAGC 3 cut(s) 810, 1115, 1439
LweI GCATC 4 cut(s) 205, 280, 408, 1032
MaeI CTAG 4 cut(s) 206, 536, 650, 824
MaeII ACGT 3 cut(s) 396, 513, 908
MaeIII GTNAC 2 cut(s) 668, 718
MalI GATC 3 cut(s) 732, 942, 1056
MboI GATC 3 cut(s) 730, 940, 1054
MfeI CAATTG 1 cut(s) 831
MflI RGATCY 1 cut(s) 940
MhlI GDGCHC 4 cut(s) 273, 823, 984, 1225
MluCI AATT 9 cut(s) 66, 124, 283, 305, 611, 793, 831, 1046, 1148
MlyI GAGTC 5 cut(s) 30, 81, 322, 1372, 1481
MroXI GAANNNNTTC 1 cut(s) 376
MseI TTAA 2 cut(s) 308, 359
MslI CAYNNNNRTG 1 cut(s) 992
MspI CCGG 3 cut(s) 33, 77, 1325
MspR9I CCNGG 1 cut(s) 77
MunI CAATTG 1 cut(s) 831
Mva1269I GAATGC 1 cut(s) 112
MvnI CGCG 1 cut(s) 251
MwoI GCNNNNNNNGC 6 cut(s) 167, 344, 353, 768, 818, 1100
NciI CCSGG 1 cut(s) 77
NdeII GATC 3 cut(s) 730, 940, 1054
NlaIV GGNNCC 1 cut(s) 81
NmeAIII GCCGAG 1 cut(s) 314
NmuCI GTSAC 1 cut(s) 718
NspI RCATGY 1 cut(s) 938
PaeI GCATGC 1 cut(s) 938
PaeR7I CTCGAG 1 cut(s) 1367
PagI TCATGA 2 cut(s) 882, 1248
PciSI GCTCTTC 1 cut(s) 1122
PctI GAATGC 1 cut(s) 112
PdmI GAANNNNTTC 1 cut(s) 376
PfeI GAWTC 3 cut(s) 364, 377, 869
PflMI CCANNNNNTGG 2 cut(s) 436, 1398
PfoI TCCNGGA 1 cut(s) 75
PkrI GCNGC 5 cut(s) 53, 800, 1102, 1105, 1429
PleI GAGTC 5 cut(s) 30, 80, 321, 1371, 1480
PpsI GAGTC 5 cut(s) 30, 80, 321, 1371, 1480
Psp1406I AACGTT 1 cut(s) 513
PspN4I GGNNCC 1 cut(s) 81
PspPI GGNCC 2 cut(s) 776, 1401
PsuI RGATCY 1 cut(s) 940
RsaI GTAC 2 cut(s) 203, 395
RsaNI GTAC 2 cut(s) 202, 394
RseI CAYNNNNRTG 1 cut(s) 992
SapI GCTCTTC 1 cut(s) 1122
SaqAI TTAA 2 cut(s) 308, 359
SatI GCNGC 5 cut(s) 52, 799, 1101, 1104, 1428
Sau3AI GATC 3 cut(s) 730, 940, 1054
Sau96I GGNCC 2 cut(s) 776, 1401
SchI GAGTC 5 cut(s) 30, 81, 322, 1372, 1481
ScrFI CCNGG 1 cut(s) 77
SduI GDGCHC 4 cut(s) 273, 823, 984, 1225
SfaNI GCATC 4 cut(s) 205, 280, 408, 1032
Sfr274I CTCGAG 1 cut(s) 1367
SinI GGWCC 2 cut(s) 776, 1401
SlaI CTCGAG 1 cut(s) 1367
SmiMI CAYNNNNRTG 1 cut(s) 992
SmlI CTYRAG 5 cut(s) 944, 1079, 1189, 1367, 1523
SmoI CTYRAG 5 cut(s) 944, 1079, 1189, 1367, 1523
SphI GCATGC 1 cut(s) 938
Sse9I AATT 9 cut(s) 66, 124, 283, 305, 611, 793, 831, 1046, 1148
SsiI CCGC 6 cut(s) 51, 170, 251, 470, 1088, 1100
SspI AATATT 1 cut(s) 58
SspMI CTAG 4 cut(s) 206, 536, 650, 824
StyD4I CCNGG 1 cut(s) 75
StyI CCWWGG 2 cut(s) 482, 1489
TaiI ACGT 3 cut(s) 399, 516, 911
TaqI TCGA 4 cut(s) 890, 1152, 1368, 1482
TaqII GACCGA 1 cut(s) 1418
TasI AATT 9 cut(s) 66, 124, 283, 305, 611, 793, 831, 1046, 1148
TauI GCSGC 2 cut(s) 54, 1103
TfiI GAWTC 3 cut(s) 364, 377, 869
Tru1I TTAA 2 cut(s) 308, 359
Tru9I TTAA 2 cut(s) 308, 359
TseFI GTSAC 1 cut(s) 718
TseI GCWGC 3 cut(s) 798, 1103, 1427
Tsp45I GTSAC 1 cut(s) 718
Van91I CCANNNNNTGG 2 cut(s) 436, 1398
VneI GTGCAC 1 cut(s) 1221
VpaK11BI GGWCC 2 cut(s) 776, 1401
XapI RAATTY 3 cut(s) 124, 611, 1148
XceI RCATGY 1 cut(s) 938
XhoI CTCGAG 1 cut(s) 1367
XmnI GAANNNNTTC 1 cut(s) 376
XspI CTAG 4 cut(s) 206, 536, 650, 824
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.