FvH4_3g10531

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000385
Physical Location & Seq
Forward (+)
6213594 .. 6214880
1287 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g10531.t1

Sequence Viewer

Length: 1014 bp
ATGGAAATCGAGCAAGGTACGTTCTCTCTCGATACTTGGGAAGAGTTCAAGAACGATATCAAGTTGCATTTCTATCCCCAAAATGCTCAATATGAGGCCAAGGAGAAGCTTAGGTGGCTAAAGCAAACCGGTAGCGTCAAGGATTATGTCAACACATTTGTCGACTTGCTATTCGAAGTACCCAACATGACGGAGGAGGACAAGCTCATATACTTCATGAGTGGATTACAAAGTTGGGCAAAGCTTGAGTTGCAAAGAAGACAAGTGCAAACCTTGTCACAAGCTATTGCCGCCGCCGAGTCCCTTATTGAGTTCAAAGCTAGCCACCAAGGTGACACCAAGTTCAAGGGGAAGAAGGTTAGCTATGAGAAAAGTGGGGGAGACGTGCCAAAGCTGAAGGAGAAGCCCGAGTCAAGCTACAAGCCGAAGGTGAAGAGGTTCGAGAAGCACGACAAGTCCGCAAACAAGACTTGGAAAATGAAGTGCTACTTATGCGACGGACCTCACATGATGCGCGACTGTCCTCAAAAGAAAGCCCTCAAAGCCATGACCTTGCAAGAGTCTAGGATCGAGGAAGAAGAAGACGATGCGTCAAGGATGGGATGCATCCGGTTGCTCAATGCCGTGAAGGCTAGCGTCCCTCGACCAAGGCAACAAGCGAAAGGTGGATCGCTTTACATCGATGTCAAGGTAAAAGACACGATGGTTCGTGCCTTGGTGGATTGCGGAGCAACTCATAACTTCATGACGTCGGAAGAAGCAAGGAAGCTTGGCCTCCGAGTCACGAAGGAGTCGGGCAATGTGAAGACGGTGAATACACCTGCCACGCCCATTGTTGGAGTAGCACGCGATGTGGAGGTACACATCGGCGCTTGGAAGGGGAAAATCGACTTCACCGTAGTCAAGATGGATGACTATGGCGTGGTAATCGGCCTTGAATTCATGGACAAGTTTGGGAGCATATATGACATTGAGATTCCGTTTGTTGTTGGTGCGTTTCGTTTTGGGTTATGA
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

338

Amino Acids

38.36

Weight (kDa)

8.82

Isoelectric Point (pI)

40.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 10 - 77 2e-11 Retrotransposon gag protein
Ty3_capsid PF19259 12 - 106 6.3e-09 Ty3 transposon capsid-like protein
Asp_protease PF09668 223 - 321 1.3e-08 Aspartyl protease
gag-asp_proteas PF13975 227 - 316 1.1e-10 gag-polyprotein putative aspartyl protease
Asp_protease_2 PF13650 228 - 314 2.3e-09 Aspartyl protease
RVP_2 PF08284 230 - 324 1.1e-06 Retroviral aspartyl protease
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AarI CACCTGC 1 cut(s) 829
AatII GACGTC 1 cut(s) 752
Acc36I ACCTGC 1 cut(s) 829
AccI GTMKAC 1 cut(s) 162
AccII CGCG 2 cut(s) 516, 849
AciI CCGC 4 cut(s) 291, 294, 459, 726
AclWI GGATC 2 cut(s) 575, 676
AcsI RAATTY 1 cut(s) 938
AcuI CTGAAG 1 cut(s) 416
AcyI GRCGYC 1 cut(s) 749
AfaI GTAC 3 cut(s) 19, 180, 861
AfiI CCNNNNNNNGG 1 cut(s) 836
AgeI ACCGGT 1 cut(s) 128
AgsI TTSAA 4 cut(s) 49, 316, 346, 938
AhdI GACNNNNNGTC 1 cut(s) 589
AjiI CACGTC 1 cut(s) 385
AleI CACNNNNGTG 1 cut(s) 330
AluBI AGCT 9 cut(s) 109, 205, 244, 284, 320, 363, 394, 417, 769
AluI AGCT 9 cut(s) 109, 205, 244, 284, 320, 363, 394, 417, 769
Alw26I GTCTC 1 cut(s) 375
AlwI GGATC 2 cut(s) 575, 676
Ama87I CYCGRG 1 cut(s) 407
AoxI GGCC 3 cut(s) 96, 772, 931
ApoI RAATTY 1 cut(s) 938
ArsI GACNNNNNNTTYG 2 cut(s) 155, 187
AsiGI ACCGGT 1 cut(s) 128
Asp700I GAANNNNTTC 1 cut(s) 437
AspLEI GCGC 2 cut(s) 516, 872
AspS9I GGNCC 1 cut(s) 500
AsuHPI GGTGA 4 cut(s) 344, 442, 823, 886
AsuII TTCGAA 1 cut(s) 174
AsuNHI GCTAGC 2 cut(s) 320, 632
AvaI CYCGRG 1 cut(s) 407
AvaII GGWCC 1 cut(s) 500
BbsI GAAGAC 3 cut(s) 265, 588, 812
BccI CCATC 3 cut(s) 592, 697, 901
BceAI ACGGC 1 cut(s) 608
BcoDI GTCTC 1 cut(s) 375
BfaI CTAG 3 cut(s) 321, 564, 633
BfoI RGCGCY 1 cut(s) 873
BfuAI ACCTGC 1 cut(s) 829
BglI GCCNNNNNGGC 1 cut(s) 629
BisI GCNGC 2 cut(s) 291, 294
BlsI GCNGC 2 cut(s) 292, 295
Bme18I GGWCC 1 cut(s) 500
BmeRI GACNNNNNGTC 1 cut(s) 589
BmeT110I CYCGRG 1 cut(s) 407
BmgBI CACGTC 1 cut(s) 385
BmgT120I GGNCC 1 cut(s) 500
BmsI GCATC 4 cut(s) 501, 577, 593, 615
BmtI GCTAGC 2 cut(s) 324, 636
BpiI GAAGAC 3 cut(s) 265, 588, 812
Bpu10I CCTNAGC 1 cut(s) 110
Bpu14I TTCGAA 1 cut(s) 174
BpuEI CTTGAG 1 cut(s) 266
Bsa29I ATCGAT 1 cut(s) 681
BsaHI GRCGYC 1 cut(s) 749
BsaJI CCNNGG 4 cut(s) 99, 328, 647, 714
BsaWI WCCGGW 2 cut(s) 128, 609
Bsc4I CCNNNNNNNGG 1 cut(s) 836
Bse118I RCCGGY 1 cut(s) 128
Bse3DI GCAATG 1 cut(s) 805
BseCI ATCGAT 1 cut(s) 681
BseDI CCNNGG 4 cut(s) 99, 328, 647, 714
BseGI GGATG 4 cut(s) 603, 606, 608, 916
BseLI CCNNNNNNNGG 1 cut(s) 836
BseMI GCAATG 1 cut(s) 805
BseRI GAGGAG 1 cut(s) 209
Bsh1236I CGCG 2 cut(s) 516, 849
BshFI GGCC 3 cut(s) 98, 774, 933
BshTI ACCGGT 1 cut(s) 128
BshVI ATCGAT 1 cut(s) 681
BsiHKCI CYCGRG 1 cut(s) 407
BsiSI CCGG 2 cut(s) 129, 610
BslFI GGGAC 2 cut(s) 286, 623
BslI CCNNNNNNNGG 1 cut(s) 836
BsmAI GTCTC 1 cut(s) 375
BsmBI CGTCTC 1 cut(s) 375
BsmFI GGGAC 2 cut(s) 286, 623
BsnI GGCC 3 cut(s) 98, 774, 933
BsoBI CYCGRG 1 cut(s) 407
Bsp119I TTCGAA 1 cut(s) 174
Bsp143I GATC 2 cut(s) 567, 668
BspACI CCGC 4 cut(s) 291, 294, 459, 726
BspANI GGCC 3 cut(s) 98, 774, 933
BspDI ATCGAT 1 cut(s) 681
BspFNI CGCG 2 cut(s) 516, 849
BspHI TCATGA 2 cut(s) 216, 744
BspMI ACCTGC 1 cut(s) 829
BspOI GCTAGC 2 cut(s) 324, 636
BspPI GGATC 2 cut(s) 575, 676
BspT104I TTCGAA 1 cut(s) 174
BsrDI GCAATG 1 cut(s) 805
BsrFI RCCGGY 1 cut(s) 128
BssAI RCCGGY 1 cut(s) 128
BssECI CCNNGG 4 cut(s) 99, 328, 647, 714
BssMI GATC 2 cut(s) 567, 668
BssNI GRCGYC 1 cut(s) 749
BssT1I CCWWGG 4 cut(s) 99, 328, 647, 714
Bst4CI ACNGT 3 cut(s) 521, 811, 898
Bst6I CTCTTC 2 cut(s) 36, 428
BstACI GRCGYC 1 cut(s) 749
BstBI TTCGAA 1 cut(s) 174
BstC8I GCNNGC 3 cut(s) 322, 634, 847
BstDEI CTNAG 1 cut(s) 110
BstF5I GGATG 4 cut(s) 603, 606, 608, 916
BstFNI CGCG 2 cut(s) 516, 849
BstH2I RGCGCY 1 cut(s) 873
BstHHI GCGC 2 cut(s) 516, 872
BstKTI GATC 2 cut(s) 570, 671
BstMAI GTCTC 1 cut(s) 375
BstMBI GATC 2 cut(s) 567, 668
BstMWI GCNNNNNNNGC 6 cut(s) 115, 250, 290, 492, 542, 629
BstUI CGCG 2 cut(s) 516, 849
BstV2I GAAGAC 3 cut(s) 265, 588, 812
Bsu15I ATCGAT 1 cut(s) 681
BsuRI GGCC 3 cut(s) 98, 774, 933
BsuTUI ATCGAT 1 cut(s) 681
BtgZI GCGATG 1 cut(s) 864
BtrI CACGTC 1 cut(s) 385
BtsCI GGATG 4 cut(s) 603, 606, 608, 916
BveI ACCTGC 1 cut(s) 829
Cac8I GCNNGC 3 cut(s) 322, 634, 847
CciI TCATGA 2 cut(s) 216, 744
CfoI GCGC 2 cut(s) 516, 872
Cfr10I RCCGGY 1 cut(s) 128
Cfr13I GGNCC 1 cut(s) 500
ClaI ATCGAT 1 cut(s) 681
CseI GACGC 3 cut(s) 124, 579, 625
Csp6I GTAC 3 cut(s) 18, 179, 860
CspAI ACCGGT 1 cut(s) 128
CspCI CAANNNNNGTGG 2 cut(s) 814, 849
CviAII CATG 6 cut(s) 187, 217, 508, 547, 745, 943
CviQI GTAC 3 cut(s) 18, 179, 860
DdeI CTNAG 1 cut(s) 110
DpnI GATC 2 cut(s) 569, 670
DpnII GATC 2 cut(s) 567, 668
DriI GACNNNNNGTC 1 cut(s) 589
Eam1104I CTCTTC 2 cut(s) 36, 428
Eam1105I GACNNNNNGTC 1 cut(s) 589
EarI CTCTTC 2 cut(s) 36, 428
Eco130I CCWWGG 4 cut(s) 99, 328, 647, 714
Eco32I GATATC 1 cut(s) 58
Eco47I GGWCC 1 cut(s) 500
Eco57I CTGAAG 1 cut(s) 416
Eco88I CYCGRG 1 cut(s) 407
EcoRI GAATTC 1 cut(s) 938
EcoRV GATATC 1 cut(s) 58
EcoT14I CCWWGG 4 cut(s) 99, 328, 647, 714
EcoT22I ATGCAT 1 cut(s) 608
ErhI CCWWGG 4 cut(s) 99, 328, 647, 714
Esp3I CGTCTC 1 cut(s) 375
FaeI CATG 6 cut(s) 190, 220, 511, 550, 748, 946
FalI AAGNNNNNCTT 2 cut(s) 473, 505
FaqI GGGAC 2 cut(s) 286, 623
FatI CATG 6 cut(s) 186, 216, 507, 546, 744, 942
FblI GTMKAC 1 cut(s) 162
Fnu4HI GCNGC 2 cut(s) 291, 294
FokI GGATG 4 cut(s) 593, 610, 615, 923
Fsp4HI GCNGC 2 cut(s) 291, 294
FspBI CTAG 3 cut(s) 321, 564, 633
GlaI GCGC 2 cut(s) 515, 871
GluI GCNGC 2 cut(s) 291, 294
HaeII RGCGCY 1 cut(s) 873
HaeIII GGCC 3 cut(s) 98, 774, 933
HapII CCGG 2 cut(s) 129, 610
HgaI GACGC 3 cut(s) 124, 579, 625
HhaI GCGC 2 cut(s) 516, 872
Hin1I GRCGYC 1 cut(s) 749
Hin1II CATG 6 cut(s) 190, 220, 511, 550, 748, 946
Hin6I GCGC 2 cut(s) 514, 870
HinP1I GCGC 2 cut(s) 514, 870
HincII GTYRAC 2 cut(s) 151, 163
HindII GTYRAC 2 cut(s) 151, 163
HindIII AAGCTT 3 cut(s) 107, 242, 767
HinfI GANTC 6 cut(s) 299, 410, 560, 780, 791, 976
HpaII CCGG 2 cut(s) 129, 610
HphI GGTGA 4 cut(s) 344, 442, 823, 886
Hpy166II GTNNAC 3 cut(s) 151, 163, 862
Hpy188I TCNGA 2 cut(s) 754, 779
Hpy188III TCNNGA 7 cut(s) 29, 49, 217, 442, 745, 784, 904
Hpy8I GTNNAC 3 cut(s) 151, 163, 862
Hpy99I CGWCG 2 cut(s) 500, 754
HpyAV CCTTC 6 cut(s) 349, 391, 421, 622, 781, 871
HpyCH4III ACNGT 3 cut(s) 521, 811, 898
HpyCH4IV ACGT 3 cut(s) 20, 384, 749
HpyCH4V TGCA 5 cut(s) 67, 253, 268, 556, 606
HpyF10VI GCNNNNNNNGC 6 cut(s) 115, 250, 290, 492, 542, 629
HpyF3I CTNAG 1 cut(s) 110
HpySE526I ACGT 3 cut(s) 20, 384, 749
Hsp92I GRCGYC 1 cut(s) 749
Hsp92II CATG 6 cut(s) 190, 220, 511, 550, 748, 946
HspAI GCGC 2 cut(s) 514, 870
Kzo9I GATC 2 cut(s) 567, 668
LmnI GCTCC 2 cut(s) 728, 957
LpnPI CCDG 3 cut(s) 142, 623, 834
LweI GCATC 4 cut(s) 501, 577, 593, 615
MaeI CTAG 3 cut(s) 321, 564, 633
MaeII ACGT 3 cut(s) 20, 384, 749
MaeIII GTNAC 3 cut(s) 276, 332, 781
MalI GATC 2 cut(s) 569, 670
MboI GATC 2 cut(s) 567, 668
MboII GAAGA 9 cut(s) 53, 270, 364, 445, 587, 590, 593, 767, 817
MluCI AATT 1 cut(s) 938
MlyI GAGTC 5 cut(s) 308, 419, 569, 789, 800
MmeI TCCRAC 2 cut(s) 732, 817
Mph1103I ATGCAT 1 cut(s) 608
MroXI GAANNNNTTC 1 cut(s) 437
MslI CAYNNNNRTG 1 cut(s) 330
MspI CCGG 2 cut(s) 129, 610
MvnI CGCG 2 cut(s) 516, 849
MwoI GCNNNNNNNGC 6 cut(s) 115, 250, 290, 492, 542, 629
NdeII GATC 2 cut(s) 567, 668
NheI GCTAGC 2 cut(s) 320, 632
NlaIII CATG 6 cut(s) 190, 220, 511, 550, 748, 946
NmeAIII GCCGAG 1 cut(s) 322
NmuCI GTSAC 3 cut(s) 276, 332, 781
NsiI ATGCAT 1 cut(s) 608
NspV TTCGAA 1 cut(s) 174
OliI CACNNNNGTG 1 cut(s) 330
PagI TCATGA 2 cut(s) 216, 744
PaqCI CACCTGC 1 cut(s) 829
PcsI WCGNNNNNNNCGW 2 cut(s) 447, 894
PdmI GAANNNNTTC 1 cut(s) 437
PfeI GAWTC 1 cut(s) 976
PinAI ACCGGT 1 cut(s) 128
PkrI GCNGC 2 cut(s) 292, 295
PleI GAGTC 5 cut(s) 307, 418, 568, 788, 799
PpsI GAGTC 5 cut(s) 307, 418, 568, 788, 799
PspPI GGNCC 1 cut(s) 500
RsaI GTAC 3 cut(s) 19, 180, 861
RsaNI GTAC 3 cut(s) 18, 179, 860
RseI CAYNNNNRTG 1 cut(s) 330
SalI GTCGAC 1 cut(s) 161
SatI GCNGC 2 cut(s) 291, 294
Sau3AI GATC 2 cut(s) 567, 668
Sau96I GGNCC 1 cut(s) 500
SchI GAGTC 5 cut(s) 308, 419, 569, 789, 800
SfaNI GCATC 4 cut(s) 501, 577, 593, 615
SfuI TTCGAA 1 cut(s) 174
SinI GGWCC 1 cut(s) 500
SmiMI CAYNNNNRTG 1 cut(s) 330
SmlI CTYRAG 1 cut(s) 245
SmoI CTYRAG 1 cut(s) 245
Sse9I AATT 1 cut(s) 938
SsiI CCGC 4 cut(s) 291, 294, 459, 726
SspMI CTAG 3 cut(s) 321, 564, 633
StyI CCWWGG 4 cut(s) 99, 328, 647, 714
TaaI ACNGT 3 cut(s) 521, 811, 898
TaiI ACGT 3 cut(s) 23, 387, 752
TaqI TCGA 9 cut(s) 9, 30, 162, 174, 441, 570, 643, 681, 888
TasI AATT 1 cut(s) 938
TauI GCSGC 2 cut(s) 293, 296
TfiI GAWTC 1 cut(s) 976
TseFI GTSAC 3 cut(s) 276, 332, 781
Tsp45I GTSAC 3 cut(s) 276, 332, 781
TspDTI ATGAA 4 cut(s) 205, 494, 733, 931
TspGWI ACGGA 3 cut(s) 206, 513, 969
VpaK11BI GGWCC 1 cut(s) 500
XapI RAATTY 1 cut(s) 938
XmiI GTMKAC 1 cut(s) 162
XmnI GAANNNNTTC 1 cut(s) 437
XspI CTAG 3 cut(s) 321, 564, 633
ZraI GACGTC 1 cut(s) 750
Zsp2I ATGCAT 1 cut(s) 608
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.