FvH4_5g03811

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0000385
Physical Location & Seq
Forward (+)
2271477 .. 2272166
690 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g03811.t1

Sequence Viewer

Length: 501 bp
ATGGAAAGGTACTTCAAGTATCTAAAGCTTGAGGATGACGAGTCCAAAATTTCAACAGCTACCATGTTCTTGGCCGACAATGCCCTTATGTGGTGGCGTCGAAGGAGCATGGAAATCGAGCAAGCCAAGGAGAAGCTTAGGTGGCTAAAGCAAACGGGTAGCGTCAAGGATTATGTTAACACATTTATTAACTTATTATTCGAAGTGCCCCACATGACGGAGGAGAACAAGCTCATATACTTCATGAGTGGATTACAAAGTTGGGCAAAGCTTGAGTTGCAAAGAAGACAAGTGCAGACCTTGTCACAAGCCATTGCCTCAGTCAAGTCCCTTATTGAATTCAAAGCTAGCCACCAAGGCGACACAAAGTTCAAGGGGAAGAAGGTTAACTATGAGAAAAGTGGGGGAGACGTGCCAAAGCCGAAGGAGAAGCCCGAGTCAAGCTACAAGCCAAAGGTGAAGAGGTTCGAGAAGCACGACAAGTCCGCAAATAAGACTTAG
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 RVP_2 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

167

Amino Acids

19.58

Weight (kDa)

9.68

Isoelectric Point (pI)

50.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 36 - 86 4.1e-06 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)
AciI CCGC 1 cut(s) 486
AcoI YGGCCR 1 cut(s) 72
AcsI RAATTY 2 cut(s) 48, 338
AcyI GRCGYC 1 cut(s) 97
AfaI GTAC 1 cut(s) 11
AfiI CCNNNNNNNGG 2 cut(s) 90, 217
AgsI TTSAA 5 cut(s) 16, 54, 338, 343, 373
AjiI CACGTC 1 cut(s) 412
AluBI AGCT 7 cut(s) 28, 59, 136, 232, 271, 347, 444
AluI AGCT 7 cut(s) 28, 59, 136, 232, 271, 347, 444
Alw26I GTCTC 1 cut(s) 402
Ama87I CYCGRG 1 cut(s) 434
AoxI GGCC 1 cut(s) 72
ApoI RAATTY 2 cut(s) 48, 338
Asp700I GAANNNNTTC 1 cut(s) 464
AsuHPI GGTGA 1 cut(s) 469
AsuII TTCGAA 1 cut(s) 201
AsuNHI GCTAGC 1 cut(s) 347
AvaI CYCGRG 1 cut(s) 434
BaeGI GKGCMC 1 cut(s) 210
BbsI GAAGAC 1 cut(s) 292
BcgI CGANNNNNNTGC 2 cut(s) 97, 131
BcoDI GTCTC 1 cut(s) 402
BfaI CTAG 1 cut(s) 348
BglI GCCNNNNNGGC 1 cut(s) 357
BmeT110I CYCGRG 1 cut(s) 434
BmgBI CACGTC 1 cut(s) 412
BmtI GCTAGC 1 cut(s) 351
BpiI GAAGAC 1 cut(s) 292
Bpu10I CCTNAGC 1 cut(s) 137
Bpu14I TTCGAA 1 cut(s) 201
BpuEI CTTGAG 2 cut(s) 50, 293
BsaHI GRCGYC 1 cut(s) 97
BsaJI CCNNGG 2 cut(s) 126, 355
Bsc4I CCNNNNNNNGG 2 cut(s) 90, 217
Bse3DI GCAATG 1 cut(s) 312
BseDI CCNNGG 2 cut(s) 126, 355
BseGI GGATG 1 cut(s) 40
BseLI CCNNNNNNNGG 2 cut(s) 90, 217
BseMI GCAATG 1 cut(s) 312
BseMII CTCAG 1 cut(s) 333
BseRI GAGGAG 1 cut(s) 236
BseSI GKGCMC 1 cut(s) 210
BsgI GTGCAG 1 cut(s) 314
BshFI GGCC 1 cut(s) 74
BsiHKCI CYCGRG 1 cut(s) 434
BslFI GGGAC 1 cut(s) 313
BslI CCNNNNNNNGG 2 cut(s) 90, 217
BsmAI GTCTC 1 cut(s) 402
BsmBI CGTCTC 1 cut(s) 402
BsmFI GGGAC 1 cut(s) 313
BsnI GGCC 1 cut(s) 74
BsoBI CYCGRG 1 cut(s) 434
Bsp119I TTCGAA 1 cut(s) 201
Bsp1286I GDGCHC 1 cut(s) 210
BspACI CCGC 1 cut(s) 486
BspANI GGCC 1 cut(s) 74
BspCNI CTCAG 1 cut(s) 332
BspHI TCATGA 1 cut(s) 243
BspOI GCTAGC 1 cut(s) 351
BspT104I TTCGAA 1 cut(s) 201
BsrDI GCAATG 1 cut(s) 312
BssECI CCNNGG 2 cut(s) 126, 355
BssNI GRCGYC 1 cut(s) 97
BssT1I CCWWGG 2 cut(s) 126, 355
Bst6I CTCTTC 1 cut(s) 455
BstACI GRCGYC 1 cut(s) 97
BstBI TTCGAA 1 cut(s) 201
BstC8I GCNNGC 2 cut(s) 123, 349
BstDEI CTNAG 3 cut(s) 137, 319, 498
BstF5I GGATG 1 cut(s) 40
BstMAI GTCTC 1 cut(s) 402
BstMWI GCNNNNNNNGC 4 cut(s) 80, 142, 277, 357
BstSLI GKGCMC 1 cut(s) 210
BstV2I GAAGAC 1 cut(s) 292
BstXI CCANNNNNNTGG 1 cut(s) 70
BsuRI GGCC 1 cut(s) 74
BtrI CACGTC 1 cut(s) 412
BtsCI GGATG 1 cut(s) 40
Cac8I GCNNGC 2 cut(s) 123, 349
CciI TCATGA 1 cut(s) 243
CseI GACGC 2 cut(s) 86, 151
Csp6I GTAC 1 cut(s) 10
CviAII CATG 4 cut(s) 64, 109, 214, 244
CviQI GTAC 1 cut(s) 10
DdeI CTNAG 3 cut(s) 137, 319, 498
EaeI YGGCCR 1 cut(s) 72
Eam1104I CTCTTC 1 cut(s) 455
EarI CTCTTC 1 cut(s) 455
Eco130I CCWWGG 2 cut(s) 126, 355
Eco88I CYCGRG 1 cut(s) 434
EcoRI GAATTC 1 cut(s) 338
EcoT14I CCWWGG 2 cut(s) 126, 355
ErhI CCWWGG 2 cut(s) 126, 355
Esp3I CGTCTC 1 cut(s) 402
FaeI CATG 4 cut(s) 67, 112, 217, 247
FaiI YATR 9 cut(s) 65, 89, 110, 174, 215, 236, 238, 245, 393
FaqI GGGAC 1 cut(s) 313
FatI CATG 4 cut(s) 63, 108, 213, 243
FokI GGATG 1 cut(s) 47
FspBI CTAG 1 cut(s) 348
HaeIII GGCC 1 cut(s) 74
HgaI GACGC 2 cut(s) 86, 151
Hin1I GRCGYC 1 cut(s) 97
Hin1II CATG 4 cut(s) 67, 112, 217, 247
HincII GTYRAC 2 cut(s) 178, 388
HindII GTYRAC 2 cut(s) 178, 388
HindIII AAGCTT 3 cut(s) 26, 134, 269
HinfI GANTC 2 cut(s) 41, 437
HpaI GTTAAC 2 cut(s) 178, 388
HphI GGTGA 1 cut(s) 469
Hpy166II GTNNAC 2 cut(s) 178, 388
Hpy188III TCNNGA 2 cut(s) 244, 469
Hpy8I GTNNAC 2 cut(s) 178, 388
Hpy99I CGWCG 1 cut(s) 102
HpyAV CCTTC 3 cut(s) 96, 376, 418
HpyCH4IV ACGT 1 cut(s) 411
HpyCH4V TGCA 2 cut(s) 280, 295
HpyF10VI GCNNNNNNNGC 4 cut(s) 80, 142, 277, 357
HpyF3I CTNAG 3 cut(s) 137, 319, 498
HpySE526I ACGT 1 cut(s) 411
Hsp92I GRCGYC 1 cut(s) 97
Hsp92II CATG 4 cut(s) 67, 112, 217, 247
KspAI GTTAAC 2 cut(s) 178, 388
LmnI GCTCC 1 cut(s) 105
MaeI CTAG 1 cut(s) 348
MaeII ACGT 1 cut(s) 411
MaeIII GTNAC 1 cut(s) 303
MboII GAAGA 3 cut(s) 297, 391, 472
MhlI GDGCHC 1 cut(s) 210
MluCI AATT 2 cut(s) 48, 338
MlyI GAGTC 2 cut(s) 50, 446
MnlI CCTC 4 cut(s) 25, 214, 328, 456
MroXI GAANNNNTTC 1 cut(s) 464
MseI TTAA 3 cut(s) 177, 189, 387
MwoI GCNNNNNNNGC 4 cut(s) 80, 142, 277, 357
NheI GCTAGC 1 cut(s) 347
NlaIII CATG 4 cut(s) 67, 112, 217, 247
NmuCI GTSAC 1 cut(s) 303
NspV TTCGAA 1 cut(s) 201
PagI TCATGA 1 cut(s) 243
PcsI WCGNNNNNNNCGW 1 cut(s) 474
PdmI GAANNNNTTC 1 cut(s) 464
PflFI GACNNNGTC 1 cut(s) 301
PleI GAGTC 2 cut(s) 49, 445
PpsI GAGTC 2 cut(s) 49, 445
PsyI GACNNNGTC 1 cut(s) 301
RsaI GTAC 1 cut(s) 11
RsaNI GTAC 1 cut(s) 10
SaqAI TTAA 3 cut(s) 177, 189, 387
SchI GAGTC 2 cut(s) 50, 446
SduI GDGCHC 1 cut(s) 210
SfuI TTCGAA 1 cut(s) 201
SmlI CTYRAG 2 cut(s) 29, 272
SmoI CTYRAG 2 cut(s) 29, 272
Sse9I AATT 2 cut(s) 48, 338
SsiI CCGC 1 cut(s) 486
SspMI CTAG 1 cut(s) 348
StyI CCWWGG 2 cut(s) 126, 355
TaiI ACGT 1 cut(s) 414
TaqI TCGA 4 cut(s) 100, 117, 201, 468
TasI AATT 2 cut(s) 48, 338
Tru1I TTAA 3 cut(s) 177, 189, 387
Tru9I TTAA 3 cut(s) 177, 189, 387
TseFI GTSAC 1 cut(s) 303
Tsp45I GTSAC 1 cut(s) 303
TspDTI ATGAA 1 cut(s) 232
TspGWI ACGGA 1 cut(s) 233
Tth111I GACNNNGTC 1 cut(s) 301
XapI RAATTY 2 cut(s) 48, 338
XmnI GAANNNNTTC 1 cut(s) 464
XspI CTAG 1 cut(s) 348
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.