FvH4_3g28953

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000385
Physical Location & Seq
Forward (+)
22055804 .. 22056971
1168 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g28953.t1

Sequence Viewer

Length: 684 bp
ATGGATGACTTCAAAGTCGTCTTGGGGTTGGAATTTCACGATCAAGTCAAGGCAATCCCGGTGCCTTTCGCCAACAGCTTGTGCATCACGGAAGACGACAAGGTTTGTGTAGTGCCAACAACTAGAGGCACAAAGCAAGACTTGAAGGTGTTGTCGGCGTTACAATTTAAGAAAGGCATCAAGAAGGAAGAGGAAAGCTATTTGGCCATCCTTAGCGAGTTTGGCGATGATGAGCCAAGACCCCAAGATGACATGCCCAAGGAGGTAGCAGCAGTTTTTGAGGAGTTCAAAGATGTTTCACCAGCCGAGCTGCCTAAGAAACTACCCCCAAGGACAGAAATAGACCATGAGATAGAGCTGGAACCAGACCTTGGAGGAGCATGTAGAGCACTTGAGGGAAGTGTTCAAAGTGCTACGGGGTTGAACGAGCTATACATCAAAAAGGAGAAGTGCTCCTTTGCTAAGCCGGAGGTGTTGTTCTTGGGACACAAGATCAAGGACGGCAAGCTAATGATTGAGGATTGCAAGGTTCATGCCATTCAAGAGTGGGAACCACCCACCAAGGTGCATGAGTTGAGGTCTTTTTTTAGGCTAGTGAACTACTACCGCCGCTTCATCAAGGGCTATTCGGTGAGAGCCGCTCGATTAACCGACCTTCTCAAGAAAAACAAGGCATGGGATTGA
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

228

Amino Acids

25.88

Weight (kDa)

5.85

Isoelectric Point (pI)

44.38

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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
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)
AasI GACNNNNNNGTC 1 cut(s) 14
AccB1I GGYRCC 1 cut(s) 61
AccB7I CCANNNNNTGG 1 cut(s) 371
AccBSI CCGCTC 1 cut(s) 641
AciI CCGC 3 cut(s) 607, 610, 639
AcoI YGGCCR 1 cut(s) 204
AcsI RAATTY 1 cut(s) 32
AfiI CCNNNNNNNGG 1 cut(s) 371
AgsI TTSAA 6 cut(s) 13, 145, 289, 407, 424, 542
AjuI GAANNNNNNNTTGG 2 cut(s) 354, 386
AleI CACNNNNGTG 1 cut(s) 563
AloI GAACNNNNNNTCC 2 cut(s) 461, 493
AluBI AGCT 6 cut(s) 78, 198, 310, 358, 430, 508
AluI AGCT 6 cut(s) 78, 198, 310, 358, 430, 508
Alw21I GWGCWC 2 cut(s) 391, 455
AoxI GGCC 1 cut(s) 204
ApeKI GCWGC 2 cut(s) 269, 310
ApoI RAATTY 1 cut(s) 32
AsuC2I CCSGG 1 cut(s) 59
AsuHPI GGTGA 2 cut(s) 291, 643
BalI TGGCCA 1 cut(s) 206
BanI GGYRCC 1 cut(s) 61
BbsI GAAGAC 1 cut(s) 99
Bbv12I GWGCWC 2 cut(s) 391, 455
BbvI GCAGC 2 cut(s) 281, 297
BccI CCATC 1 cut(s) 215
BceAI ACGGC 1 cut(s) 517
BcnI CCSGG 1 cut(s) 59
BfaI CTAG 2 cut(s) 123, 593
BisI GCNGC 4 cut(s) 270, 311, 610, 639
BlpI GCTNAGC 1 cut(s) 462
BlsI GCNGC 4 cut(s) 271, 312, 611, 640
Bme1390I CCNGG 1 cut(s) 59
BmiI GGNNCC 3 cut(s) 63, 363, 552
BmrFI CCNGG 1 cut(s) 59
BmsI GCATC 2 cut(s) 93, 186
BpiI GAAGAC 1 cut(s) 99
BplI GAGNNNNNCTC 4 cut(s) 437, 469, 625, 657
Bpu10I CCTNAGC 1 cut(s) 212
Bpu1102I GCTNAGC 1 cut(s) 462
BpuEI CTTGAG 2 cut(s) 413, 644
BpuMI CCSGG 1 cut(s) 59
BsaJI CCNNGG 4 cut(s) 258, 329, 370, 561
BsaXI ACNNNNNCTCC 2 cut(s) 461, 491
Bsc4I CCNNNNNNNGG 1 cut(s) 371
BseDI CCNNGG 4 cut(s) 258, 329, 370, 561
BseGI GGATG 2 cut(s) 10, 207
BseLI CCNNNNNNNGG 1 cut(s) 371
BseRI GAGGAG 2 cut(s) 296, 390
BseXI GCAGC 2 cut(s) 281, 297
BshFI GGCC 1 cut(s) 206
BshNI GGYRCC 1 cut(s) 61
BsiHKAI GWGCWC 2 cut(s) 391, 455
BsiSI CCGG 2 cut(s) 59, 467
BslFI GGGAC 1 cut(s) 498
BslI CCNNNNNNNGG 1 cut(s) 371
BsmFI GGGAC 1 cut(s) 498
BsnI GGCC 1 cut(s) 206
Bsp1286I GDGCHC 2 cut(s) 391, 455
Bsp143I GATC 2 cut(s) 40, 492
Bsp1720I GCTNAGC 1 cut(s) 462
BspACI CCGC 3 cut(s) 607, 610, 639
BspANI GGCC 1 cut(s) 206
BspLI GGNNCC 3 cut(s) 63, 363, 552
BspT107I GGYRCC 1 cut(s) 61
BsrBI CCGCTC 1 cut(s) 641
BssECI CCNNGG 4 cut(s) 258, 329, 370, 561
BssMI GATC 2 cut(s) 40, 492
BssT1I CCWWGG 4 cut(s) 258, 329, 370, 561
Bst6I CTCTTC 1 cut(s) 183
BstC8I GCNNGC 1 cut(s) 506
BstDEI CTNAG 3 cut(s) 212, 315, 462
BstF5I GGATG 2 cut(s) 10, 207
BstKTI GATC 2 cut(s) 43, 495
BstMBI GATC 2 cut(s) 40, 492
BstMWI GCNNNNNNNGC 2 cut(s) 222, 386
BstNSI RCATGY 2 cut(s) 256, 384
BstSCI CCNGG 1 cut(s) 57
BstV1I GCAGC 2 cut(s) 281, 297
BstV2I GAAGAC 1 cut(s) 99
BsuRI GGCC 1 cut(s) 206
BtgZI GCGATG 1 cut(s) 240
BtsCI GGATG 2 cut(s) 10, 207
Cac8I GCNNGC 1 cut(s) 506
CviAII CATG 6 cut(s) 253, 347, 381, 533, 569, 675
DdeI CTNAG 3 cut(s) 212, 315, 462
DpnI GATC 2 cut(s) 42, 494
DpnII GATC 2 cut(s) 40, 492
DrdI GACNNNNNNGTC 1 cut(s) 14
DseDI GACNNNNNNGTC 1 cut(s) 14
EaeI YGGCCR 1 cut(s) 204
Eam1104I CTCTTC 1 cut(s) 183
EarI CTCTTC 1 cut(s) 183
Eco130I CCWWGG 4 cut(s) 258, 329, 370, 561
EcoT14I CCWWGG 4 cut(s) 258, 329, 370, 561
ErhI CCWWGG 4 cut(s) 258, 329, 370, 561
FaeI CATG 6 cut(s) 256, 350, 384, 536, 572, 678
FaiI YATR 7 cut(s) 254, 348, 382, 433, 534, 570, 676
FalI AAGNNNNNCTT 4 cut(s) 125, 157, 440, 472
FaqI GGGAC 1 cut(s) 498
FatI CATG 6 cut(s) 252, 346, 380, 532, 568, 674
Fnu4HI GCNGC 4 cut(s) 270, 311, 610, 639
FokI GGATG 2 cut(s) 17, 194
Fsp4HI GCNGC 4 cut(s) 270, 311, 610, 639
FspBI CTAG 2 cut(s) 123, 593
GluI GCNGC 4 cut(s) 270, 311, 610, 639
HaeIII GGCC 1 cut(s) 206
HapII CCGG 2 cut(s) 59, 467
Hin1II CATG 6 cut(s) 256, 350, 384, 536, 572, 678
HpaII CCGG 2 cut(s) 59, 467
HphI GGTGA 2 cut(s) 291, 643
Hpy166II GTNNAC 1 cut(s) 598
Hpy188III TCNNGA 4 cut(s) 38, 181, 542, 661
Hpy8I GTNNAC 1 cut(s) 598
HpyAV CCTTC 3 cut(s) 139, 178, 665
HpyCH4V TGCA 3 cut(s) 84, 525, 568
HpyF10VI GCNNNNNNNGC 2 cut(s) 222, 386
HpyF3I CTNAG 3 cut(s) 212, 315, 462
Hsp92II CATG 6 cut(s) 256, 350, 384, 536, 572, 678
Kzo9I GATC 2 cut(s) 40, 492
LmnI GCTCC 2 cut(s) 377, 458
LpnPI CCDG 5 cut(s) 72, 315, 344, 378, 480
Lsp1109I GCAGC 2 cut(s) 281, 297
LweI GCATC 2 cut(s) 93, 186
MaeI CTAG 2 cut(s) 123, 593
MaeIII GTNAC 1 cut(s) 159
MalI GATC 2 cut(s) 42, 494
MbiI CCGCTC 1 cut(s) 641
MboI GATC 2 cut(s) 40, 492
MboII GAAGA 2 cut(s) 104, 200
MhlI GDGCHC 2 cut(s) 391, 455
MlsI TGGCCA 1 cut(s) 206
MluCI AATT 2 cut(s) 32, 164
MluNI TGGCCA 1 cut(s) 206
MmeI TCCRAC 1 cut(s) 9
MnlI CCTC 9 cut(s) 119, 184, 256, 274, 368, 388, 463, 511, 570
Mox20I TGGCCA 1 cut(s) 206
MscI TGGCCA 1 cut(s) 206
MseI TTAA 2 cut(s) 168, 647
MslI CAYNNNNRTG 1 cut(s) 563
Msp20I TGGCCA 1 cut(s) 206
MspI CCGG 2 cut(s) 59, 467
MspR9I CCNGG 1 cut(s) 59
MwoI GCNNNNNNNGC 2 cut(s) 222, 386
NciI CCSGG 1 cut(s) 59
NdeII GATC 2 cut(s) 40, 492
NlaIII CATG 6 cut(s) 256, 350, 384, 536, 572, 678
NlaIV GGNNCC 3 cut(s) 63, 363, 552
NmeAIII GCCGAG 1 cut(s) 331
NspI RCATGY 2 cut(s) 256, 384
OliI CACNNNNGTG 1 cut(s) 563
PflMI CCANNNNNTGG 1 cut(s) 371
PkrI GCNGC 4 cut(s) 271, 312, 611, 640
PspN4I GGNNCC 3 cut(s) 63, 363, 552
PsrI GAACNNNNNNTAC 2 cut(s) 416, 448
RseI CAYNNNNRTG 1 cut(s) 563
SaqAI TTAA 2 cut(s) 168, 647
SatI GCNGC 4 cut(s) 270, 311, 610, 639
Sau3AI GATC 2 cut(s) 40, 492
ScrFI CCNGG 1 cut(s) 59
SduI GDGCHC 2 cut(s) 391, 455
SfaNI GCATC 2 cut(s) 93, 186
SmiMI CAYNNNNRTG 1 cut(s) 563
SmlI CTYRAG 2 cut(s) 392, 659
SmoI CTYRAG 2 cut(s) 392, 659
Sse9I AATT 2 cut(s) 32, 164
SsiI CCGC 3 cut(s) 607, 610, 639
SspMI CTAG 2 cut(s) 123, 593
StyD4I CCNGG 1 cut(s) 57
StyI CCWWGG 4 cut(s) 258, 329, 370, 561
TaqI TCGA 1 cut(s) 643
TasI AATT 2 cut(s) 32, 164
TauI GCSGC 2 cut(s) 612, 641
Tru1I TTAA 2 cut(s) 168, 647
Tru9I TTAA 2 cut(s) 168, 647
TseI GCWGC 2 cut(s) 269, 310
TspDTI ATGAA 2 cut(s) 521, 604
TspGWI ACGGA 1 cut(s) 104
Van91I CCANNNNNTGG 1 cut(s) 371
XapI RAATTY 1 cut(s) 32
XceI RCATGY 2 cut(s) 256, 384
XspI CTAG 2 cut(s) 123, 593
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.