FvH4_7g04361

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
OG0000370
Physical Location & Seq
Forward (+)
4942636 .. 4944884
2249 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_7g04361.t1

Sequence Viewer

Length: 855 bp
ATGTTACATTCCCAGAGAAGCATCCCAACAAATCGTCCTCTTCAACAACCGCTCAAAGCTAATATGGGCAAGCAAGATACAACTAAAACAGGTGGAGCTACTTCTTCCACTACTGGGGTTCTACATGATGAGGAGGTGGCTAAGCTGTTTCAAGCCTTAATACAAATGGCCTCCCGCGAGCTTGATGGCACAAACAGGACGCTGAAATATTTGAAGTTGCTCCTTAGTCTGTCACCCACGGAGTACACAGGAAATCTTGAGAGTTCATCGGAAGCGCTGGATTGGCTACGAAGGGTAAAGAAATGTTTCAATGTTATTGATGTACCTGGAGACCTAAGAGTTGTGTTTGCTGCCTATACTCTTACTGGAGCGGCTGACTACCGGTGGGAATTTGTTGAAAGTACCAGGGATGTGGAATCCATGACTTGGGATGACTTTGAGCAGATATTTTTGAATAGGTACGTTCCTGAGACTATAAGGCTAGATAAAGCCGATGAATTTCTCACTTTGACTCAAGGGGAAATGACAGTGTTTCAGTACGATTCTAAGTTCATTGAATTATTACGGTATGCACCTCAGCTTCTGACTTCGGATACAGAGAGGGCGGAGCACTTTCAACGCGGGTTGAGGCCTTCCATCCGGGTGGCTTTATGTGGTTGTAAGTGTGATACTTATCAACAGGCGGTGGCAGCAGCACTGCAAGCAGAAAAATCTGAAAATATTGACTATATGAGTGTGCAAGAGTCATTTGAGGGAGCTTCTGGTGGAGGGGGAAAACGGAAAAGGAAGCAGTATATTTGCCACCACTGTGGTGAGCCTGATCATATTCAGCCTCAGTGCCCATATAATCCGTGA
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
Retrotrans_gag zf-CCHC

Protein Analysis

285

Amino Acids

32.18

Weight (kDa)

5.76

Isoelectric Point (pI)

48.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 95 - 236 8.8e-10 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 116 - 211 1.1e-14 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 426
AccBSI CCGCTC 2 cut(s) 52, 371
AccII CGCG 2 cut(s) 177, 621
AciI CCGC 6 cut(s) 50, 175, 371, 605, 621, 683
AcsI RAATTY 2 cut(s) 389, 497
AfaI GTAC 5 cut(s) 245, 324, 403, 461, 539
AfeI AGCGCT 1 cut(s) 276
AfiI CCNNNNNNNGG 2 cut(s) 114, 426
AgeI ACCGGT 1 cut(s) 381
AgsI TTSAA 8 cut(s) 44, 152, 214, 310, 398, 454, 557, 617
AjnI CCWGG 2 cut(s) 325, 404
AleI CACNNNNGTG 2 cut(s) 807, 810
AluBI AGCT 6 cut(s) 59, 98, 145, 181, 580, 758
AluI AGCT 6 cut(s) 59, 98, 145, 181, 580, 758
Alw21I GWGCWC 1 cut(s) 612
Alw26I GTCTC 2 cut(s) 324, 464
AlwNI CAGNNNCTG 1 cut(s) 583
Aor51HI AGCGCT 1 cut(s) 276
AoxI GGCC 2 cut(s) 168, 629
ApeKI GCWGC 3 cut(s) 350, 689, 692
ApoI RAATTY 2 cut(s) 389, 497
AsiGI ACCGGT 1 cut(s) 381
Asp700I GAANNNNTTC 1 cut(s) 305
AspLEI GCGC 1 cut(s) 277
AsuC2I CCSGG 1 cut(s) 641
AsuHPI GGTGA 2 cut(s) 225, 824
BaeGI GKGCMC 1 cut(s) 842
Bbv12I GWGCWC 1 cut(s) 612
BbvCI CCTCAGC 1 cut(s) 576
BbvI GCAGC 3 cut(s) 337, 701, 704
BccI CCATC 2 cut(s) 179, 644
BciT130I CCWGG 2 cut(s) 327, 406
BciVI GTATCC 1 cut(s) 586
BclI TGATCA 1 cut(s) 820
BcnI CCSGG 1 cut(s) 641
BcoDI GTCTC 2 cut(s) 324, 464
BfaI CTAG 1 cut(s) 482
BfoI RGCGCY 1 cut(s) 278
BfuI GTATCC 1 cut(s) 586
BisI GCNGC 4 cut(s) 351, 372, 690, 693
BlpI GCTNAGC 1 cut(s) 141
BlsI GCNGC 4 cut(s) 352, 373, 691, 694
Bme1390I CCNGG 3 cut(s) 327, 406, 641
BmrFI CCNGG 3 cut(s) 327, 406, 641
BmrI ACTGGG 1 cut(s) 123
BmsI GCATC 1 cut(s) 30
BmuI ACTGGG 1 cut(s) 123
BpmI CTGGAG 2 cut(s) 348, 387
Bpu10I CCTNAGC 1 cut(s) 576
Bpu1102I GCTNAGC 1 cut(s) 141
BpuEI CTTGAG 2 cut(s) 278, 498
BpuMI CCSGG 1 cut(s) 641
BsaBI GATNNNNATC 1 cut(s) 672
BsaI GGTCTC 1 cut(s) 324
BsaJI CCNNGG 2 cut(s) 237, 405
BsaWI WCCGGW 1 cut(s) 381
Bsc4I CCNNNNNNNGG 2 cut(s) 114, 426
Bse118I RCCGGY 1 cut(s) 381
Bse1I ACTGG 2 cut(s) 118, 370
Bse8I GATNNNNATC 1 cut(s) 672
BseBI CCWGG 2 cut(s) 327, 406
BseDI CCNNGG 2 cut(s) 237, 405
BseGI GGATG 4 cut(s) 21, 415, 436, 636
BseJI GATNNNNATC 1 cut(s) 672
BseLI CCNNNNNNNGG 2 cut(s) 114, 426
BseMII CTCAG 3 cut(s) 459, 590, 848
BseNI ACTGG 2 cut(s) 118, 370
BseRI GAGGAG 1 cut(s) 146
BseSI GKGCMC 1 cut(s) 842
BseXI GCAGC 3 cut(s) 337, 701, 704
Bsh1236I CGCG 2 cut(s) 177, 621
BshFI GGCC 2 cut(s) 170, 631
BshTI ACCGGT 1 cut(s) 381
BsiHKAI GWGCWC 1 cut(s) 612
BsiSI CCGG 2 cut(s) 382, 640
BslI CCNNNNNNNGG 2 cut(s) 114, 426
BsmAI GTCTC 2 cut(s) 324, 464
BsnI GGCC 2 cut(s) 170, 631
Bso31I GGTCTC 1 cut(s) 324
Bsp1286I GDGCHC 2 cut(s) 612, 842
Bsp143I GATC 1 cut(s) 820
Bsp1720I GCTNAGC 1 cut(s) 141
BspACI CCGC 6 cut(s) 50, 175, 371, 605, 621, 683
BspANI GGCC 2 cut(s) 170, 631
BspCNI CTCAG 3 cut(s) 460, 589, 847
BspFNI CGCG 2 cut(s) 177, 621
BspTNI GGTCTC 1 cut(s) 324
BsrBI CCGCTC 2 cut(s) 52, 371
BsrFI RCCGGY 1 cut(s) 381
BsrI ACTGG 2 cut(s) 118, 370
BssAI RCCGGY 1 cut(s) 381
BssECI CCNNGG 2 cut(s) 237, 405
BssMI GATC 1 cut(s) 820
Bst2UI CCWGG 2 cut(s) 327, 406
Bst4CI ACNGT 3 cut(s) 529, 567, 809
Bst6I CTCTTC 1 cut(s) 45
BstC8I GCNNGC 3 cut(s) 71, 179, 702
BstDEI CTNAG 7 cut(s) 141, 224, 335, 468, 546, 576, 834
BstDSI CCRYGG 1 cut(s) 237
BstF5I GGATG 4 cut(s) 21, 415, 436, 636
BstFNI CGCG 2 cut(s) 177, 621
BstH2I RGCGCY 1 cut(s) 278
BstHHI GCGC 1 cut(s) 277
BstKTI GATC 1 cut(s) 823
BstMAI GTCTC 2 cut(s) 324, 464
BstMBI GATC 1 cut(s) 820
BstMWI GCNNNNNNNGC 3 cut(s) 283, 689, 701
BstNI CCWGG 2 cut(s) 327, 406
BstSCI CCNGG 3 cut(s) 325, 404, 639
BstSLI GKGCMC 1 cut(s) 842
BstUI CGCG 2 cut(s) 177, 621
BstV1I GCAGC 3 cut(s) 337, 701, 704
BstXI CCANNNNNNTGG 3 cut(s) 412, 643, 809
BsuI GTATCC 1 cut(s) 586
BsuRI GGCC 2 cut(s) 170, 631
BtgI CCRYGG 1 cut(s) 237
BtsCI GGATG 4 cut(s) 21, 415, 436, 636
BtsI GCAGTG 1 cut(s) 695
BtsIMutI CAGTG 4 cut(s) 534, 695, 805, 842
Cac8I GCNNGC 3 cut(s) 71, 179, 702
CaiI CAGNNNCTG 1 cut(s) 583
CfoI GCGC 1 cut(s) 277
Cfr10I RCCGGY 1 cut(s) 381
CseI GACGC 1 cut(s) 208
Csp6I GTAC 5 cut(s) 244, 323, 402, 460, 538
CspAI ACCGGT 1 cut(s) 381
CviAII CATG 2 cut(s) 125, 421
CviQI GTAC 5 cut(s) 244, 323, 402, 460, 538
DdeI CTNAG 7 cut(s) 141, 224, 335, 468, 546, 576, 834
DpnI GATC 1 cut(s) 822
DpnII GATC 1 cut(s) 820
Eam1104I CTCTTC 1 cut(s) 45
EarI CTCTTC 1 cut(s) 45
EciI GGCGGA 1 cut(s) 620
Eco147I AGGCCT 1 cut(s) 631
Eco31I GGTCTC 1 cut(s) 324
Eco47III AGCGCT 1 cut(s) 276
EcoRII CCWGG 2 cut(s) 325, 404
FaeI CATG 2 cut(s) 128, 424
FatI CATG 2 cut(s) 124, 420
FauI CCCGC 2 cut(s) 182, 614
FbaI TGATCA 1 cut(s) 820
Fnu4HI GCNGC 4 cut(s) 351, 372, 690, 693
FokI GGATG 4 cut(s) 8, 422, 443, 623
Fsp4HI GCNGC 4 cut(s) 351, 372, 690, 693
FspBI CTAG 1 cut(s) 482
GlaI GCGC 1 cut(s) 276
GluI GCNGC 4 cut(s) 351, 372, 690, 693
GsuI CTGGAG 2 cut(s) 348, 387
HaeII RGCGCY 1 cut(s) 278
HaeIII GGCC 2 cut(s) 170, 631
HapII CCGG 2 cut(s) 382, 640
HgaI GACGC 1 cut(s) 208
HhaI GCGC 1 cut(s) 277
Hin1II CATG 2 cut(s) 128, 424
Hin6I GCGC 1 cut(s) 275
HinP1I GCGC 1 cut(s) 275
HinfI GANTC 4 cut(s) 416, 511, 542, 743
HpaII CCGG 2 cut(s) 382, 640
HphI GGTGA 2 cut(s) 225, 824
Hpy166II GTNNAC 1 cut(s) 246
Hpy188I TCNGA 4 cut(s) 271, 585, 592, 715
Hpy188III TCNNGA 2 cut(s) 257, 467
Hpy8I GTNNAC 1 cut(s) 246
HpyAV CCTTC 2 cut(s) 285, 642
HpyCH4III ACNGT 3 cut(s) 529, 567, 809
HpyCH4IV ACGT 1 cut(s) 462
HpyCH4V TGCA 3 cut(s) 572, 700, 739
HpyF10VI GCNNNNNNNGC 3 cut(s) 283, 689, 701
HpyF3I CTNAG 7 cut(s) 141, 224, 335, 468, 546, 576, 834
HpySE526I ACGT 1 cut(s) 462
Hsp92II CATG 2 cut(s) 128, 424
HspAI GCGC 1 cut(s) 275
Ksp22I TGATCA 1 cut(s) 820
Kzo9I GATC 1 cut(s) 820
LmnI GCTCC 5 cut(s) 95, 225, 368, 607, 755
Lsp1109I GCAGC 3 cut(s) 337, 701, 704
LweI GCATC 1 cut(s) 30
MaeI CTAG 1 cut(s) 482
MaeII ACGT 1 cut(s) 462
MaeIII GTNAC 2 cut(s) 3, 231
MalI GATC 1 cut(s) 822
MbiI CCGCTC 2 cut(s) 52, 371
MboI GATC 1 cut(s) 820
MboII GAAGA 2 cut(s) 32, 96
MhlI GDGCHC 2 cut(s) 612, 842
MluCI AATT 3 cut(s) 389, 497, 557
MlyI GAGTC 2 cut(s) 505, 752
MroXI GAANNNNTTC 1 cut(s) 305
MseI TTAA 1 cut(s) 158
MslI CAYNNNNRTG 3 cut(s) 641, 807, 810
MspI CCGG 2 cut(s) 382, 640
MspR9I CCNGG 3 cut(s) 327, 406, 641
MvaI CCWGG 2 cut(s) 327, 406
MvnI CGCG 2 cut(s) 177, 621
MwoI GCNNNNNNNGC 3 cut(s) 283, 689, 701
NciI CCSGG 1 cut(s) 641
NdeII GATC 1 cut(s) 820
NlaIII CATG 2 cut(s) 128, 424
NmuCI GTSAC 1 cut(s) 231
OliI CACNNNNGTG 2 cut(s) 807, 810
PceI AGGCCT 1 cut(s) 631
PdmI GAANNNNTTC 1 cut(s) 305
PfeI GAWTC 2 cut(s) 416, 542
PflMI CCANNNNNTGG 1 cut(s) 426
PinAI ACCGGT 1 cut(s) 381
PkrI GCNGC 4 cut(s) 352, 373, 691, 694
PleI GAGTC 2 cut(s) 505, 751
PpsI GAGTC 2 cut(s) 505, 751
Psp6I CCWGG 2 cut(s) 325, 404
PspGI CCWGG 2 cut(s) 325, 404
PstNI CAGNNNCTG 1 cut(s) 583
RsaI GTAC 5 cut(s) 245, 324, 403, 461, 539
RsaNI GTAC 5 cut(s) 244, 323, 402, 460, 538
RseI CAYNNNNRTG 3 cut(s) 641, 807, 810
SaqAI TTAA 1 cut(s) 158
SatI GCNGC 4 cut(s) 351, 372, 690, 693
Sau3AI GATC 1 cut(s) 820
SchI GAGTC 2 cut(s) 505, 752
ScrFI CCNGG 3 cut(s) 327, 406, 641
SduI GDGCHC 2 cut(s) 612, 842
SfaNI GCATC 1 cut(s) 30
SmiMI CAYNNNNRTG 3 cut(s) 641, 807, 810
SmlI CTYRAG 2 cut(s) 257, 513
SmoI CTYRAG 2 cut(s) 257, 513
Sse9I AATT 3 cut(s) 389, 497, 557
SseBI AGGCCT 1 cut(s) 631
SsiI CCGC 6 cut(s) 50, 175, 371, 605, 621, 683
SspI AATATT 2 cut(s) 209, 721
SspMI CTAG 1 cut(s) 482
StuI AGGCCT 1 cut(s) 631
StyD4I CCNGG 3 cut(s) 325, 404, 639
TaaI ACNGT 3 cut(s) 529, 567, 809
TaiI ACGT 1 cut(s) 465
TasI AATT 3 cut(s) 389, 497, 557
TatI WGTACW 1 cut(s) 243
TauI GCSGC 1 cut(s) 374
TfiI GAWTC 2 cut(s) 416, 542
Tru1I TTAA 1 cut(s) 158
Tru9I TTAA 1 cut(s) 158
TscAI CASTG 4 cut(s) 534, 702, 812, 842
TseFI GTSAC 1 cut(s) 231
TseI GCWGC 3 cut(s) 350, 689, 692
Tsp45I GTSAC 1 cut(s) 231
TspDTI ATGAA 3 cut(s) 255, 510, 541
TspGWI ACGGA 3 cut(s) 254, 793, 840
TspRI CASTG 4 cut(s) 534, 702, 812, 842
Van91I CCANNNNNTGG 1 cut(s) 426
XapI RAATTY 2 cut(s) 389, 497
XmnI GAANNNNTTC 1 cut(s) 305
XspI CTAG 1 cut(s) 482
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.