FvH4_4g08241

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000703
Physical Location & Seq
Forward (+)
8123170 .. 8125032
1863 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g08241.t1

Sequence Viewer

Length: 756 bp
ATGGCCATGGCAGATGATGAATCCATCGATGATTTTCACTCTAGGCTCATAAATATGACAGATGAGTTTGGCCGCCTTGGTGATCCTTTTGCTGAACACACCATTGTGAAGAAATTTCTGAGAGCCTTACTTTTGAGTTTTCAAGACAAAGTTACTGTCATCGAGGAATTCCGAAATCTAAACACCTACCCTCTAAACGAACTTCTTGGGAATCTTCAAGCTTATGAGATAAGAATCAAGGAGAGGAAATTGAAATCTATTGCCTCTAGTGTGCAATATGAGAAGTTCATTAGGTCTGGAGAGTCCTCCCAGGATCTTAAAAACTCCTTGAGGACAAGTTCTAAAAGAAGCCTGGGAATCGGTCATCTAGCTGCTGATTGTGCGAACAAGAAGCTCAAAGCTCGCCCAAACAAGGTAATGAATGCAACATGGAGTGATTCTGAGTCTGACACTCATTCAGATGGTGGAGAGGAGTATCTGGCTTTGGGAATTTTTAAACTCTTCCTTCCTTTGATCTCCAGCTCCAACAGTACGGCGGCCGGAGGTTTTAAACCTCTCACACTGCGACGAGAACAAGGAGCTCATAGTTTCGTCGGAAGTAATGGCTCCGAGTGCCTCTTCGGCGCGTCTCGATTTGAATCGACATCGATCGAGTTTCTCTGTCGCGTTTGGACCCAATCATCATCTTCGTCGACGAGCCATCCTCCGACCCATGAAATTGACTCCACCTCCGACCTTGACATGTTGACGTGCTGA
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
RVT_2 Retrotran_gag_2 gag_pre-integrs rve zf-CCHC

Protein Analysis

252

Amino Acids

27.89

Weight (kDa)

6.0

Isoelectric Point (pI)

43.72

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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 692
AccII CGCG 2 cut(s) 626, 666
AciI CCGC 2 cut(s) 73, 536
AclWI GGATC 2 cut(s) 77, 321
AcoI YGGCCR 3 cut(s) 3, 70, 537
AcsI RAATTY 3 cut(s) 113, 167, 489
AfaI GTAC 1 cut(s) 532
AfiI CCNNNNNNNGG 1 cut(s) 412
AflIII ACRYGT 1 cut(s) 741
AgsI TTSAA 4 cut(s) 143, 218, 253, 638
AjiI CACGTC 1 cut(s) 750
AjnI CCWGG 2 cut(s) 309, 351
AleI CACNNNNGTG 1 cut(s) 104
AluBI AGCT 6 cut(s) 221, 371, 394, 401, 522, 581
AluI AGCT 6 cut(s) 221, 371, 394, 401, 522, 581
Alw21I GWGCWC 1 cut(s) 583
Alw26I GTCTC 1 cut(s) 633
AlwI GGATC 2 cut(s) 77, 321
AoxI GGCC 3 cut(s) 3, 70, 537
ApeKI GCWGC 1 cut(s) 371
ApoI RAATTY 3 cut(s) 113, 167, 489
ArsI GACNNNNNNTTYG 2 cut(s) 141, 173
AspLEI GCGC 1 cut(s) 626
AspS9I GGNCC 1 cut(s) 672
AsuHPI GGTGA 1 cut(s) 92
AvaII GGWCC 1 cut(s) 672
BalI TGGCCA 1 cut(s) 5
BanII GRGCYC 1 cut(s) 583
Bbv12I GWGCWC 1 cut(s) 583
BbvI GCAGC 1 cut(s) 358
BccI CCATC 3 cut(s) 32, 455, 708
BceAI ACGGC 1 cut(s) 549
BciT130I CCWGG 2 cut(s) 311, 353
BcoDI GTCTC 1 cut(s) 633
BfaI CTAG 3 cut(s) 42, 267, 368
BglI GCCNNNNNGGC 1 cut(s) 621
BisI GCNGC 3 cut(s) 73, 372, 537
BlsI GCNGC 3 cut(s) 74, 373, 538
Bme1390I CCNGG 2 cut(s) 311, 353
Bme18I GGWCC 1 cut(s) 672
BmgBI CACGTC 1 cut(s) 750
BmgT120I GGNCC 1 cut(s) 672
BmiI GGNNCC 2 cut(s) 607, 674
BmrFI CCNGG 2 cut(s) 311, 353
BplI GAGNNNNNCTC 2 cut(s) 688, 720
BpmI CTGGAG 2 cut(s) 318, 502
BpuEI CTTGAG 1 cut(s) 349
Bsa29I ATCGAT 2 cut(s) 27, 647
BsaBI GATNNNNATC 2 cut(s) 233, 637
BsaJI CCNNGG 4 cut(s) 6, 76, 309, 352
BsaXI ACNNNNNCTCC 2 cut(s) 713, 743
Bsc4I CCNNNNNNNGG 1 cut(s) 412
Bse8I GATNNNNATC 2 cut(s) 233, 637
BseBI CCWGG 2 cut(s) 311, 353
BseCI ATCGAT 2 cut(s) 27, 647
BseDI CCNNGG 4 cut(s) 6, 76, 309, 352
BseGI GGATG 1 cut(s) 700
BseJI GATNNNNATC 2 cut(s) 233, 637
BseLI CCNNNNNNNGG 1 cut(s) 412
BseMII CTCAG 2 cut(s) 110, 432
BseRI GAGGAG 1 cut(s) 485
BseX3I CGGCCG 1 cut(s) 537
BseXI GCAGC 1 cut(s) 358
Bsh1236I CGCG 2 cut(s) 626, 666
Bsh1285I CGRYCG 2 cut(s) 540, 651
BshFI GGCC 3 cut(s) 5, 72, 539
BshVI ATCGAT 2 cut(s) 27, 647
BsiEI CGRYCG 2 cut(s) 540, 651
BsiHKAI GWGCWC 1 cut(s) 583
BsiSI CCGG 1 cut(s) 540
BslI CCNNNNNNNGG 1 cut(s) 412
BsmAI GTCTC 1 cut(s) 633
BsmBI CGTCTC 1 cut(s) 633
BsmI GAATGC 1 cut(s) 427
BsnI GGCC 3 cut(s) 5, 72, 539
Bsp1286I GDGCHC 1 cut(s) 583
Bsp143I GATC 4 cut(s) 82, 313, 513, 648
Bsp19I CCATGG 1 cut(s) 6
BspACI CCGC 2 cut(s) 73, 536
BspANI GGCC 3 cut(s) 5, 72, 539
BspCNI CTCAG 2 cut(s) 111, 433
BspDI ATCGAT 2 cut(s) 27, 647
BspFNI CGCG 2 cut(s) 626, 666
BspLI GGNNCC 2 cut(s) 607, 674
BspPI GGATC 2 cut(s) 77, 321
BssECI CCNNGG 4 cut(s) 6, 76, 309, 352
BssMI GATC 4 cut(s) 82, 313, 513, 648
BssT1I CCWWGG 2 cut(s) 6, 76
Bst2UI CCWGG 2 cut(s) 311, 353
Bst4CI ACNGT 2 cut(s) 157, 530
Bst6I CTCTTC 2 cut(s) 506, 623
BstC8I GCNNGC 1 cut(s) 403
BstDEI CTNAG 2 cut(s) 119, 441
BstDSI CCRYGG 1 cut(s) 6
BstF5I GGATG 1 cut(s) 700
BstFNI CGCG 2 cut(s) 626, 666
BstHHI GCGC 1 cut(s) 626
BstKTI GATC 4 cut(s) 85, 316, 516, 651
BstMAI GTCTC 1 cut(s) 633
BstMBI GATC 4 cut(s) 82, 313, 513, 648
BstMCI CGRYCG 2 cut(s) 540, 651
BstMWI GCNNNNNNNGC 3 cut(s) 380, 612, 621
BstNI CCWGG 2 cut(s) 311, 353
BstNSI RCATGY 1 cut(s) 745
BstSCI CCNGG 2 cut(s) 309, 351
BstUI CGCG 2 cut(s) 626, 666
BstV1I GCAGC 1 cut(s) 358
BstX2I RGATCY 1 cut(s) 313
BstYI RGATCY 1 cut(s) 313
BstZI CGGCCG 1 cut(s) 537
Bsu15I ATCGAT 2 cut(s) 27, 647
BsuRI GGCC 3 cut(s) 5, 72, 539
BsuTUI ATCGAT 2 cut(s) 27, 647
BtgI CCRYGG 1 cut(s) 6
BtrI CACGTC 1 cut(s) 750
BtsCI GGATG 1 cut(s) 700
BtsI GCAGTG 1 cut(s) 560
BtsIMutI CAGTG 1 cut(s) 560
Cac8I GCNNGC 1 cut(s) 403
CfoI GCGC 1 cut(s) 626
Cfr13I GGNCC 1 cut(s) 672
ClaI ATCGAT 2 cut(s) 27, 647
CseI GACGC 1 cut(s) 615
Csp6I GTAC 1 cut(s) 531
CviAII CATG 4 cut(s) 7, 429, 713, 742
CviQI GTAC 1 cut(s) 531
DdeI CTNAG 2 cut(s) 119, 441
DpnI GATC 4 cut(s) 84, 315, 515, 650
DpnII GATC 4 cut(s) 82, 313, 513, 648
DraI TTTAAA 2 cut(s) 496, 550
EaeI YGGCCR 3 cut(s) 3, 70, 537
EagI CGGCCG 1 cut(s) 537
Eam1104I CTCTTC 2 cut(s) 506, 623
EarI CTCTTC 2 cut(s) 506, 623
Ecl136II GAGCTC 1 cut(s) 581
EclXI CGGCCG 1 cut(s) 537
Eco130I CCWWGG 2 cut(s) 6, 76
Eco24I GRGCYC 1 cut(s) 583
Eco47I GGWCC 1 cut(s) 672
Eco52I CGGCCG 1 cut(s) 537
Eco53kI GAGCTC 1 cut(s) 581
EcoICRI GAGCTC 1 cut(s) 581
EcoRI GAATTC 1 cut(s) 167
EcoRII CCWGG 2 cut(s) 309, 351
EcoT14I CCWWGG 2 cut(s) 6, 76
EcoT38I GRGCYC 1 cut(s) 583
ErhI CCWWGG 2 cut(s) 6, 76
Esp3I CGTCTC 1 cut(s) 633
FaeI CATG 4 cut(s) 10, 432, 716, 745
FaiI YATR 9 cut(s) 8, 50, 56, 225, 279, 430, 585, 714, 743
FatI CATG 4 cut(s) 6, 428, 712, 741
FblI GTMKAC 1 cut(s) 692
Fnu4HI GCNGC 3 cut(s) 73, 372, 537
FokI GGATG 1 cut(s) 687
FriOI GRGCYC 1 cut(s) 583
Fsp4HI GCNGC 3 cut(s) 73, 372, 537
FspBI CTAG 3 cut(s) 42, 267, 368
GlaI GCGC 1 cut(s) 625
GluI GCNGC 3 cut(s) 73, 372, 537
GsuI CTGGAG 2 cut(s) 318, 502
HaeIII GGCC 3 cut(s) 5, 72, 539
HapII CCGG 1 cut(s) 540
HgaI GACGC 1 cut(s) 615
HhaI GCGC 1 cut(s) 626
Hin1II CATG 4 cut(s) 10, 432, 716, 745
Hin6I GCGC 1 cut(s) 624
HinP1I GCGC 1 cut(s) 624
HincII GTYRAC 2 cut(s) 693, 747
HindII GTYRAC 2 cut(s) 693, 747
HindIII AAGCTT 1 cut(s) 219
HinfI GANTC 9 cut(s) 20, 211, 234, 302, 357, 437, 443, 638, 722
HpaII CCGG 1 cut(s) 540
HphI GGTGA 1 cut(s) 92
Hpy166II GTNNAC 2 cut(s) 693, 747
Hpy188I TCNGA 9 cut(s) 120, 173, 442, 448, 460, 596, 610, 708, 733
Hpy188III TCNNGA 3 cut(s) 143, 297, 630
Hpy8I GTNNAC 2 cut(s) 693, 747
Hpy99I CGWCG 4 cut(s) 570, 596, 694, 697
HpyAV CCTTC 1 cut(s) 515
HpyCH4III ACNGT 2 cut(s) 157, 530
HpyCH4IV ACGT 1 cut(s) 749
HpyCH4V TGCA 2 cut(s) 274, 425
HpyF10VI GCNNNNNNNGC 3 cut(s) 380, 612, 621
HpyF3I CTNAG 2 cut(s) 119, 441
HpySE526I ACGT 1 cut(s) 749
Hsp92II CATG 4 cut(s) 10, 432, 716, 745
HspAI GCGC 1 cut(s) 624
Kzo9I GATC 4 cut(s) 82, 313, 513, 648
LmnI GCTCC 3 cut(s) 527, 578, 611
LpnPI CCDG 8 cut(s) 282, 296, 323, 338, 365, 464, 532, 553
Lsp1109I GCAGC 1 cut(s) 358
MaeI CTAG 3 cut(s) 42, 267, 368
MaeII ACGT 1 cut(s) 749
MaeIII GTNAC 1 cut(s) 151
MalI GATC 4 cut(s) 84, 315, 515, 650
MboI GATC 4 cut(s) 82, 313, 513, 648
MboII GAAGA 5 cut(s) 121, 206, 493, 610, 678
MflI RGATCY 1 cut(s) 313
MhlI GDGCHC 1 cut(s) 583
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 5 cut(s) 113, 167, 248, 489, 717
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 3 cut(s) 311, 452, 716
MmeI TCCRAC 4 cut(s) 549, 574, 731, 756
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MseI TTAA 3 cut(s) 318, 495, 549
MslI CAYNNNNRTG 3 cut(s) 53, 104, 459
Msp20I TGGCCA 1 cut(s) 5
MspI CCGG 1 cut(s) 540
MspR9I CCNGG 2 cut(s) 311, 353
Mva1269I GAATGC 1 cut(s) 427
MvaI CCWGG 2 cut(s) 311, 353
MvnI CGCG 2 cut(s) 626, 666
MwoI GCNNNNNNNGC 3 cut(s) 380, 612, 621
NcoI CCATGG 1 cut(s) 6
NdeII GATC 4 cut(s) 82, 313, 513, 648
NlaIII CATG 4 cut(s) 10, 432, 716, 745
NlaIV GGNNCC 2 cut(s) 607, 674
NspI RCATGY 1 cut(s) 745
OliI CACNNNNGTG 1 cut(s) 104
PciI ACATGT 1 cut(s) 741
PctI GAATGC 1 cut(s) 427
PfeI GAWTC 6 cut(s) 20, 211, 234, 357, 437, 638
PkrI GCNGC 3 cut(s) 74, 373, 538
Ple19I CGATCG 1 cut(s) 651
PleI GAGTC 3 cut(s) 310, 451, 716
PpsI GAGTC 3 cut(s) 310, 451, 716
PscI ACATGT 1 cut(s) 741
Psp124BI GAGCTC 1 cut(s) 583
Psp6I CCWGG 2 cut(s) 309, 351
PspGI CCWGG 2 cut(s) 309, 351
PspN4I GGNNCC 2 cut(s) 607, 674
PspPI GGNCC 1 cut(s) 672
PsuI RGATCY 1 cut(s) 313
PvuI CGATCG 1 cut(s) 651
RsaI GTAC 1 cut(s) 532
RsaNI GTAC 1 cut(s) 531
RseI CAYNNNNRTG 3 cut(s) 53, 104, 459
SacI GAGCTC 1 cut(s) 583
SalI GTCGAC 1 cut(s) 691
SaqAI TTAA 3 cut(s) 318, 495, 549
SatI GCNGC 3 cut(s) 73, 372, 537
Sau3AI GATC 4 cut(s) 82, 313, 513, 648
Sau96I GGNCC 1 cut(s) 672
SchI GAGTC 3 cut(s) 311, 452, 716
ScrFI CCNGG 2 cut(s) 311, 353
SduI GDGCHC 1 cut(s) 583
SgrDI CGTCGACG 1 cut(s) 691
SinI GGWCC 1 cut(s) 672
SmiMI CAYNNNNRTG 3 cut(s) 53, 104, 459
SmlI CTYRAG 1 cut(s) 328
SmoI CTYRAG 1 cut(s) 328
Sse9I AATT 5 cut(s) 113, 167, 248, 489, 717
SsiI CCGC 2 cut(s) 73, 536
SspMI CTAG 3 cut(s) 42, 267, 368
SstI GAGCTC 1 cut(s) 583
StyD4I CCNGG 2 cut(s) 309, 351
StyI CCWWGG 2 cut(s) 6, 76
TaaI ACNGT 2 cut(s) 157, 530
TaiI ACGT 1 cut(s) 752
TaqI TCGA 7 cut(s) 27, 162, 631, 641, 647, 651, 692
TaqII GACCGA 1 cut(s) 350
TasI AATT 5 cut(s) 113, 167, 248, 489, 717
TauI GCSGC 2 cut(s) 75, 539
TfiI GAWTC 6 cut(s) 20, 211, 234, 357, 437, 638
Tru1I TTAA 3 cut(s) 318, 495, 549
Tru9I TTAA 3 cut(s) 318, 495, 549
TscAI CASTG 1 cut(s) 567
TseI GCWGC 1 cut(s) 371
TspDTI ATGAA 4 cut(s) 33, 277, 434, 729
TspRI CASTG 1 cut(s) 567
VpaK11BI GGWCC 1 cut(s) 672
XapI RAATTY 3 cut(s) 113, 167, 489
XceI RCATGY 1 cut(s) 745
XmiI GTMKAC 1 cut(s) 692
XspI CTAG 3 cut(s) 42, 267, 368
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.