FvH4_3g14201

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0002265
Physical Location & Seq
Forward (+)
8568641 .. 8570322
1682 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g14201.t1

Sequence Viewer

Length: 711 bp
ATGGTGGGAATGGAAGATCATGATGTAGGTCTACCCAATAGATCTGGATTGGGTGGATCAAAAAACGATCAAAGCGGAGAAATGCACACGAAAATGAGGAAGATGGAGGAGGAGATTGCCCGGCTGCGTAAAGAAAAGGAACTTCGAGAAGCCCGAAAACAGAAGTGCAAGAAAGGGGAACAAGAGTCAGATGATGACTTGAGCGATGAAGAAACAGAGGAGACGAATGTAAAGAAATCTGCTCGTGATGAAATCAACGATCCAGGAGGGAAAAATTCTGAATCTGCTCAAGGAAGCAATCAGAGAAGAGCCAAGAAAATTAAAAAAGAAAGCTGGAAATCACAAATAGAGAAAATGTTGAAGGACGTGCGAGATGCTAGCCCGAGAGAATTGGCCACAACCGCTGCCAGAGAGATTGGGAAGTCCCCATTCGTCGAAGAAATTTTAAGTGTGGACAAACCACGCAATTTCGTGACGCCCATTTTTCAACAATACGACGGGACCACGGACCCGGTGGATCACCTCAGGGAGTTTATGCAGCAGATGACCACAGAGACAAATGATGAGAGATTGCTTTGCAAGTTTTTTCCATCAAGCTTAACAGGCGAAGCAGGAGTGTGGTTCCGCGACCTGAAGCCAGGATATATCGCCAACTTCGAACAATTGAGGGAGTCGTTCGTTACACAATACTTCTGCAAACAGAAAACGTAA
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

Protein Analysis

237

Amino Acids

27.13

Weight (kDa)

5.85

Isoelectric Point (pI)

49.48

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) 31
AccII CGCG 1 cut(s) 627
AciI CCGC 3 cut(s) 75, 402, 625
AclWI GGATC 3 cut(s) 64, 254, 525
AcoI YGGCCR 1 cut(s) 393
AcsI RAATTY 2 cut(s) 274, 441
AcuI CTGAAG 1 cut(s) 653
AcyI GRCGYC 1 cut(s) 476
AgsI TTSAA 2 cut(s) 361, 488
AjiI CACGTC 1 cut(s) 367
AjnI CCWGG 2 cut(s) 262, 637
AluBI AGCT 2 cut(s) 333, 597
AluI AGCT 2 cut(s) 333, 597
Alw26I GTCTC 2 cut(s) 215, 548
AlwI GGATC 3 cut(s) 64, 254, 525
Ama87I CYCGRG 1 cut(s) 382
AoxI GGCC 1 cut(s) 393
ApeKI GCWGC 3 cut(s) 124, 404, 538
ApoI RAATTY 2 cut(s) 274, 441
AspS9I GGNCC 2 cut(s) 501, 508
AsuC2I CCSGG 2 cut(s) 121, 512
AsuHPI GGTGA 1 cut(s) 512
AsuII TTCGAA 1 cut(s) 657
AsuNHI GCTAGC 1 cut(s) 377
AvaI CYCGRG 1 cut(s) 382
AvaII GGWCC 2 cut(s) 501, 508
AxyI CCTNAGG 1 cut(s) 524
BalI TGGCCA 1 cut(s) 395
BauI CACGAG 1 cut(s) 243
BbvI GCAGC 3 cut(s) 111, 391, 550
BccI CCATC 2 cut(s) 97, 598
BciT130I CCWGG 2 cut(s) 264, 639
BcnI CCSGG 2 cut(s) 121, 512
BcoDI GTCTC 2 cut(s) 215, 548
BfaI CTAG 1 cut(s) 378
BglII AGATCT 1 cut(s) 41
BisI GCNGC 3 cut(s) 125, 405, 539
BlsI GCNGC 3 cut(s) 126, 406, 540
Bme1390I CCNGG 4 cut(s) 121, 264, 512, 639
Bme18I GGWCC 2 cut(s) 501, 508
BmeT110I CYCGRG 1 cut(s) 382
BmgBI CACGTC 1 cut(s) 367
BmgT120I GGNCC 2 cut(s) 501, 508
BmiI GGNNCC 3 cut(s) 502, 510, 623
BmrFI CCNGG 4 cut(s) 121, 264, 512, 639
BmsI GCATC 1 cut(s) 364
BmtI GCTAGC 1 cut(s) 381
Bpu14I TTCGAA 1 cut(s) 657
BpuEI CTTGAG 2 cut(s) 220, 273
BpuMI CCSGG 2 cut(s) 121, 512
BsaHI GRCGYC 1 cut(s) 476
BsaJI CCNNGG 1 cut(s) 504
Bse21I CCTNAGG 1 cut(s) 524
BseBI CCWGG 2 cut(s) 264, 639
BseDI CCNNGG 1 cut(s) 504
BseMII CTCAG 1 cut(s) 538
BseRI GAGGAG 3 cut(s) 122, 125, 233
BseXI GCAGC 3 cut(s) 111, 391, 550
Bsh1236I CGCG 1 cut(s) 627
BshFI GGCC 1 cut(s) 395
BsiHKCI CYCGRG 1 cut(s) 382
BsiSI CCGG 2 cut(s) 121, 512
BslFI GGGAC 2 cut(s) 409, 514
BsmAI GTCTC 2 cut(s) 215, 548
BsmBI CGTCTC 1 cut(s) 215
BsmFI GGGAC 2 cut(s) 409, 514
BsnI GGCC 1 cut(s) 395
BsoBI CYCGRG 1 cut(s) 382
Bsp119I TTCGAA 1 cut(s) 657
Bsp143I GATC 6 cut(s) 16, 41, 56, 67, 259, 517
BspACI CCGC 3 cut(s) 75, 402, 625
BspANI GGCC 1 cut(s) 395
BspCNI CTCAG 1 cut(s) 537
BspFNI CGCG 1 cut(s) 627
BspHI TCATGA 1 cut(s) 19
BspLI GGNNCC 3 cut(s) 502, 510, 623
BspOI GCTAGC 1 cut(s) 381
BspPI GGATC 3 cut(s) 64, 254, 525
BspQI GCTCTTC 1 cut(s) 301
BspT104I TTCGAA 1 cut(s) 657
BssECI CCNNGG 1 cut(s) 504
BssMI GATC 6 cut(s) 16, 41, 56, 67, 259, 517
BssNI GRCGYC 1 cut(s) 476
BssSI CACGAG 1 cut(s) 243
Bst2BI CACGAG 1 cut(s) 243
Bst2UI CCWGG 2 cut(s) 264, 639
Bst6I CTCTTC 1 cut(s) 301
BstACI GRCGYC 1 cut(s) 476
BstBI TTCGAA 1 cut(s) 657
BstC8I GCNNGC 1 cut(s) 379
BstDEI CTNAG 1 cut(s) 524
BstDSI CCRYGG 1 cut(s) 504
BstFNI CGCG 1 cut(s) 627
BstKTI GATC 6 cut(s) 19, 44, 59, 70, 262, 520
BstMAI GTCTC 2 cut(s) 215, 548
BstMBI GATC 6 cut(s) 16, 41, 56, 67, 259, 517
BstMWI GCNNNNNNNGC 2 cut(s) 401, 603
BstNI CCWGG 2 cut(s) 264, 639
BstSCI CCNGG 4 cut(s) 119, 262, 510, 637
BstUI CGCG 1 cut(s) 627
BstV1I GCAGC 3 cut(s) 111, 391, 550
BstX2I RGATCY 1 cut(s) 41
BstYI RGATCY 1 cut(s) 41
Bsu36I CCTNAGG 1 cut(s) 524
BsuRI GGCC 1 cut(s) 395
BtgI CCRYGG 1 cut(s) 504
BtgZI GCGATG 1 cut(s) 219
BtrI CACGTC 1 cut(s) 367
Cac8I GCNNGC 1 cut(s) 379
CciI TCATGA 1 cut(s) 19
Cfr13I GGNCC 2 cut(s) 501, 508
CseI GACGC 1 cut(s) 484
CviAII CATG 1 cut(s) 20
CviJI RGCY 8 cut(s) 124, 152, 311, 333, 381, 395, 597, 637
CviKI_1 RGCY 8 cut(s) 124, 152, 311, 333, 381, 395, 597, 637
DdeI CTNAG 1 cut(s) 524
DpnI GATC 6 cut(s) 18, 43, 58, 69, 261, 519
DpnII GATC 6 cut(s) 16, 41, 56, 67, 259, 517
EaeI YGGCCR 1 cut(s) 393
Eam1104I CTCTTC 1 cut(s) 301
EarI CTCTTC 1 cut(s) 301
Eco47I GGWCC 2 cut(s) 501, 508
Eco57I CTGAAG 1 cut(s) 653
Eco81I CCTNAGG 1 cut(s) 524
Eco88I CYCGRG 1 cut(s) 382
EcoRII CCWGG 2 cut(s) 262, 637
Esp3I CGTCTC 1 cut(s) 215
FaeI CATG 1 cut(s) 23
FaiI YATR 3 cut(s) 21, 536, 645
FaqI GGGAC 2 cut(s) 409, 514
FatI CATG 1 cut(s) 19
FblI GTMKAC 1 cut(s) 31
Fnu4HI GCNGC 3 cut(s) 125, 405, 539
Fsp4HI GCNGC 3 cut(s) 125, 405, 539
FspBI CTAG 1 cut(s) 378
GluI GCNGC 3 cut(s) 125, 405, 539
HaeIII GGCC 1 cut(s) 395
HapII CCGG 2 cut(s) 121, 512
HgaI GACGC 1 cut(s) 484
Hin1I GRCGYC 1 cut(s) 476
Hin1II CATG 1 cut(s) 23
HindIII AAGCTT 1 cut(s) 595
HinfI GANTC 3 cut(s) 185, 281, 671
HpaII CCGG 2 cut(s) 121, 512
HphI GGTGA 1 cut(s) 512
Hpy166II GTNNAC 2 cut(s) 32, 454
Hpy188I TCNGA 3 cut(s) 190, 280, 303
Hpy188III TCNNGA 5 cut(s) 20, 45, 146, 245, 472
Hpy8I GTNNAC 2 cut(s) 32, 454
Hpy99I CGWCG 2 cut(s) 437, 500
HpyAV CCTTC 1 cut(s) 355
HpyCH4IV ACGT 2 cut(s) 366, 707
HpyCH4V TGCA 5 cut(s) 85, 168, 538, 579, 696
HpyF10VI GCNNNNNNNGC 2 cut(s) 401, 603
HpyF3I CTNAG 1 cut(s) 524
HpySE526I ACGT 2 cut(s) 366, 707
Hsp92I GRCGYC 1 cut(s) 476
Hsp92II CATG 1 cut(s) 23
Kzo9I GATC 6 cut(s) 16, 41, 56, 67, 259, 517
LguI GCTCTTC 1 cut(s) 301
Lsp1109I GCAGC 3 cut(s) 111, 391, 550
LweI GCATC 1 cut(s) 364
MaeI CTAG 1 cut(s) 378
MaeII ACGT 2 cut(s) 366, 707
MaeIII GTNAC 2 cut(s) 472, 679
MalI GATC 6 cut(s) 18, 43, 58, 69, 261, 519
MboI GATC 6 cut(s) 16, 41, 56, 67, 259, 517
MboII GAAGA 5 cut(s) 26, 112, 221, 318, 449
MfeI CAATTG 1 cut(s) 662
MflI RGATCY 1 cut(s) 41
MlsI TGGCCA 1 cut(s) 395
MluCI AATT 6 cut(s) 274, 318, 389, 441, 466, 662
MluNI TGGCCA 1 cut(s) 395
MlyI GAGTC 2 cut(s) 194, 680
MnlI CCTC 7 cut(s) 90, 100, 103, 211, 260, 533, 660
Mox20I TGGCCA 1 cut(s) 395
MscI TGGCCA 1 cut(s) 395
MseI TTAA 3 cut(s) 321, 446, 599
MslI CAYNNNNRTG 1 cut(s) 92
Msp20I TGGCCA 1 cut(s) 395
MspA1I CMGCKG 1 cut(s) 404
MspI CCGG 2 cut(s) 121, 512
MspR9I CCNGG 4 cut(s) 121, 264, 512, 639
MunI CAATTG 1 cut(s) 662
MvaI CCWGG 2 cut(s) 264, 639
MvnI CGCG 1 cut(s) 627
MwoI GCNNNNNNNGC 2 cut(s) 401, 603
NciI CCSGG 2 cut(s) 121, 512
NdeII GATC 6 cut(s) 16, 41, 56, 67, 259, 517
NheI GCTAGC 1 cut(s) 377
NlaIII CATG 1 cut(s) 23
NlaIV GGNNCC 3 cut(s) 502, 510, 623
NmuCI GTSAC 1 cut(s) 472
NspV TTCGAA 1 cut(s) 657
PagI TCATGA 1 cut(s) 19
PciSI GCTCTTC 1 cut(s) 301
PcsI WCGNNNNNNNCGW 2 cut(s) 151, 654
PfeI GAWTC 1 cut(s) 281
PfoI TCCNGGA 1 cut(s) 262
PkrI GCNGC 3 cut(s) 126, 406, 540
PleI GAGTC 2 cut(s) 193, 679
PpsI GAGTC 2 cut(s) 193, 679
Psp6I CCWGG 2 cut(s) 262, 637
PspGI CCWGG 2 cut(s) 262, 637
PspN4I GGNNCC 3 cut(s) 502, 510, 623
PspPI GGNCC 2 cut(s) 501, 508
PsuI RGATCY 1 cut(s) 41
RseI CAYNNNNRTG 1 cut(s) 92
SapI GCTCTTC 1 cut(s) 301
SaqAI TTAA 3 cut(s) 321, 446, 599
SatI GCNGC 3 cut(s) 125, 405, 539
Sau3AI GATC 6 cut(s) 16, 41, 56, 67, 259, 517
Sau96I GGNCC 2 cut(s) 501, 508
SchI GAGTC 2 cut(s) 194, 680
ScrFI CCNGG 4 cut(s) 121, 264, 512, 639
SetI ASST 7 cut(s) 31, 335, 369, 525, 599, 633, 710
SfaNI GCATC 1 cut(s) 364
SfuI TTCGAA 1 cut(s) 657
SinI GGWCC 2 cut(s) 501, 508
SmiMI CAYNNNNRTG 1 cut(s) 92
SmlI CTYRAG 2 cut(s) 199, 288
SmoI CTYRAG 2 cut(s) 199, 288
Sse9I AATT 6 cut(s) 274, 318, 389, 441, 466, 662
SsiI CCGC 3 cut(s) 75, 402, 625
SspMI CTAG 1 cut(s) 378
StyD4I CCNGG 4 cut(s) 119, 262, 510, 637
TaiI ACGT 2 cut(s) 369, 710
TaqI TCGA 3 cut(s) 145, 435, 657
TasI AATT 6 cut(s) 274, 318, 389, 441, 466, 662
TfiI GAWTC 1 cut(s) 281
Tru1I TTAA 3 cut(s) 321, 446, 599
Tru9I TTAA 3 cut(s) 321, 446, 599
TseFI GTSAC 1 cut(s) 472
TseI GCWGC 3 cut(s) 124, 404, 538
Tsp45I GTSAC 1 cut(s) 472
TspDTI ATGAA 2 cut(s) 222, 264
TspGWI ACGGA 1 cut(s) 521
VpaK11BI GGWCC 2 cut(s) 501, 508
XapI RAATTY 2 cut(s) 274, 441
XcmI CCANNNNNNNNNTGG 1 cut(s) 511
XmiI GTMKAC 1 cut(s) 31
XspI CTAG 1 cut(s) 378
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.