FvH4_2g00082

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0016247
Physical Location & Seq
Forward (+)
178695 .. 179330
636 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g00082.t1

Sequence Viewer

Length: 561 bp
ATGGCTCCTTCACACAACAAGAGAAGCAAGGGTGCTAACAGCACCATGTCTTCACAAGATGGGGGAGGGCGTCAAGATGGTGAAGAGTGTCAGGAGGAGTCTGCCTCTAGGCAACACGAGTCTGGGAATCATGATAACATGCATGAGAAGGAGACGGTGATCACTGCCGCCAATCTCCTACCTAAGAAACCCCAAGAGGAACCAGACAAGCACTCTCAAGAAGCTAGAGATAAGAACTCTCATGAGGAGTCAGCCCCAGGGGCAGTAGTCAAAGAATCCAAGCAAAAGGGATCAAGAGCTGAACAGAAGAATACTTCTTTTGTCACTCAGGAAGATGTGCTTGCCATGCTAGAAAGAGAGTTGCAGCGCACCAATGAAGATTGGAAGTACCTCCCCCAACCACCTTACTCAGCAAGCTTGGTCAATCGCCCTTATCCCAAAGGTTATGAAACACCAAGCTTTGTCCTCTTTGATGGGAGAAAAGGAAGTCCAAGAGAGCACATAAGCCGTTTCATTGATGCTCTTGGACCTCACGCTGGTGATCATAATCTCAGGCTCTAG
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

187

Amino Acids

20.83

Weight (kDa)

6.15

Isoelectric Point (pI)

69.28

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)
AciI CCGC 1 cut(s) 168
AclWI GGATC 1 cut(s) 298
AcyI GRCGYC 1 cut(s) 70
AfaI GTAC 1 cut(s) 389
AfiI CCNNNNNNNGG 1 cut(s) 536
AjnI CCWGG 1 cut(s) 256
AleI CACNNNNGTG 1 cut(s) 537
AluBI AGCT 4 cut(s) 224, 299, 417, 459
AluI AGCT 4 cut(s) 224, 299, 417, 459
Alw21I GWGCWC 1 cut(s) 501
Alw26I GTCTC 1 cut(s) 146
AlwI GGATC 1 cut(s) 298
ApeKI GCWGC 1 cut(s) 364
AspLEI GCGC 1 cut(s) 369
AspS9I GGNCC 1 cut(s) 527
AsuHPI GGTGA 3 cut(s) 92, 169, 551
AvaII GGWCC 1 cut(s) 527
BauI CACGAG 1 cut(s) 116
BbsI GAAGAC 1 cut(s) 42
Bbv12I GWGCWC 1 cut(s) 501
BbvI GCAGC 1 cut(s) 376
BccI CCATC 3 cut(s) 53, 71, 467
BceAI ACGGC 1 cut(s) 492
BciT130I CCWGG 1 cut(s) 258
BclI TGATCA 2 cut(s) 159, 541
BcoDI GTCTC 1 cut(s) 146
BfaI CTAG 4 cut(s) 108, 225, 350, 559
BglI GCCNNNNNGGC 1 cut(s) 260
BisI GCNGC 2 cut(s) 168, 365
BlsI GCNGC 2 cut(s) 169, 366
Bme1390I CCNGG 1 cut(s) 258
Bme18I GGWCC 1 cut(s) 527
BmgT120I GGNCC 1 cut(s) 527
BmiI GGNNCC 2 cut(s) 6, 201
BmrFI CCNGG 1 cut(s) 258
BmsI GCATC 1 cut(s) 508
BpiI GAAGAC 1 cut(s) 42
BplI GAGNNNNNCTC 2 cut(s) 89, 121
BpuEI CTTGAG 1 cut(s) 201
BsaBI GATNNNNATC 1 cut(s) 546
BsaHI GRCGYC 1 cut(s) 70
BsaJI CCNNGG 2 cut(s) 256, 257
Bsc4I CCNNNNNNNGG 1 cut(s) 536
Bse8I GATNNNNATC 1 cut(s) 546
BseBI CCWGG 1 cut(s) 258
BseDI CCNNGG 2 cut(s) 256, 257
BseJI GATNNNNATC 1 cut(s) 546
BseLI CCNNNNNNNGG 1 cut(s) 536
BseMII CTCAG 2 cut(s) 341, 423
BseRI GAGGAG 2 cut(s) 110, 260
BseXI GCAGC 1 cut(s) 376
BsiHKAI GWGCWC 1 cut(s) 501
BslI CCNNNNNNNGG 1 cut(s) 536
BsmAI GTCTC 1 cut(s) 146
BsmBI CGTCTC 1 cut(s) 146
Bsp1286I GDGCHC 1 cut(s) 501
Bsp143I GATC 3 cut(s) 159, 290, 541
BspACI CCGC 1 cut(s) 168
BspCNI CTCAG 2 cut(s) 340, 422
BspHI TCATGA 2 cut(s) 130, 241
BspLI GGNNCC 2 cut(s) 6, 201
BspPI GGATC 1 cut(s) 298
BssECI CCNNGG 2 cut(s) 256, 257
BssMI GATC 3 cut(s) 159, 290, 541
BssNI GRCGYC 1 cut(s) 70
BssSI CACGAG 1 cut(s) 116
Bst2BI CACGAG 1 cut(s) 116
Bst2UI CCWGG 1 cut(s) 258
Bst4CI ACNGT 1 cut(s) 157
Bst6I CTCTTC 1 cut(s) 78
BstACI GRCGYC 1 cut(s) 70
BstC8I GCNNGC 2 cut(s) 342, 415
BstDEI CTNAG 4 cut(s) 183, 327, 409, 551
BstHHI GCGC 1 cut(s) 369
BstKTI GATC 3 cut(s) 162, 293, 544
BstMAI GTCTC 1 cut(s) 146
BstMBI GATC 3 cut(s) 159, 290, 541
BstMWI GCNNNNNNNGC 2 cut(s) 260, 346
BstNI CCWGG 1 cut(s) 258
BstNSI RCATGY 1 cut(s) 142
BstSCI CCNGG 1 cut(s) 256
BstV1I GCAGC 1 cut(s) 376
BstV2I GAAGAC 1 cut(s) 42
BtsI GCAGTG 1 cut(s) 162
BtsIMutI CAGTG 1 cut(s) 162
Cac8I GCNNGC 2 cut(s) 342, 415
CciI TCATGA 2 cut(s) 130, 241
CfoI GCGC 1 cut(s) 369
Cfr13I GGNCC 1 cut(s) 527
CseI GACGC 1 cut(s) 59
Csp6I GTAC 1 cut(s) 388
CviAII CATG 6 cut(s) 46, 131, 139, 143, 242, 346
CviJI RGCY 8 cut(s) 5, 224, 254, 299, 417, 459, 507, 556
CviKI_1 RGCY 8 cut(s) 5, 224, 254, 299, 417, 459, 507, 556
CviQI GTAC 1 cut(s) 388
DdeI CTNAG 4 cut(s) 183, 327, 409, 551
DpnI GATC 3 cut(s) 161, 292, 543
DpnII GATC 3 cut(s) 159, 290, 541
Eam1104I CTCTTC 1 cut(s) 78
EarI CTCTTC 1 cut(s) 78
Eco47I GGWCC 1 cut(s) 527
EcoRII CCWGG 1 cut(s) 256
EcoT22I ATGCAT 1 cut(s) 144
Esp3I CGTCTC 1 cut(s) 146
FaeI CATG 6 cut(s) 49, 134, 142, 146, 245, 349
FaiI YATR 9 cut(s) 47, 132, 140, 144, 243, 347, 447, 503, 546
FalI AAGNNNNNCTT 2 cut(s) 324, 356
FatI CATG 6 cut(s) 45, 130, 138, 142, 241, 345
FbaI TGATCA 2 cut(s) 159, 541
Fnu4HI GCNGC 2 cut(s) 168, 365
Fsp4HI GCNGC 2 cut(s) 168, 365
FspBI CTAG 4 cut(s) 108, 225, 350, 559
GlaI GCGC 1 cut(s) 368
GluI GCNGC 2 cut(s) 168, 365
HgaI GACGC 1 cut(s) 59
HhaI GCGC 1 cut(s) 369
Hin1I GRCGYC 1 cut(s) 70
Hin1II CATG 6 cut(s) 49, 134, 142, 146, 245, 349
Hin6I GCGC 1 cut(s) 367
HinP1I GCGC 1 cut(s) 367
HindIII AAGCTT 2 cut(s) 415, 457
HinfI GANTC 5 cut(s) 98, 119, 127, 248, 275
HphI GGTGA 3 cut(s) 92, 169, 551
Hpy188III TCNNGA 7 cut(s) 74, 92, 131, 218, 242, 294, 329
HpyAV CCTTC 2 cut(s) 18, 142
HpyCH4III ACNGT 1 cut(s) 157
HpyCH4V TGCA 2 cut(s) 142, 364
HpyF10VI GCNNNNNNNGC 2 cut(s) 260, 346
HpyF3I CTNAG 4 cut(s) 183, 327, 409, 551
Hsp92I GRCGYC 1 cut(s) 70
Hsp92II CATG 6 cut(s) 49, 134, 142, 146, 245, 349
HspAI GCGC 1 cut(s) 367
Ksp22I TGATCA 2 cut(s) 159, 541
Kzo9I GATC 3 cut(s) 159, 290, 541
LmnI GCTCC 1 cut(s) 10
LpnPI CCDG 8 cut(s) 77, 108, 216, 243, 270, 314, 522, 538
Lsp1109I GCAGC 1 cut(s) 376
LweI GCATC 1 cut(s) 508
MaeI CTAG 4 cut(s) 108, 225, 350, 559
MaeIII GTNAC 1 cut(s) 322
MalI GATC 3 cut(s) 161, 292, 543
MboI GATC 3 cut(s) 159, 290, 541
MboII GAAGA 5 cut(s) 42, 95, 319, 344, 389
MhlI GDGCHC 1 cut(s) 501
MlyI GAGTC 3 cut(s) 107, 128, 257
MnlI CCTC 8 cut(s) 59, 88, 115, 190, 238, 401, 476, 540
Mph1103I ATGCAT 1 cut(s) 144
MslI CAYNNNNRTG 1 cut(s) 537
MspR9I CCNGG 1 cut(s) 258
MvaI CCWGG 1 cut(s) 258
MwoI GCNNNNNNNGC 2 cut(s) 260, 346
NdeII GATC 3 cut(s) 159, 290, 541
NlaIII CATG 6 cut(s) 49, 134, 142, 146, 245, 349
NlaIV GGNNCC 2 cut(s) 6, 201
NmuCI GTSAC 1 cut(s) 322
NsiI ATGCAT 1 cut(s) 144
NspI RCATGY 1 cut(s) 142
OliI CACNNNNGTG 1 cut(s) 537
PagI TCATGA 2 cut(s) 130, 241
PasI CCCWGGG 1 cut(s) 257
PfeI GAWTC 2 cut(s) 127, 275
PkrI GCNGC 2 cut(s) 169, 366
PleI GAGTC 3 cut(s) 106, 127, 256
PpsI GAGTC 3 cut(s) 106, 127, 256
Psp6I CCWGG 1 cut(s) 256
PspGI CCWGG 1 cut(s) 256
PspN4I GGNNCC 2 cut(s) 6, 201
PspPI GGNCC 1 cut(s) 527
RsaI GTAC 1 cut(s) 389
RsaNI GTAC 1 cut(s) 388
RseI CAYNNNNRTG 1 cut(s) 537
SatI GCNGC 2 cut(s) 168, 365
Sau3AI GATC 3 cut(s) 159, 290, 541
Sau96I GGNCC 1 cut(s) 527
SchI GAGTC 3 cut(s) 107, 128, 257
ScrFI CCNGG 1 cut(s) 258
SduI GDGCHC 1 cut(s) 501
SetI ASST 9 cut(s) 184, 226, 301, 393, 406, 419, 445, 461, 532
SfaNI GCATC 1 cut(s) 508
SinI GGWCC 1 cut(s) 527
SmiMI CAYNNNNRTG 1 cut(s) 537
SmlI CTYRAG 1 cut(s) 216
SmoI CTYRAG 1 cut(s) 216
SsiI CCGC 1 cut(s) 168
SspMI CTAG 4 cut(s) 108, 225, 350, 559
StyD4I CCNGG 1 cut(s) 256
TaaI ACNGT 1 cut(s) 157
TauI GCSGC 1 cut(s) 170
TfiI GAWTC 2 cut(s) 127, 275
TscAI CASTG 1 cut(s) 169
TseFI GTSAC 1 cut(s) 322
TseI GCWGC 1 cut(s) 364
Tsp45I GTSAC 1 cut(s) 322
TspDTI ATGAA 3 cut(s) 390, 462, 502
TspRI CASTG 1 cut(s) 169
VpaK11BI GGWCC 1 cut(s) 527
XceI RCATGY 1 cut(s) 142
XspI CTAG 4 cut(s) 108, 225, 350, 559
Zsp2I ATGCAT 1 cut(s) 144
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.