FvH4_5g06481

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0001340
Physical Location & Seq
Reverse (-)
3808968 .. 3809411
444 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g06481.t1

Sequence Viewer

Length: 366 bp
ATGGAAGAAAATGAGGTTGCCACTGATATGACAGAGTACATGAATTGGATGCAAAATGACTCTGCCATTATGTCTATACTTGCTGCTACTTTGTCCAATGATGCTCTCTCCTTCATTATTGGAAGCAAGTTTTCTGAGAAAATTTGGTGTCGGCTTAAGGAGAAATATGTTGATGATTCAAGAGTGAAGTCAATATGTGATCAACTTGCTACAATGGGAGTTTATATGGATGATGAAGATATTGTAGTCTCAGTTCTTAATGGTTTGCCTTCAGAGTTTGCTACCATAAAAACTGTTATAAGAATCAAAGCACTGAGCTCCTCTGTTTCAATGAAAGACTTAAAGGTCTCTTTTGTTGATTGGTGA
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

Protein Analysis

122

Amino Acids

13.65

Weight (kDa)

4.47

Isoelectric Point (pI)

34.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 61 - 112 6.3e-06 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 299
AasI GACNNNNNNGTC 1 cut(s) 344
AcsI RAATTY 1 cut(s) 141
AcuI CTGAAG 1 cut(s) 255
AfaI GTAC 1 cut(s) 38
AflII CTTAAG 1 cut(s) 155
AgsI TTSAA 2 cut(s) 180, 330
AluBI AGCT 1 cut(s) 318
AluI AGCT 1 cut(s) 318
Alw21I GWGCWC 1 cut(s) 320
Alw26I GTCTC 2 cut(s) 253, 352
ApeKI GCWGC 1 cut(s) 83
ApoI RAATTY 1 cut(s) 141
BanII GRGCYC 1 cut(s) 320
Bbv12I GWGCWC 1 cut(s) 320
BbvI GCAGC 1 cut(s) 70
BclI TGATCA 1 cut(s) 199
BcoDI GTCTC 2 cut(s) 253, 352
BfrI CTTAAG 1 cut(s) 155
BisI GCNGC 1 cut(s) 84
BlsI GCNGC 1 cut(s) 85
BmsI GCATC 2 cut(s) 39, 91
BsaI GGTCTC 1 cut(s) 352
BseGI GGATG 2 cut(s) 54, 235
BseMII CTCAG 3 cut(s) 126, 264, 305
BseRI GAGGAG 1 cut(s) 310
BseXI GCAGC 1 cut(s) 70
BsiHKAI GWGCWC 1 cut(s) 320
BsmAI GTCTC 2 cut(s) 253, 352
Bso31I GGTCTC 1 cut(s) 352
Bsp1286I GDGCHC 1 cut(s) 320
Bsp143I GATC 1 cut(s) 199
BspCNI CTCAG 3 cut(s) 127, 263, 306
BspTI CTTAAG 1 cut(s) 155
BspTNI GGTCTC 1 cut(s) 352
BssMI GATC 1 cut(s) 199
Bst4CI ACNGT 1 cut(s) 295
BstAFI CTTAAG 1 cut(s) 155
BstDEI CTNAG 3 cut(s) 135, 250, 314
BstF5I GGATG 2 cut(s) 54, 235
BstKTI GATC 1 cut(s) 202
BstMAI GTCTC 2 cut(s) 253, 352
BstMBI GATC 1 cut(s) 199
BstV1I GCAGC 1 cut(s) 70
BtsCI GGATG 2 cut(s) 54, 235
BtsIMutI CAGTG 2 cut(s) 21, 311
Csp6I GTAC 1 cut(s) 37
CviAII CATG 1 cut(s) 40
CviJI RGCY 2 cut(s) 154, 318
CviKI_1 RGCY 2 cut(s) 154, 318
CviQI GTAC 1 cut(s) 37
DdeI CTNAG 3 cut(s) 135, 250, 314
DpnI GATC 1 cut(s) 201
DpnII GATC 1 cut(s) 199
DrdI GACNNNNNNGTC 1 cut(s) 344
DseDI GACNNNNNNGTC 1 cut(s) 344
Ecl136II GAGCTC 1 cut(s) 318
Eco24I GRGCYC 1 cut(s) 320
Eco31I GGTCTC 1 cut(s) 352
Eco53kI GAGCTC 1 cut(s) 318
Eco57I CTGAAG 1 cut(s) 255
EcoICRI GAGCTC 1 cut(s) 318
EcoT38I GRGCYC 1 cut(s) 320
FaeI CATG 1 cut(s) 43
FatI CATG 1 cut(s) 39
FbaI TGATCA 1 cut(s) 199
Fnu4HI GCNGC 1 cut(s) 84
FokI GGATG 2 cut(s) 61, 242
FriOI GRGCYC 1 cut(s) 320
Fsp4HI GCNGC 1 cut(s) 84
GluI GCNGC 1 cut(s) 84
Hin1II CATG 1 cut(s) 43
HinfI GANTC 3 cut(s) 59, 176, 303
Hpy188I TCNGA 2 cut(s) 136, 274
Hpy188III TCNNGA 1 cut(s) 180
HpyAV CCTTC 2 cut(s) 121, 279
HpyCH4III ACNGT 1 cut(s) 295
HpyCH4V TGCA 1 cut(s) 52
HpyF3I CTNAG 3 cut(s) 135, 250, 314
Hsp92II CATG 1 cut(s) 43
Ksp22I TGATCA 1 cut(s) 199
Kzo9I GATC 1 cut(s) 199
LmnI GCTCC 1 cut(s) 323
Lsp1109I GCAGC 1 cut(s) 70
LweI GCATC 2 cut(s) 39, 91
MalI GATC 1 cut(s) 201
MboI GATC 1 cut(s) 199
MboII GAAGA 2 cut(s) 17, 248
MhlI GDGCHC 1 cut(s) 320
MluCI AATT 2 cut(s) 43, 141
MlyI GAGTC 1 cut(s) 53
MnlI CCTC 2 cut(s) 7, 331
MseI TTAA 3 cut(s) 156, 258, 341
MslI CAYNNNNRTG 1 cut(s) 26
MspCI CTTAAG 1 cut(s) 155
NdeII GATC 1 cut(s) 199
NlaIII CATG 1 cut(s) 43
PfeI GAWTC 2 cut(s) 176, 303
PkrI GCNGC 1 cut(s) 85
PleI GAGTC 1 cut(s) 53
PpsI GAGTC 1 cut(s) 53
PsiI TTATAA 1 cut(s) 299
Psp124BI GAGCTC 1 cut(s) 320
PsrI GAACNNNNNNTAC 2 cut(s) 237, 269
RsaI GTAC 1 cut(s) 38
RsaNI GTAC 1 cut(s) 37
RseI CAYNNNNRTG 1 cut(s) 26
SacI GAGCTC 1 cut(s) 320
SaqAI TTAA 3 cut(s) 156, 258, 341
SatI GCNGC 1 cut(s) 84
Sau3AI GATC 1 cut(s) 199
SchI GAGTC 1 cut(s) 53
SduI GDGCHC 1 cut(s) 320
SetI ASST 3 cut(s) 18, 320, 348
SfaNI GCATC 2 cut(s) 39, 91
SgeI CNNG 5 cut(s) 52, 92, 139, 192, 218
SmiMI CAYNNNNRTG 1 cut(s) 26
SmlI CTYRAG 1 cut(s) 155
SmoI CTYRAG 1 cut(s) 155
Sse9I AATT 2 cut(s) 43, 141
SstI GAGCTC 1 cut(s) 320
TaaI ACNGT 1 cut(s) 295
TasI AATT 2 cut(s) 43, 141
TatI WGTACW 1 cut(s) 36
TfiI GAWTC 2 cut(s) 176, 303
Tru1I TTAA 3 cut(s) 156, 258, 341
Tru9I TTAA 3 cut(s) 156, 258, 341
TscAI CASTG 2 cut(s) 28, 318
TseI GCWGC 1 cut(s) 83
TspDTI ATGAA 4 cut(s) 56, 103, 249, 347
TspRI CASTG 2 cut(s) 28, 318
Vha464I CTTAAG 1 cut(s) 155
XapI RAATTY 1 cut(s) 141
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.