FvH4_4g02081

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0016247
Physical Location & Seq
Forward (+)
1870912 .. 1871844
933 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g02081.t1

Sequence Viewer

Length: 855 bp
ATGGCCCCAAGCAAGAGAAGCAAGAATGCACGCTCTCAAGAGAATGAGACAGTGGAGGAGCTAATCGTCACCGATCTCGTACGCGCCCTCACCAAGCTTGGAGATACCCAAAGAGAGCTCATACAAGCTGTGAAAGACCTAAAGAATCCCAACCCTGCGCTGAAGCCAAACACTGAGCACCATGAGAAGGTCTCACAAGAAGAATCTGAGGCAGCTAAAGGGTCCGAGCAGAAAGGGCCATCCTTTGGCACGCAGGAGGACGTGGTAGCCATGTTGGAAAAGGAGCTACACCGCACTAATGAGGACTGGAAGTATATCCCTCAACCCCCCTGTCTATCGAATTTGATCTCCATGCCTTACCCTAAGGGTTATGAAACACCAAACTTTGCTCTTTTTGACGGAAGGAAGGGAAGTCCCAAGGAGCACATTAGTCGCTTCATCAATACACTCAGGCCTCATGCTGCGGATCATAATCTTAGGCTTTGTGAGTTTTCAAAATCACTTACCGACTGTGCTTATACATGGTACACCACACTCGCTGCAAGTTCAGTCCGGTCTTGGAAAGATTTGGCAAGTAGGTTTTGCAAAAAATACTTTGAGCATGAGGAGAGTGTTACCATTACTCAGCTCAACTACACTCGCCAAAAAACCAGAGAAAACCTTGTGGACTTTGTTCGCAGGTTTAGAGATTTGACTTTCGATTGTTATGATGAGAAAAGGGATAGGTCTCTGGTTGAAATTTGCATCAGTAACACGCTGCCAGAATACAAAGTTTATTTGGAAAATGTTGGCATCAGCCAATTCTCCGAATTGATGGATGCGGCAAAGAAGACAAGCATGTCAATGAAAGCATAG
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

285

Amino Acids

32.73

Weight (kDa)

7.05

Isoelectric Point (pI)

42.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 164 - 244 1.2e-10 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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 838
Acc36I ACCTGC 1 cut(s) 669
AccB7I CCANNNNNTGG 1 cut(s) 245
AccII CGCG 1 cut(s) 84
AciI CCGC 3 cut(s) 292, 464, 821
AclWI GGATC 1 cut(s) 474
AcsI RAATTY 2 cut(s) 340, 738
AcuI CTGAAG 1 cut(s) 182
AfaI GTAC 2 cut(s) 81, 527
AfiI CCNNNNNNNGG 2 cut(s) 187, 245
AgsI TTSAA 2 cut(s) 495, 737
AjiI CACGTC 1 cut(s) 262
AluBI AGCT 7 cut(s) 61, 97, 118, 128, 215, 286, 628
AluI AGCT 7 cut(s) 61, 97, 118, 128, 215, 286, 628
Alw21I GWGCWC 3 cut(s) 120, 180, 426
Alw26I GTCTC 3 cut(s) 41, 196, 732
AlwI GGATC 1 cut(s) 474
AoxI GGCC 3 cut(s) 3, 236, 452
ApeKI GCWGC 4 cut(s) 212, 461, 539, 757
ApoI RAATTY 2 cut(s) 340, 738
AspLEI GCGC 2 cut(s) 86, 160
AspS9I GGNCC 3 cut(s) 4, 222, 236
AsuHPI GGTGA 2 cut(s) 61, 82
AvaII GGWCC 1 cut(s) 222
AxyI CCTNAGG 1 cut(s) 363
BanII GRGCYC 1 cut(s) 120
BbsI GAAGAC 1 cut(s) 836
Bbv12I GWGCWC 3 cut(s) 120, 180, 426
BbvI GCAGC 4 cut(s) 224, 448, 526, 744
BccI CCATC 2 cut(s) 247, 808
BcgI CGANNNNNNTGC 2 cut(s) 413, 447
BcoDI GTCTC 3 cut(s) 41, 196, 732
BfuAI ACCTGC 1 cut(s) 669
BisI GCNGC 5 cut(s) 213, 462, 540, 758, 822
BlsI GCNGC 5 cut(s) 214, 463, 541, 759, 823
Bme18I GGWCC 1 cut(s) 222
BmgBI CACGTC 1 cut(s) 262
BmgT120I GGNCC 3 cut(s) 4, 222, 236
BmiI GGNNCC 2 cut(s) 6, 223
BmsI GCATC 3 cut(s) 753, 801, 808
BpiI GAAGAC 1 cut(s) 836
BplI GAGNNNNNCTC 2 cut(s) 176, 208
BpuEI CTTGAG 1 cut(s) 21
BsaBI GATNNNNATC 1 cut(s) 471
BsaI GGTCTC 2 cut(s) 196, 732
BsaJI CCNNGG 1 cut(s) 417
BsaWI WCCGGW 1 cut(s) 552
Bsc4I CCNNNNNNNGG 2 cut(s) 187, 245
Bse1I ACTGG 1 cut(s) 311
Bse21I CCTNAGG 1 cut(s) 363
Bse8I GATNNNNATC 1 cut(s) 471
BseDI CCNNGG 1 cut(s) 417
BseGI GGATG 2 cut(s) 239, 823
BseJI GATNNNNATC 1 cut(s) 471
BseLI CCNNNNNNNGG 2 cut(s) 187, 245
BseMII CTCAG 4 cut(s) 165, 198, 463, 638
BseNI ACTGG 1 cut(s) 311
BseRI GAGGAG 2 cut(s) 71, 620
BseXI GCAGC 4 cut(s) 224, 448, 526, 744
Bsh1236I CGCG 1 cut(s) 84
BshFI GGCC 3 cut(s) 5, 238, 454
BsiHKAI GWGCWC 3 cut(s) 120, 180, 426
BsiSI CCGG 1 cut(s) 553
BsiWI CGTACG 1 cut(s) 79
BslFI GGGAC 1 cut(s) 399
BslI CCNNNNNNNGG 2 cut(s) 187, 245
BsmAI GTCTC 3 cut(s) 41, 196, 732
BsmFI GGGAC 1 cut(s) 399
BsmI GAATGC 1 cut(s) 31
BsnI GGCC 3 cut(s) 5, 238, 454
Bso31I GGTCTC 2 cut(s) 196, 732
Bsp1286I GDGCHC 3 cut(s) 120, 180, 426
Bsp143I GATC 3 cut(s) 73, 345, 466
BspACI CCGC 3 cut(s) 292, 464, 821
BspANI GGCC 3 cut(s) 5, 238, 454
BspCNI CTCAG 4 cut(s) 166, 199, 462, 637
BspFNI CGCG 1 cut(s) 84
BspLI GGNNCC 2 cut(s) 6, 223
BspMI ACCTGC 1 cut(s) 669
BspPI GGATC 1 cut(s) 474
BspTNI GGTCTC 2 cut(s) 196, 732
BsrI ACTGG 1 cut(s) 311
BssECI CCNNGG 1 cut(s) 417
BssMI GATC 3 cut(s) 73, 345, 466
BssT1I CCWWGG 1 cut(s) 417
Bst4CI ACNGT 2 cut(s) 52, 512
BstC8I GCNNGC 2 cut(s) 31, 251
BstDEI CTNAG 6 cut(s) 174, 207, 363, 449, 476, 624
BstF5I GGATG 2 cut(s) 239, 823
BstFNI CGCG 1 cut(s) 84
BstHHI GCGC 2 cut(s) 86, 160
BstKTI GATC 3 cut(s) 76, 348, 469
BstMAI GTCTC 3 cut(s) 41, 196, 732
BstMBI GATC 3 cut(s) 73, 345, 466
BstMWI GCNNNNNNNGC 2 cut(s) 18, 235
BstNSI RCATGY 1 cut(s) 841
BstUI CGCG 1 cut(s) 84
BstV1I GCAGC 4 cut(s) 224, 448, 526, 744
BstV2I GAAGAC 1 cut(s) 836
Bsu36I CCTNAGG 1 cut(s) 363
BsuRI GGCC 3 cut(s) 5, 238, 454
BtrI CACGTC 1 cut(s) 262
BtsCI GGATG 2 cut(s) 239, 823
BtsIMutI CAGTG 2 cut(s) 57, 171
BveI ACCTGC 1 cut(s) 669
Cac8I GCNNGC 2 cut(s) 31, 251
CfoI GCGC 2 cut(s) 86, 160
Cfr13I GGNCC 3 cut(s) 4, 222, 236
Csp6I GTAC 2 cut(s) 80, 526
CviAII CATG 7 cut(s) 182, 271, 352, 458, 522, 602, 838
CviQI GTAC 2 cut(s) 80, 526
DdeI CTNAG 6 cut(s) 174, 207, 363, 449, 476, 624
DpnI GATC 3 cut(s) 75, 347, 468
DpnII GATC 3 cut(s) 73, 345, 466
DrdI GACNNNNNNGTC 1 cut(s) 838
DseDI GACNNNNNNGTC 1 cut(s) 838
Ecl136II GAGCTC 1 cut(s) 118
Eco130I CCWWGG 1 cut(s) 417
Eco147I AGGCCT 1 cut(s) 454
Eco24I GRGCYC 1 cut(s) 120
Eco31I GGTCTC 2 cut(s) 196, 732
Eco47I GGWCC 1 cut(s) 222
Eco53kI GAGCTC 1 cut(s) 118
Eco57I CTGAAG 1 cut(s) 182
Eco81I CCTNAGG 1 cut(s) 363
EcoICRI GAGCTC 1 cut(s) 118
EcoT14I CCWWGG 1 cut(s) 417
EcoT38I GRGCYC 1 cut(s) 120
ErhI CCWWGG 1 cut(s) 417
FaeI CATG 7 cut(s) 185, 274, 355, 461, 525, 605, 841
FaqI GGGAC 1 cut(s) 399
FatI CATG 7 cut(s) 181, 270, 351, 457, 521, 601, 837
Fnu4HI GCNGC 5 cut(s) 213, 462, 540, 758, 822
FokI GGATG 2 cut(s) 226, 830
FriOI GRGCYC 1 cut(s) 120
Fsp4HI GCNGC 5 cut(s) 213, 462, 540, 758, 822
GlaI GCGC 2 cut(s) 85, 159
GluI GCNGC 5 cut(s) 213, 462, 540, 758, 822
HaeIII GGCC 3 cut(s) 5, 238, 454
HapII CCGG 1 cut(s) 553
HhaI GCGC 2 cut(s) 86, 160
Hin1II CATG 7 cut(s) 185, 274, 355, 461, 525, 605, 841
Hin6I GCGC 2 cut(s) 84, 158
HinP1I GCGC 2 cut(s) 84, 158
HindIII AAGCTT 1 cut(s) 95
HinfI GANTC 2 cut(s) 145, 203
HpaII CCGG 1 cut(s) 553
HphI GGTGA 2 cut(s) 61, 82
Hpy166II GTNNAC 2 cut(s) 528, 667
Hpy188I TCNGA 3 cut(s) 208, 226, 808
Hpy188III TCNNGA 1 cut(s) 38
Hpy8I GTNNAC 2 cut(s) 528, 667
HpyAV CCTTC 3 cut(s) 181, 396, 400
HpyCH4III ACNGT 2 cut(s) 52, 512
HpyCH4IV ACGT 1 cut(s) 261
HpyCH4V TGCA 4 cut(s) 29, 542, 585, 744
HpyF10VI GCNNNNNNNGC 2 cut(s) 18, 235
HpyF3I CTNAG 6 cut(s) 174, 207, 363, 449, 476, 624
HpySE526I ACGT 1 cut(s) 261
Hsp92II CATG 7 cut(s) 185, 274, 355, 461, 525, 605, 841
HspAI GCGC 2 cut(s) 84, 158
Kzo9I GATC 3 cut(s) 73, 345, 466
LmnI GCTCC 3 cut(s) 58, 283, 421
Lsp1109I GCAGC 4 cut(s) 224, 448, 526, 744
LweI GCATC 3 cut(s) 753, 801, 808
MaeII ACGT 1 cut(s) 261
MaeIII GTNAC 3 cut(s) 67, 613, 749
MalI GATC 3 cut(s) 75, 347, 468
MboI GATC 3 cut(s) 73, 345, 466
MboII GAAGA 2 cut(s) 212, 841
MhlI GDGCHC 3 cut(s) 120, 180, 426
MluCI AATT 4 cut(s) 340, 738, 800, 809
MmeI TCCRAC 1 cut(s) 255
MnlI CCTC 8 cut(s) 49, 98, 202, 250, 295, 330, 465, 598
MslI CAYNNNNRTG 1 cut(s) 842
MspI CCGG 1 cut(s) 553
Mva1269I GAATGC 1 cut(s) 31
MvnI CGCG 1 cut(s) 84
MwoI GCNNNNNNNGC 2 cut(s) 18, 235
NdeII GATC 3 cut(s) 73, 345, 466
NlaIII CATG 7 cut(s) 185, 274, 355, 461, 525, 605, 841
NlaIV GGNNCC 2 cut(s) 6, 223
NmuCI GTSAC 1 cut(s) 67
NspI RCATGY 1 cut(s) 841
PceI AGGCCT 1 cut(s) 454
PctI GAATGC 1 cut(s) 31
PfeI GAWTC 2 cut(s) 145, 203
Pfl23II CGTACG 1 cut(s) 79
PflMI CCANNNNNTGG 1 cut(s) 245
PkrI GCNGC 5 cut(s) 214, 463, 541, 759, 823
Psp124BI GAGCTC 1 cut(s) 120
PspLI CGTACG 1 cut(s) 79
PspN4I GGNNCC 2 cut(s) 6, 223
PspPI GGNCC 3 cut(s) 4, 222, 236
RsaI GTAC 2 cut(s) 81, 527
RsaNI GTAC 2 cut(s) 80, 526
RseI CAYNNNNRTG 1 cut(s) 842
SacI GAGCTC 1 cut(s) 120
SatI GCNGC 5 cut(s) 213, 462, 540, 758, 822
Sau3AI GATC 3 cut(s) 73, 345, 466
Sau96I GGNCC 3 cut(s) 4, 222, 236
SduI GDGCHC 3 cut(s) 120, 180, 426
SfaNI GCATC 3 cut(s) 753, 801, 808
SinI GGWCC 1 cut(s) 222
SmiMI CAYNNNNRTG 1 cut(s) 842
SmlI CTYRAG 1 cut(s) 36
SmoI CTYRAG 1 cut(s) 36
Sse9I AATT 4 cut(s) 340, 738, 800, 809
SseBI AGGCCT 1 cut(s) 454
SsiI CCGC 3 cut(s) 292, 464, 821
SstI GAGCTC 1 cut(s) 120
StuI AGGCCT 1 cut(s) 454
StyI CCWWGG 1 cut(s) 417
TaaI ACNGT 2 cut(s) 52, 512
TaiI ACGT 1 cut(s) 264
TaqI TCGA 2 cut(s) 338, 699
TasI AATT 4 cut(s) 340, 738, 800, 809
TauI GCSGC 1 cut(s) 824
TfiI GAWTC 2 cut(s) 145, 203
TscAI CASTG 2 cut(s) 57, 178
TseFI GTSAC 1 cut(s) 67
TseI GCWGC 4 cut(s) 212, 461, 539, 757
Tsp45I GTSAC 1 cut(s) 67
TspDTI ATGAA 2 cut(s) 387, 427
TspGWI ACGGA 1 cut(s) 414
TspRI CASTG 2 cut(s) 57, 178
Van91I CCANNNNNTGG 1 cut(s) 245
VpaK11BI GGWCC 1 cut(s) 222
XapI RAATTY 2 cut(s) 340, 738
XceI RCATGY 1 cut(s) 841
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.