FvH4_4g17921

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0016247
Physical Location & Seq
Forward (+)
21901763 .. 21903427
1665 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g17921.t1

Sequence Viewer

Length: 1128 bp
ATGGGGGAGAGCATCAAGAAGGCAAAGAACGTCAAGAAGAGTCTGCCTCCAGACAACATGAGTCCGGGAATCATGATAACATGGATGAGCTCCCTCTCAGCTAAAAACCTCCGAGAGGAACCAGACAAGCACTCTCAAGATGCTAAGGACAAGAATTCTCATGAGGAGTCAGCCCTAGTGGCAACAAATAAAGAATCAGAGCAAAAGAGATCAGGAGCTGAACAGAAAACTACTTTTTTTGTCACTCAAGAAGATGTGATTGCCATGCTAGAAAGAAAGTTGCAACGCACCAATAAAGACTGGAAGTACCTCCCCCAACCACCTTACTTAGCAAGCTTAGTCAATCGCCCTTATCCTAAAGGTTATGAAACACCAAGCTTTGTGCTCTTTGATGGGAGAAAGGGAAGTCCAAGAGAGCACATAAGTTGTTTCATTGATGCTCTTGGACCTCATGTTGGTGATCATAATCTCAGGCTCCGTGAATTCTCAAAAACCCTCACTGACCATGCCTACACTTGGTATACTACTCTAGCACCAGGTTCTATTCATACTTGGGAAGATATGGAAAGCAAGTTTTGTAAAAAGTACTTTGAGCACGAGGAGAGAGTCACTTTGGCTCAACTCAACAGCACGCGCCAAAGATCAAGCGAAAATCTAGTTCAATTTGTGAGGTGTTACAGAGACCTTGCTTATGATTGCTATGATGAGAAAGGAGAAGAAGCCTTGGTGGAGATCTGCATTGGTAACATGCTACCTGAATTCAGGGTGTACCTTGAGAATGCCAACATAGGAAAAGAAATAGTCGCTTTCATTACTTGCTTTGATGACGATATGGATGAAGGAAGCCGCTCTAGCAGCCGGGTGCCCTACTTGGTCACTGAGCCGGAAGAAGGAAGCTTTGACCTAGTTTCTTGGAATAAGAACTGCAGGCCTCAAAGTTACAATACCCCATGGTCTGATCTTATGAAGTGGAAGGAAGATGAGCATGCTCACTATCACATGGGGGCTTCAGGCTACAAAGAAGTGACTGCAATAACGTTCATGGGAACAGAGGAAAATGGGGCAAGGTCTCACCTGAAGGGAGGCATAAGACAGCGATCTTATCCAACATGTGCACAAGTTCTCTAG
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

376

Amino Acids

43.1

Weight (kDa)

6.0

Isoelectric Point (pI)

52.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 162 - 247 1.6e-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)
AccB1I GGYRCC 1 cut(s) 862
AccBSI CCGCTC 1 cut(s) 849
AccI GTMKAC 1 cut(s) 521
AccII CGCG 1 cut(s) 634
AciI CCGC 1 cut(s) 847
AclI AACGTT 1 cut(s) 1037
AcsI RAATTY 3 cut(s) 154, 482, 758
AcuI CTGAAG 2 cut(s) 993, 1097
AfaI GTAC 3 cut(s) 308, 587, 770
AfiI CCNNNNNNNGG 4 cut(s) 115, 455, 516, 890
AflIII ACRYGT 1 cut(s) 1109
AgsI TTSAA 1 cut(s) 662
AjnI CCWGG 1 cut(s) 535
AluBI AGCT 6 cut(s) 90, 101, 218, 336, 378, 897
AluI AGCT 6 cut(s) 90, 101, 218, 336, 378, 897
Alw21I GWGCWC 5 cut(s) 92, 387, 420, 597, 1117
Alw26I GTCTC 2 cut(s) 675, 1074
Alw44I GTGCAC 1 cut(s) 1113
AlwNI CAGNNNCTG 1 cut(s) 218
AoxI GGCC 1 cut(s) 929
ApaLI GTGCAC 1 cut(s) 1113
ApeKI GCWGC 1 cut(s) 855
ApoI RAATTY 3 cut(s) 154, 482, 758
AspLEI GCGC 1 cut(s) 636
AspS9I GGNCC 1 cut(s) 446
AsuC2I CCSGG 2 cut(s) 66, 860
AsuHPI GGTGA 2 cut(s) 470, 1064
AvaII GGWCC 1 cut(s) 446
BaeGI GKGCMC 2 cut(s) 867, 1117
BanI GGYRCC 1 cut(s) 862
BanII GRGCYC 1 cut(s) 92
BauI CACGAG 1 cut(s) 596
Bbv12I GWGCWC 5 cut(s) 92, 387, 420, 597, 1117
BbvI GCAGC 1 cut(s) 867
BccI CCATC 1 cut(s) 386
BciT130I CCWGG 1 cut(s) 537
BclI TGATCA 1 cut(s) 460
BcnI CCSGG 2 cut(s) 66, 860
BcoDI GTCTC 2 cut(s) 675, 1074
BfaI CTAG 7 cut(s) 176, 269, 530, 656, 852, 905, 1126
BfmI CTRYAG 1 cut(s) 925
BglI GCCNNNNNGGC 1 cut(s) 179
BglII AGATCT 1 cut(s) 732
BisI GCNGC 2 cut(s) 847, 856
BlsI GCNGC 2 cut(s) 848, 857
BmcAI AGTACT 1 cut(s) 587
Bme1390I CCNGG 3 cut(s) 66, 537, 860
Bme18I GGWCC 1 cut(s) 446
BmgT120I GGNCC 1 cut(s) 446
BmiI GGNNCC 3 cut(s) 120, 476, 864
BmrFI CCNGG 3 cut(s) 66, 537, 860
BmsI GCATC 3 cut(s) 21, 130, 427
BplI GAGNNNNNCTC 2 cut(s) 31, 63
BpmI CTGGAG 1 cut(s) 33
Bpu10I CCTNAGC 1 cut(s) 144
BpuEI CTTGAG 3 cut(s) 120, 231, 794
BpuMI CCSGG 2 cut(s) 66, 860
BsaBI GATNNNNATC 1 cut(s) 465
BsaI GGTCTC 2 cut(s) 675, 1074
BsaJI CCNNGG 2 cut(s) 723, 950
Bsc4I CCNNNNNNNGG 4 cut(s) 115, 455, 516, 890
Bse1I ACTGG 1 cut(s) 305
Bse8I GATNNNNATC 1 cut(s) 465
BseBI CCWGG 1 cut(s) 537
BseDI CCNNGG 2 cut(s) 723, 950
BseGI GGATG 2 cut(s) 90, 841
BseJI GATNNNNATC 1 cut(s) 465
BseLI CCNNNNNNNGG 4 cut(s) 115, 455, 516, 890
BseMII CTCAG 3 cut(s) 111, 484, 870
BseNI ACTGG 1 cut(s) 305
BseRI GAGGAG 2 cut(s) 179, 614
BseSI GKGCMC 2 cut(s) 867, 1117
BseXI GCAGC 1 cut(s) 867
Bsh1236I CGCG 1 cut(s) 634
BshFI GGCC 1 cut(s) 931
BshNI GGYRCC 1 cut(s) 862
BsiHKAI GWGCWC 5 cut(s) 92, 387, 420, 597, 1117
BsiSI CCGG 3 cut(s) 65, 859, 884
BslI CCNNNNNNNGG 4 cut(s) 115, 455, 516, 890
BsmAI GTCTC 2 cut(s) 675, 1074
BsmI GAATGC 1 cut(s) 784
BsnI GGCC 1 cut(s) 931
Bso31I GGTCTC 2 cut(s) 675, 1074
Bsp1286I GDGCHC 6 cut(s) 92, 387, 420, 597, 867, 1117
Bsp143I GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
Bsp19I CCATGG 1 cut(s) 950
BspACI CCGC 1 cut(s) 847
BspANI GGCC 1 cut(s) 931
BspCNI CTCAG 3 cut(s) 110, 483, 871
BspFNI CGCG 1 cut(s) 634
BspHI TCATGA 2 cut(s) 72, 160
BspLI GGNNCC 3 cut(s) 120, 476, 864
BspMAI CTGCAG 1 cut(s) 929
BspT107I GGYRCC 1 cut(s) 862
BspTNI GGTCTC 2 cut(s) 675, 1074
BsrBI CCGCTC 1 cut(s) 849
BsrI ACTGG 1 cut(s) 305
BssECI CCNNGG 2 cut(s) 723, 950
BssMI GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
BssNAI GTATAC 1 cut(s) 522
BssSI CACGAG 1 cut(s) 596
BssT1I CCWWGG 2 cut(s) 723, 950
Bst1107I GTATAC 1 cut(s) 522
Bst2BI CACGAG 1 cut(s) 596
Bst2UI CCWGG 1 cut(s) 537
Bst6I CTCTTC 1 cut(s) 32
BstC8I GCNNGC 4 cut(s) 334, 632, 929, 987
BstDEI CTNAG 6 cut(s) 97, 144, 328, 337, 470, 879
BstDSI CCRYGG 1 cut(s) 950
BstENI CCTNNNNNAGG 1 cut(s) 113
BstF5I GGATG 2 cut(s) 90, 841
BstFNI CGCG 1 cut(s) 634
BstHHI GCGC 1 cut(s) 636
BstKTI GATC 6 cut(s) 212, 463, 644, 735, 961, 1100
BstMAI GTCTC 2 cut(s) 675, 1074
BstMBI GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
BstMWI GCNNNNNNNGC 3 cut(s) 179, 852, 855
BstNI CCWGG 1 cut(s) 537
BstNSI RCATGY 3 cut(s) 751, 989, 1113
BstSCI CCNGG 3 cut(s) 64, 535, 858
BstSFI CTRYAG 1 cut(s) 925
BstSLI GKGCMC 2 cut(s) 867, 1117
BstUI CGCG 1 cut(s) 634
BstV1I GCAGC 1 cut(s) 867
BstX2I RGATCY 1 cut(s) 732
BstYI RGATCY 1 cut(s) 732
BstZ17I GTATAC 1 cut(s) 522
BsuRI GGCC 1 cut(s) 931
BtgI CCRYGG 1 cut(s) 950
BtsCI GGATG 2 cut(s) 90, 841
BtsIMutI CAGTG 2 cut(s) 498, 876
Cac8I GCNNGC 4 cut(s) 334, 632, 929, 987
CaiI CAGNNNCTG 1 cut(s) 218
CciI TCATGA 2 cut(s) 72, 160
CfoI GCGC 1 cut(s) 636
Cfr13I GGNCC 1 cut(s) 446
CsiI ACCWGGT 1 cut(s) 535
Csp6I GTAC 3 cut(s) 307, 586, 769
CviQI GTAC 3 cut(s) 307, 586, 769
DdeI CTNAG 6 cut(s) 97, 144, 328, 337, 470, 879
DpnI GATC 6 cut(s) 211, 462, 643, 734, 960, 1099
DpnII GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
Eam1104I CTCTTC 1 cut(s) 32
EarI CTCTTC 1 cut(s) 32
Ecl136II GAGCTC 1 cut(s) 90
Eco130I CCWWGG 2 cut(s) 723, 950
Eco147I AGGCCT 1 cut(s) 931
Eco24I GRGCYC 1 cut(s) 92
Eco31I GGTCTC 2 cut(s) 675, 1074
Eco47I GGWCC 1 cut(s) 446
Eco53kI GAGCTC 1 cut(s) 90
Eco57I CTGAAG 2 cut(s) 993, 1097
EcoICRI GAGCTC 1 cut(s) 90
EcoNI CCTNNNNNAGG 1 cut(s) 113
EcoRI GAATTC 3 cut(s) 154, 482, 758
EcoRII CCWGG 1 cut(s) 535
EcoT14I CCWWGG 2 cut(s) 723, 950
EcoT38I GRGCYC 1 cut(s) 92
ErhI CCWWGG 2 cut(s) 723, 950
FbaI TGATCA 1 cut(s) 460
FblI GTMKAC 1 cut(s) 521
Fnu4HI GCNGC 2 cut(s) 847, 856
FokI GGATG 2 cut(s) 97, 848
FriOI GRGCYC 1 cut(s) 92
Fsp4HI GCNGC 2 cut(s) 847, 856
FspBI CTAG 7 cut(s) 176, 269, 530, 656, 852, 905, 1126
GlaI GCGC 1 cut(s) 635
GluI GCNGC 2 cut(s) 847, 856
GsuI CTGGAG 1 cut(s) 33
HaeIII GGCC 1 cut(s) 931
HapII CCGG 3 cut(s) 65, 859, 884
HhaI GCGC 1 cut(s) 636
Hin6I GCGC 1 cut(s) 634
HinP1I GCGC 1 cut(s) 634
HindIII AAGCTT 3 cut(s) 334, 376, 895
HinfI GANTC 6 cut(s) 40, 61, 69, 167, 194, 606
HpaII CCGG 3 cut(s) 65, 859, 884
HphI GGTGA 2 cut(s) 470, 1064
Hpy166II GTNNAC 3 cut(s) 522, 769, 1115
Hpy188I TCNGA 3 cut(s) 113, 199, 958
Hpy188III TCNNGA 8 cut(s) 16, 34, 50, 73, 137, 161, 213, 248
Hpy8I GTNNAC 3 cut(s) 522, 769, 1115
HpyAV CCTTC 5 cut(s) 13, 833, 884, 967, 1072
HpyCH4IV ACGT 2 cut(s) 30, 1037
HpyCH4V TGCA 5 cut(s) 283, 738, 927, 1031, 1115
HpyF10VI GCNNNNNNNGC 3 cut(s) 179, 852, 855
HpyF3I CTNAG 6 cut(s) 97, 144, 328, 337, 470, 879
HpySE526I ACGT 2 cut(s) 30, 1037
HspAI GCGC 1 cut(s) 634
Ksp22I TGATCA 1 cut(s) 460
Kzo9I GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
LmnI GCTCC 3 cut(s) 95, 215, 480
Lsp1109I GCAGC 1 cut(s) 867
LweI GCATC 3 cut(s) 21, 130, 427
MabI ACCWGGT 1 cut(s) 535
MaeI CTAG 7 cut(s) 176, 269, 530, 656, 852, 905, 1126
MaeII ACGT 2 cut(s) 30, 1037
MaeIII GTNAC 7 cut(s) 241, 607, 674, 743, 874, 938, 1024
MalI GATC 6 cut(s) 211, 462, 643, 734, 960, 1099
MbiI CCGCTC 1 cut(s) 849
MboI GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
MboII GAAGA 6 cut(s) 49, 263, 569, 728, 899, 989
MflI RGATCY 1 cut(s) 732
MhlI GDGCHC 6 cut(s) 92, 387, 420, 597, 867, 1117
MluCI AATT 4 cut(s) 154, 482, 662, 758
MlyI GAGTC 4 cut(s) 49, 70, 176, 615
MslI CAYNNNNRTG 1 cut(s) 456
MspI CCGG 3 cut(s) 65, 859, 884
MspR9I CCNGG 3 cut(s) 66, 537, 860
Mva1269I GAATGC 1 cut(s) 784
MvaI CCWGG 1 cut(s) 537
MvnI CGCG 1 cut(s) 634
MwoI GCNNNNNNNGC 3 cut(s) 179, 852, 855
NciI CCSGG 2 cut(s) 66, 860
NcoI CCATGG 1 cut(s) 950
NdeII GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
NlaIV GGNNCC 3 cut(s) 120, 476, 864
NmuCI GTSAC 4 cut(s) 241, 607, 874, 1024
NspI RCATGY 3 cut(s) 751, 989, 1113
PaeI GCATGC 1 cut(s) 989
PagI TCATGA 2 cut(s) 72, 160
PceI AGGCCT 1 cut(s) 931
PciI ACATGT 1 cut(s) 1109
PctI GAATGC 1 cut(s) 784
PfeI GAWTC 2 cut(s) 69, 194
PfoI TCCNGGA 1 cut(s) 64
PkrI GCNGC 2 cut(s) 848, 857
PleI GAGTC 4 cut(s) 48, 69, 175, 614
PpsI GAGTC 4 cut(s) 48, 69, 175, 614
PscI ACATGT 1 cut(s) 1109
Psp124BI GAGCTC 1 cut(s) 92
Psp1406I AACGTT 1 cut(s) 1037
Psp6I CCWGG 1 cut(s) 535
PspGI CCWGG 1 cut(s) 535
PspN4I GGNNCC 3 cut(s) 120, 476, 864
PspPI GGNCC 1 cut(s) 446
PstI CTGCAG 1 cut(s) 929
PstNI CAGNNNCTG 1 cut(s) 218
PsuI RGATCY 1 cut(s) 732
RsaI GTAC 3 cut(s) 308, 587, 770
RsaNI GTAC 3 cut(s) 307, 586, 769
RseI CAYNNNNRTG 1 cut(s) 456
SacI GAGCTC 1 cut(s) 92
SatI GCNGC 2 cut(s) 847, 856
Sau3AI GATC 6 cut(s) 209, 460, 641, 732, 958, 1097
Sau96I GGNCC 1 cut(s) 446
ScaI AGTACT 1 cut(s) 587
SchI GAGTC 4 cut(s) 49, 70, 176, 615
ScrFI CCNGG 3 cut(s) 66, 537, 860
SduI GDGCHC 6 cut(s) 92, 387, 420, 597, 867, 1117
SexAI ACCWGGT 1 cut(s) 535
SfaNI GCATC 3 cut(s) 21, 130, 427
SfcI CTRYAG 1 cut(s) 925
SinI GGWCC 1 cut(s) 446
SmiMI CAYNNNNRTG 1 cut(s) 456
SmlI CTYRAG 3 cut(s) 135, 246, 773
SmoI CTYRAG 3 cut(s) 135, 246, 773
SphI GCATGC 1 cut(s) 989
Sse9I AATT 4 cut(s) 154, 482, 662, 758
SseBI AGGCCT 1 cut(s) 931
SsiI CCGC 1 cut(s) 847
SspMI CTAG 7 cut(s) 176, 269, 530, 656, 852, 905, 1126
SstI GAGCTC 1 cut(s) 92
StuI AGGCCT 1 cut(s) 931
StyD4I CCNGG 3 cut(s) 64, 535, 858
StyI CCWWGG 2 cut(s) 723, 950
TaiI ACGT 2 cut(s) 33, 1040
TasI AATT 4 cut(s) 154, 482, 662, 758
TatI WGTACW 1 cut(s) 585
TauI GCSGC 1 cut(s) 849
TfiI GAWTC 2 cut(s) 69, 194
TscAI CASTG 2 cut(s) 505, 883
TseFI GTSAC 4 cut(s) 241, 607, 874, 1024
TseI GCWGC 1 cut(s) 855
Tsp45I GTSAC 4 cut(s) 241, 607, 874, 1024
TspDTI ATGAA 7 cut(s) 381, 421, 536, 799, 852, 980, 1030
TspGWI ACGGA 1 cut(s) 467
TspRI CASTG 2 cut(s) 505, 883
VneI GTGCAC 1 cut(s) 1113
VpaK11BI GGWCC 1 cut(s) 446
XagI CCTNNNNNAGG 1 cut(s) 113
XapI RAATTY 3 cut(s) 154, 482, 758
XceI RCATGY 3 cut(s) 751, 989, 1113
XmiI GTMKAC 1 cut(s) 521
XspI CTAG 7 cut(s) 176, 269, 530, 656, 852, 905, 1126
ZrmI AGTACT 1 cut(s) 587
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.