FvH4_5g05651

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0001340
Physical Location & Seq
Reverse (-)
3331988 .. 3333598
1611 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g05651.t1

Sequence Viewer

Length: 1389 bp
ATGGAAGAAAATGGGGTTGCATCTGAAATAACAAAAGGGTACATGAATTGGGTGCAAAATGACTCTGCTGTTATGTCTATGCTTGCTGCTACTTTGTCCAATGATGCTCTCTCCTTCGTTATTGGAAGCAAGTCTTCTAAGGAAATTTGGTGTCGGCTTAAGGAGAAATATGTCGATGATTCACGGTATAACATTGTGAATCTCCAAAACTCCTTATACAACATCCAAAAAGGGTCAGACTCTATTGACATGTACTTAACTCGAGTTAAGTCAATATGTGATCAGCTTGCTCTGATGGGGGTTTATATGGATGATGAAGATATAGTGATCTCGGTGCTTAACGGTTTGTCCTCAGAGTTTGCTACCATAAAAGCTATAATAAGAATCAAAGCACTGAGCTCATCTGTTTCAATAAGAGACTTAAGGTCTCTTCTATTGATTGCTGAACATGAGATTAAACAAACAATGAAGTCTAGTTTTGAGAGGTACAAGACTGAAATGATGTCACAAGGAACCCCATCAAAAGGCTGTTTTCCATCTCCATATGTTGGTAATTGTTCTGTTATGTCATCTACTTCACATATTGCTGCACCAGATATTGGTTTGGTGCCTGGTGTTGCCAAAAATTCTATGGTTCCTAATATGCCTGCTGCTATGGTATCTAACATGACTGTTGTTATGGTTCCTAATATGCTTGTTGCTATGATTCGTAATGTGGATGCTACCATGGTTCCTAATATGGTTTCTAACATGACTGTTGTTATGGTTCCTAATATGCATGTTGCTATGATTCCTAATGTGGATGCTACCATGGTTCCTAATATGTTTGCCGACAATCTTTACAATATTTCACCTGCCACTTCTATTGTGAATCACTACAATACTCCATCTTCTAGCTTCACTACACACTTTGGGGTACCACAACACATTGTGATGTCAAATATAGCTTTAAAAATGCCGAATGCTTCTACAAATAATGCTTATATAAATTGTCAAGCCATGCCCTCATCTTCGGTCAGTGGTGTACCTCAGTCAGTGCCTAACTTTGAATATATGATTCAAACTCCGGTTCCTCTGTCTATTATTGCATCTACACTTCACGGTGGTCGTCTTCAACATAGTGATCATTCTCTTCCATTGCAAAATAAAAAGGTCCCTCTGCAACAGAATAGTGATGTTCTTTCTAGTGCAAATGAAAAATTCTATCAGCTGCCAAATGATTTCTCTCAAAATGCAAGCTATTTTCAAAGTGTAGGTCATCAAACCTCAATTGGTGAATTTCAGCAAAATCATGGTGTTCAACTTAATGCTATTTTTCTACAGCAACCTAATGAATTCGTACAACCACATGAGTCTATTTTTCAGTTAAACAATAGACTTATGCAGTAA
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
Retrotran_gag_2 gag_pre-integrs

Protein Analysis

463

Amino Acids

50.9

Weight (kDa)

6.05

Isoelectric Point (pI)

54.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 12 - 151 1.7e-18 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 862
Acc36I ACCTGC 1 cut(s) 862
Acc65I GGTACC 1 cut(s) 916
AccB1I GGYRCC 2 cut(s) 607, 916
AccB7I CCANNNNNTGG 2 cut(s) 548, 599
AcsI RAATTY 5 cut(s) 144, 625, 1199, 1277, 1334
AdeI CACNNNGTG 1 cut(s) 931
AfaI GTAC 6 cut(s) 41, 254, 488, 918, 1026, 1341
AfiI CCNNNNNNNGG 3 cut(s) 524, 548, 599
AflII CTTAAG 2 cut(s) 158, 421
AflIII ACRYGT 1 cut(s) 249
AgsI TTSAA 6 cut(s) 411, 1049, 1061, 1115, 1247, 1301
AhdI GACNNNNNGTC 1 cut(s) 424
AjnI CCWGG 1 cut(s) 610
AluBI AGCT 7 cut(s) 286, 374, 399, 897, 947, 1210, 1239
AluI AGCT 7 cut(s) 286, 374, 399, 897, 947, 1210, 1239
Alw21I GWGCWC 1 cut(s) 401
Alw26I GTCTC 2 cut(s) 411, 432
Ama87I CYCGRG 1 cut(s) 261
ApeKI GCWGC 4 cut(s) 86, 587, 650, 1210
ApoI RAATTY 5 cut(s) 144, 625, 1199, 1277, 1334
ArsI GACNNNNNNTTYG 2 cut(s) 1240, 1272
Asp718I GGTACC 1 cut(s) 916
AspS9I GGNCC 1 cut(s) 1153
AsuHPI GGTGA 2 cut(s) 843, 1286
AvaI CYCGRG 1 cut(s) 261
AvaII GGWCC 1 cut(s) 1153
BanI GGYRCC 2 cut(s) 607, 916
BanII GRGCYC 1 cut(s) 401
BbsI GAAGAC 2 cut(s) 126, 1103
Bbv12I GWGCWC 1 cut(s) 401
BbvI GCAGC 4 cut(s) 73, 574, 637, 1197
BccI CCATC 4 cut(s) 289, 526, 544, 895
BciT130I CCWGG 1 cut(s) 612
BclI TGATCA 2 cut(s) 280, 1123
BcoDI GTCTC 2 cut(s) 411, 432
BfaI CTAG 3 cut(s) 474, 894, 1185
BfmI CTRYAG 1 cut(s) 1319
BfrI CTTAAG 2 cut(s) 158, 421
BfuAI ACCTGC 1 cut(s) 862
BisI GCNGC 4 cut(s) 87, 588, 651, 1211
BlsI GCNGC 4 cut(s) 88, 589, 652, 1212
Bme1390I CCNGG 1 cut(s) 612
Bme18I GGWCC 1 cut(s) 1153
BmeRI GACNNNNNGTC 1 cut(s) 424
BmeT110I CYCGRG 1 cut(s) 261
BmgT120I GGNCC 1 cut(s) 1153
BmrFI CCNGG 1 cut(s) 612
BmsI GCATC 5 cut(s) 29, 94, 709, 793, 1097
BpiI GAAGAC 2 cut(s) 126, 1103
BsaI GGTCTC 1 cut(s) 432
BsaJI CCNNGG 2 cut(s) 726, 810
BsaWI WCCGGW 1 cut(s) 1066
Bsc4I CCNNNNNNNGG 3 cut(s) 524, 548, 599
Bse3DI GCAATG 1 cut(s) 1136
BseBI CCWGG 1 cut(s) 612
BseDI CCNNGG 2 cut(s) 726, 810
BseGI GGATG 4 cut(s) 222, 316, 724, 808
BseLI CCNNNNNNNGG 3 cut(s) 524, 548, 599
BseMI GCAATG 1 cut(s) 1136
BseMII CTCAG 3 cut(s) 366, 386, 1043
BseXI GCAGC 4 cut(s) 73, 574, 637, 1197
BsgI GTGCAG 1 cut(s) 573
BshNI GGYRCC 2 cut(s) 607, 916
BsiHKAI GWGCWC 1 cut(s) 401
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 1 cut(s) 1067
BslFI GGGAC 1 cut(s) 1139
BslI CCNNNNNNNGG 3 cut(s) 524, 548, 599
BsmAI GTCTC 2 cut(s) 411, 432
BsmFI GGGAC 1 cut(s) 1139
BsmI GAATGC 1 cut(s) 967
Bso31I GGTCTC 1 cut(s) 432
BsoBI CYCGRG 1 cut(s) 261
Bsp1286I GDGCHC 1 cut(s) 401
Bsp143I GATC 3 cut(s) 280, 327, 1123
Bsp19I CCATGG 2 cut(s) 726, 810
BspCNI CTCAG 3 cut(s) 365, 387, 1042
BspMI ACCTGC 1 cut(s) 862
BspT107I GGYRCC 2 cut(s) 607, 916
BspTI CTTAAG 2 cut(s) 158, 421
BspTNI GGTCTC 1 cut(s) 432
BsrDI GCAATG 1 cut(s) 1136
BssECI CCNNGG 2 cut(s) 726, 810
BssMI GATC 3 cut(s) 280, 327, 1123
BssT1I CCWWGG 2 cut(s) 726, 810
Bst2UI CCWGG 1 cut(s) 612
Bst4CI ACNGT 5 cut(s) 186, 344, 673, 757, 1103
Bst6I CTCTTC 2 cut(s) 435, 1137
BstAFI CTTAAG 2 cut(s) 158, 421
BstC8I GCNNGC 4 cut(s) 84, 288, 648, 1237
BstDEI CTNAG 4 cut(s) 138, 352, 395, 1029
BstDSI CCRYGG 2 cut(s) 726, 810
BstF5I GGATG 4 cut(s) 222, 316, 724, 808
BstKTI GATC 3 cut(s) 283, 330, 1126
BstMAI GTCTC 2 cut(s) 411, 432
BstMBI GATC 3 cut(s) 280, 327, 1123
BstNI CCWGG 1 cut(s) 612
BstNSI RCATGY 2 cut(s) 253, 782
BstSCI CCNGG 1 cut(s) 610
BstSFI CTRYAG 1 cut(s) 1319
BstV1I GCAGC 4 cut(s) 73, 574, 637, 1197
BstV2I GAAGAC 2 cut(s) 126, 1103
BtgI CCRYGG 2 cut(s) 726, 810
BtsCI GGATG 4 cut(s) 222, 316, 724, 808
BtsIMutI CAGTG 3 cut(s) 392, 1024, 1041
BveI ACCTGC 1 cut(s) 862
Cac8I GCNNGC 4 cut(s) 84, 288, 648, 1237
Cfr13I GGNCC 1 cut(s) 1153
Csp6I GTAC 6 cut(s) 40, 253, 487, 917, 1025, 1340
CspCI CAANNNNNGTGG 2 cut(s) 847, 882
CviQI GTAC 6 cut(s) 40, 253, 487, 917, 1025, 1340
DdeI CTNAG 4 cut(s) 138, 352, 395, 1029
DpnI GATC 3 cut(s) 282, 329, 1125
DpnII GATC 3 cut(s) 280, 327, 1123
DraI TTTAAA 1 cut(s) 951
DraIII CACNNNGTG 1 cut(s) 931
DriI GACNNNNNGTC 1 cut(s) 424
Eam1104I CTCTTC 2 cut(s) 435, 1137
Eam1105I GACNNNNNGTC 1 cut(s) 424
EarI CTCTTC 2 cut(s) 435, 1137
Ecl136II GAGCTC 1 cut(s) 399
Eco130I CCWWGG 2 cut(s) 726, 810
Eco24I GRGCYC 1 cut(s) 401
Eco31I GGTCTC 1 cut(s) 432
Eco47I GGWCC 1 cut(s) 1153
Eco53kI GAGCTC 1 cut(s) 399
Eco88I CYCGRG 1 cut(s) 261
EcoICRI GAGCTC 1 cut(s) 399
EcoO109I RGGNCCY 1 cut(s) 1153
EcoRI GAATTC 1 cut(s) 1334
EcoRII CCWGG 1 cut(s) 610
EcoT14I CCWWGG 2 cut(s) 726, 810
EcoT22I ATGCAT 1 cut(s) 780
EcoT38I GRGCYC 1 cut(s) 401
ErhI CCWWGG 2 cut(s) 726, 810
FalI AAGNNNNNCTT 2 cut(s) 118, 150
FaqI GGGAC 1 cut(s) 1139
FauNDI CATATG 1 cut(s) 544
FbaI TGATCA 2 cut(s) 280, 1123
Fnu4HI GCNGC 4 cut(s) 87, 588, 651, 1211
FokI GGATG 4 cut(s) 209, 323, 731, 815
FriOI GRGCYC 1 cut(s) 401
Fsp4HI GCNGC 4 cut(s) 87, 588, 651, 1211
FspBI CTAG 3 cut(s) 474, 894, 1185
GluI GCNGC 4 cut(s) 87, 588, 651, 1211
HapII CCGG 1 cut(s) 1067
HpaII CCGG 1 cut(s) 1067
HphI GGTGA 2 cut(s) 843, 1286
Hpy166II GTNNAC 1 cut(s) 1025
Hpy188I TCNGA 4 cut(s) 25, 238, 294, 355
Hpy8I GTNNAC 1 cut(s) 1025
HpyAV CCTTC 1 cut(s) 124
HpyCH4III ACNGT 5 cut(s) 186, 344, 673, 757, 1103
HpyF3I CTNAG 4 cut(s) 138, 352, 395, 1029
KpnI GGTACC 1 cut(s) 920
Ksp22I TGATCA 2 cut(s) 280, 1123
Kzo9I GATC 3 cut(s) 280, 327, 1123
LpnPI CCDG 6 cut(s) 597, 606, 624, 660, 867, 1080
Lsp1109I GCAGC 4 cut(s) 73, 574, 637, 1197
LweI GCATC 5 cut(s) 29, 94, 709, 793, 1097
MaeI CTAG 3 cut(s) 474, 894, 1185
MaeIII GTNAC 1 cut(s) 504
MalI GATC 3 cut(s) 282, 329, 1125
MboI GATC 3 cut(s) 280, 327, 1123
MboII GAAGA 8 cut(s) 17, 126, 329, 422, 882, 1002, 1103, 1124
MfeI CAATTG 1 cut(s) 1269
MhlI GDGCHC 1 cut(s) 401
MluCI AATT 9 cut(s) 46, 144, 553, 625, 988, 1199, 1269, 1277, 1334
MlyI GAGTC 3 cut(s) 56, 233, 1361
MnlI CCTC 7 cut(s) 361, 477, 1015, 1038, 1083, 1167, 1276
Mph1103I ATGCAT 1 cut(s) 780
MseI TTAA 9 cut(s) 159, 257, 267, 339, 422, 456, 950, 1305, 1367
MslI CAYNNNNRTG 1 cut(s) 932
MspA1I CMGCKG 1 cut(s) 1210
MspCI CTTAAG 2 cut(s) 158, 421
MspI CCGG 1 cut(s) 1067
MspR9I CCNGG 1 cut(s) 612
MunI CAATTG 1 cut(s) 1269
Mva1269I GAATGC 1 cut(s) 967
MvaI CCWGG 1 cut(s) 612
NcoI CCATGG 2 cut(s) 726, 810
NdeI CATATG 1 cut(s) 544
NdeII GATC 3 cut(s) 280, 327, 1123
NmuCI GTSAC 1 cut(s) 504
NsiI ATGCAT 1 cut(s) 780
NspI RCATGY 2 cut(s) 253, 782
PaeR7I CTCGAG 1 cut(s) 261
PaqCI CACCTGC 1 cut(s) 862
PciI ACATGT 1 cut(s) 249
PctI GAATGC 1 cut(s) 967
PfeI GAWTC 7 cut(s) 179, 199, 384, 706, 790, 871, 1057
PflMI CCANNNNNTGG 2 cut(s) 548, 599
PkrI GCNGC 4 cut(s) 88, 589, 652, 1212
PleI GAGTC 3 cut(s) 56, 233, 1360
PpsI GAGTC 3 cut(s) 56, 233, 1360
PpuMI RGGWCCY 1 cut(s) 1153
PscI ACATGT 1 cut(s) 249
Psp124BI GAGCTC 1 cut(s) 401
Psp5II RGGWCCY 1 cut(s) 1153
Psp6I CCWGG 1 cut(s) 610
PspGI CCWGG 1 cut(s) 610
PspPI GGNCC 1 cut(s) 1153
PspPPI RGGWCCY 1 cut(s) 1153
PspXI VCTCGAGB 1 cut(s) 261
PvuII CAGCTG 1 cut(s) 1210
RsaI GTAC 6 cut(s) 41, 254, 488, 918, 1026, 1341
RsaNI GTAC 6 cut(s) 40, 253, 487, 917, 1025, 1340
RseI CAYNNNNRTG 1 cut(s) 932
SacI GAGCTC 1 cut(s) 401
SaqAI TTAA 9 cut(s) 159, 257, 267, 339, 422, 456, 950, 1305, 1367
SatI GCNGC 4 cut(s) 87, 588, 651, 1211
Sau3AI GATC 3 cut(s) 280, 327, 1123
Sau96I GGNCC 1 cut(s) 1153
SchI GAGTC 3 cut(s) 56, 233, 1361
ScrFI CCNGG 1 cut(s) 612
SduI GDGCHC 1 cut(s) 401
SfaNI GCATC 5 cut(s) 29, 94, 709, 793, 1097
SfcI CTRYAG 1 cut(s) 1319
Sfr274I CTCGAG 1 cut(s) 261
SinI GGWCC 1 cut(s) 1153
SlaI CTCGAG 1 cut(s) 261
SmiMI CAYNNNNRTG 1 cut(s) 932
SmlI CTYRAG 3 cut(s) 158, 261, 421
SmoI CTYRAG 3 cut(s) 158, 261, 421
Sse9I AATT 9 cut(s) 46, 144, 553, 625, 988, 1199, 1269, 1277, 1334
SspI AATATT 1 cut(s) 847
SspMI CTAG 3 cut(s) 474, 894, 1185
SstI GAGCTC 1 cut(s) 401
StyD4I CCNGG 1 cut(s) 610
StyI CCWWGG 2 cut(s) 726, 810
TaaI ACNGT 5 cut(s) 186, 344, 673, 757, 1103
TaqI TCGA 2 cut(s) 174, 262
TaqII GACCGA 1 cut(s) 1003
TasI AATT 9 cut(s) 46, 144, 553, 625, 988, 1199, 1269, 1277, 1334
TatI WGTACW 1 cut(s) 252
TfiI GAWTC 7 cut(s) 179, 199, 384, 706, 790, 871, 1057
Tru1I TTAA 9 cut(s) 159, 257, 267, 339, 422, 456, 950, 1305, 1367
Tru9I TTAA 9 cut(s) 159, 257, 267, 339, 422, 456, 950, 1305, 1367
TscAI CASTG 3 cut(s) 399, 1024, 1041
TseFI GTSAC 1 cut(s) 504
TseI GCWGC 4 cut(s) 86, 587, 650, 1210
Tsp45I GTSAC 1 cut(s) 504
TspDTI ATGAA 5 cut(s) 59, 330, 482, 1209, 1347
TspRI CASTG 3 cut(s) 399, 1024, 1041
Van91I CCANNNNNTGG 2 cut(s) 548, 599
Vha464I CTTAAG 2 cut(s) 158, 421
VpaK11BI GGWCC 1 cut(s) 1153
XapI RAATTY 5 cut(s) 144, 625, 1199, 1277, 1334
XceI RCATGY 2 cut(s) 253, 782
XcmI CCANNNNNNNNNTGG 1 cut(s) 628
XhoI CTCGAG 1 cut(s) 261
XspI CTAG 3 cut(s) 474, 894, 1185
Zsp2I ATGCAT 1 cut(s) 780
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.