FvH4_3g07261

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000128
Physical Location & Seq
Reverse (-)
4316815 .. 4318007
1193 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g07261.t1

Sequence Viewer

Length: 1068 bp
ATGGAGAAGGTAGAAGTTCACCATGATAATGACTCGGAGAATAACCTTCATGGTGATAGGAAATACACGTCTGGTGGATCATCTTCCGACCAAAAAGGGGAATCAAATTCCATCCTAGCTTCATTAATAGTTCAACAGCTTCAAGACATGATCGCCAAGACAATCAAAGCTCAATATGGTGGTTCGTCTCGAGATACACTAACGTATTCCAAGCCTTACACCAAGCGGCTAGACAATTTGAGAATGCCAACTGACTTGGAGCCTGAATTCATTGACAGCTGGGAGCAAATGGAAAATGAGTTCTTGAACCGCTTCTTCAGCACACGTCGCATGTTGAGTATGTTAGAGCTCACCAACACCAAACAACAAAACGGCGAGCCTGCTGTAGAGTTCATCAATCGTTGGCGTACACTAAGTCTCGACTGTAAAGACCGACTCTCAGAATTGTCAGTGGTAGAGATGTGTGGCATGCATTGGGATTTGTTGTACATTCTTCAAGGGATAAAGCCTCGCACCTTTGAAGAACTTGCTACTCAAGCTCATGACATGAAACTCAGTTTGGCTAGTCATGGCCAAAGAAAACGTGACATCATGGAACCAGAGAATCAAGAGTCTTTGGCAATCAGCACAACTCCTATAAGGGTCATGAAACGAGTCAAATCAAATAGCCAAAAGAAGTTTCAGTCAACTCAAGATCAAGCAAGGAGGCAAACTCTAAAAGACTTGGAAGCTAAAAGTTACCCTTTTCCAGATTCCAATGTTGCTGAGATGTTGGAAAACTTGCTTGAAAAAGAACTAATCAAATTGCCAGACTGCAAGTGTCCAGAAGAGATGTATCGCATCAATGATCCAAAATACTACAAGTACCACCGTGTCATCAGTCAACCGGTGGAGAAGTGCTTTGTCTTGAAAGACCTCATCATGAAGCTAGCACAACAAGGAAAGATATGTTTAGACGTTGAAGATGACGTGGCTCAGTTAAATTATGCTACGATCTTCTTTGAACACCTCAAAGCGGTGTCCTCAACGCCTTTGCTGGGGGCATGCAACCTACCTAAATTCGTCTAG
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

356

Amino Acids

41.05

Weight (kDa)

6.13

Isoelectric Point (pI)

42.25

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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Orthologous Genes (Group: OG0000128)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28082 FvH4_2g15191 FvH4_2g31621 FvH4_3g07261 FvH4_3g22806 FvH4_3g26703 FvH4_3g26704 FvH4_3g31360 FvH4_4g01161 FvH4_4g22271 FvH4_4g25732 FvH4_5g00242 FvH4_5g28911 FvH4_5g32461 FvH4_6g13112 FvH4_6g53790 FvH4_6g53791 FvH4_7g03661 FvH4_7g04125 FvH4_7g04126
pyrus_communis pycom01g01950 pycom01g01960 pycom01g03260 pycom01g07760 pycom01g11430 pycom01g23980 pycom02g15030 pycom02g18630 pycom03g12320 pycom03g18810 pycom03g19250 pycom04g05010 pycom04g06520 pycom04g06680 pycom04g09630 pycom04g09640 pycom05g06850 pycom05g07540 pycom05g08940 pycom06g04300 pycom06g05750 pycom06g06960 pycom06g19690 pycom07g08750 pycom07g10700 pycom07g10910 pycom07g27480 pycom07g27790 pycom07g27800 pycom08g13620 pycom09g03540 pycom09g03550 pycom09g09870 pycom09g13480 pycom09g14360 pycom09g14890 pycom09g14930 pycom09g15760 pycom10g02190 pycom10g05270 pycom10g06810 pycom10g06830 pycom10g08060 pycom10g08520 pycom11g02350 pycom11g14170 pycom11g15050 pycom11g19270 pycom11g20160 pycom11g22420 pycom12g08620 pycom12g08630 pycom12g10440 pycom12g16590 pycom133g00190 pycom13g20730 pycom13g22230 pycom13g22670 pycom13g23230 pycom13g23250 pycom13g24880 pycom13g25300 pycom13g28040 pycom13g29010 pycom14g07570 pycom14g18650 pycom15g04500 pycom15g09310 pycom15g27210 pycom15g30810 pycom15g34920 pycom16g16040 pycom16g17260 pycom16g17940 pycom16g20990 pycom16g23470 pycom16g24160 pycom16g24720 pycom16g25910 pycom16g25920 pycom16g26370 pycom17g03310 pycom17g12670 pycom17g17530 pycom17g25090 pycom17g27300 pycom17g27310 pycom420g00140 pycom420g00160 pycom420g00320 pycom505g00220 pycom520g00740 pycom520g01010 pycom520g01020 pycom576g00060 pycom675g00040
rosa_laevigata RLG00000022630
rosa_multiflora Rmu_co7993280.1_g000001 Rmu_co8054704.1_g000001 Rmu_co8148394.1_g000001 Rmu_co8243015.1_g000001 Rmu_co8272095.1_g000001 Rmu_co8282359.1_g000001 Rmu_co8334783.1_g000001 Rmu_co8404405.1_g000001 Rmu_sc0000161.1_g000030 Rmu_sc0000418.1_g000026 Rmu_sc0000488.1_g000015 Rmu_sc0000706.1_g000041 Rmu_sc0000720.1_g000013 Rmu_sc0000776.1_g000022 Rmu_sc0000948.1_g000017 Rmu_sc0001167.1_g000045 Rmu_sc0001167.1_g000047 Rmu_sc0001211.1_g000054 Rmu_sc0001241.1_g000019 Rmu_sc0001307.1_g000021 Rmu_sc0001438.1_g000043 Rmu_sc0001468.1_g000032 Rmu_sc0001851.1_g000020 Rmu_sc0002026.1_g000023 Rmu_sc0002811.1_g000016 Rmu_sc0002958.1_g000002 Rmu_sc0002958.1_g000003 Rmu_sc0003745.1_g000010 Rmu_sc0004234.1_g000006 Rmu_sc0004234.1_g000008 Rmu_sc0005035.1_g000001 Rmu_sc0005320.1_g000010 Rmu_sc0005866.1_g000006 Rmu_sc0006139.1_g000009 Rmu_sc0006504.1_g000008 Rmu_sc0006695.1_g000049 Rmu_sc0006695.1_g000050 Rmu_sc0006981.1_g000001 Rmu_sc0007108.1_g000012 Rmu_sc0007355.1_g000001 Rmu_sc0007873.1_g000015 Rmu_sc0007961.1_g000003 Rmu_sc0008991.1_g000005 Rmu_sc0009528.1_g000009 Rmu_sc0013299.1_g000003 Rmu_sc0013532.1_g000015 Rmu_sc0015524.1_g000001 Rmu_sc0015793.1_g000001 Rmu_sc0015817.1_g000006 Rmu_sc0015930.1_g000003 Rmu_sc0015930.1_g000006 Rmu_sc0016952.1_g000002 Rmu_sc0016952.1_g000003 Rmu_sc0018715.1_g000003 Rmu_sc0018715.1_g000005 Rmu_sc0023934.1_g000003 Rmu_sc0023989.1_g000002 Rmu_sc0023989.1_g000003 Rmu_sc0028612.1_g000001 Rmu_sc0029049.1_g000001 Rmu_sc0029639.1_g000001 Rmu_sc0035263.1_g000001 Rmu_sc0037892.1_g000001 Rmu_ssc0000170.1_g000024 Rmu_ssc0000233.1_g000057 Rmu_ssc0000259.1_g000055 Rmu_ssc0000259.1_g000057
rosa_roxburghii Rroxscaffold_4G00287780 Rroxscaffold_4G00325290 Rroxscaffold_5G00333910 Rroxscaffold_7G00211350
rosa_rugosa Rorug01G0056300 Rorug04G0149000 Rorug07G0222000
rosa_samantha Rh1AG072900 Rh1CG072000
rosa_wichuraiana Rw0G003630 Rw0G005250 Rw0G020770 Rw0G023770 Rw1G005460 Rw1G005980 Rw1G007190 Rw1G011350 Rw1G022520 Rw1G028660 Rw2G018620 Rw2G019490 Rw4G006910 Rw4G013020 Rw4G023970 Rw5G044650 Rw6G006590 Rw6G012210 Rw6G023750 Rw7G027370 Rw7G027460 Rw7G035570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 226, 310, 1016
AclWI GGATC 2 cut(s) 85, 842
AcoI YGGCCR 1 cut(s) 571
AcsI RAATTY 3 cut(s) 106, 266, 1058
AcuI CTGAAG 1 cut(s) 301
AfaI GTAC 3 cut(s) 409, 488, 866
AfiI CCNNNNNNNGG 3 cut(s) 97, 1015, 1037
AflIII ACRYGT 2 cut(s) 66, 323
AgeI ACCGGT 1 cut(s) 886
AgsI TTSAA 9 cut(s) 134, 143, 307, 497, 521, 788, 910, 962, 1004
AjiI CACGTC 3 cut(s) 69, 326, 970
AjuI GAANNNNNNNTTGG 4 cut(s) 542, 574, 663, 695
AloI GAACNNNNNNTCC 2 cut(s) 284, 316
AluBI AGCT 8 cut(s) 119, 139, 170, 279, 349, 539, 731, 928
AluI AGCT 8 cut(s) 119, 139, 170, 279, 349, 539, 731, 928
Alw21I GWGCWC 1 cut(s) 351
Alw26I GTCTC 2 cut(s) 192, 422
AlwI GGATC 2 cut(s) 85, 842
Ama87I CYCGRG 1 cut(s) 189
AoxI GGCC 1 cut(s) 571
ApoI RAATTY 3 cut(s) 106, 266, 1058
AseI ATTAAT 1 cut(s) 125
AsiGI ACCGGT 1 cut(s) 886
Asp700I GAANNNNTTC 1 cut(s) 311
AsuHPI GGTGA 3 cut(s) 11, 65, 343
AsuNHI GCTAGC 1 cut(s) 928
AvaI CYCGRG 1 cut(s) 189
BalI TGGCCA 1 cut(s) 573
BanII GRGCYC 1 cut(s) 351
Bbv12I GWGCWC 1 cut(s) 351
BccI CCATC 1 cut(s) 119
BceAI ACGGC 1 cut(s) 388
BcoDI GTCTC 2 cut(s) 192, 422
BfaI CTAG 5 cut(s) 116, 230, 564, 929, 1066
BfmI CTRYAG 1 cut(s) 384
BisI GCNGC 1 cut(s) 227
BlsI GCNGC 1 cut(s) 228
BmeT110I CYCGRG 1 cut(s) 189
BmgBI CACGTC 3 cut(s) 69, 326, 970
BmiI GGNNCC 2 cut(s) 261, 597
BmsI GCATC 1 cut(s) 849
BmtI GCTAGC 1 cut(s) 932
BplI GAGNNNNNCTC 2 cut(s) 697, 729
BpuEI CTTGAG 2 cut(s) 519, 675
BsaWI WCCGGW 1 cut(s) 886
Bsc4I CCNNNNNNNGG 3 cut(s) 97, 1015, 1037
Bse118I RCCGGY 1 cut(s) 886
BseGI GGATG 1 cut(s) 111
BseLI CCNNNNNNNGG 3 cut(s) 97, 1015, 1037
BseMII CTCAG 4 cut(s) 453, 568, 756, 989
BseYI CCCAGC 2 cut(s) 279, 1036
BshFI GGCC 1 cut(s) 573
BshTI ACCGGT 1 cut(s) 886
BsiHKAI GWGCWC 1 cut(s) 351
BsiHKCI CYCGRG 1 cut(s) 189
BsiSI CCGG 1 cut(s) 887
BslI CCNNNNNNNGG 3 cut(s) 97, 1015, 1037
BsmAI GTCTC 2 cut(s) 192, 422
BsmBI CGTCTC 1 cut(s) 192
BsmI GAATGC 1 cut(s) 249
BsnI GGCC 1 cut(s) 573
BsoBI CYCGRG 1 cut(s) 189
Bsp1286I GDGCHC 1 cut(s) 351
Bsp1407I TGTACA 1 cut(s) 486
Bsp143I GATC 5 cut(s) 77, 150, 694, 847, 993
BspACI CCGC 3 cut(s) 226, 310, 1016
BspANI GGCC 1 cut(s) 573
BspCNI CTCAG 4 cut(s) 452, 567, 757, 988
BspHI TCATGA 3 cut(s) 541, 645, 921
BspLI GGNNCC 2 cut(s) 261, 597
BspOI GCTAGC 1 cut(s) 932
BspPI GGATC 2 cut(s) 85, 842
BsrFI RCCGGY 1 cut(s) 886
BsrGI TGTACA 1 cut(s) 486
BssAI RCCGGY 1 cut(s) 886
BssMI GATC 5 cut(s) 77, 150, 694, 847, 993
Bst4CI ACNGT 2 cut(s) 425, 872
Bst6I CTCTTC 1 cut(s) 822
BstAUI TGTACA 1 cut(s) 486
BstC8I GCNNGC 5 cut(s) 377, 381, 470, 930, 1045
BstDEI CTNAG 5 cut(s) 413, 439, 554, 765, 975
BstF5I GGATG 1 cut(s) 111
BstKTI GATC 5 cut(s) 80, 153, 697, 850, 996
BstMAI GTCTC 2 cut(s) 192, 422
BstMBI GATC 5 cut(s) 77, 150, 694, 847, 993
BstMWI GCNNNNNNNGC 3 cut(s) 318, 327, 536
BstNSI RCATGY 3 cut(s) 334, 472, 1047
BstSFI CTRYAG 1 cut(s) 384
BsuRI GGCC 1 cut(s) 573
BtrI CACGTC 3 cut(s) 69, 326, 970
BtsCI GGATG 1 cut(s) 111
BtsIMutI CAGTG 1 cut(s) 456
Cac8I GCNNGC 5 cut(s) 377, 381, 470, 930, 1045
CciI TCATGA 3 cut(s) 541, 645, 921
Cfr10I RCCGGY 1 cut(s) 886
Csp6I GTAC 3 cut(s) 408, 487, 865
CspAI ACCGGT 1 cut(s) 886
CviQI GTAC 3 cut(s) 408, 487, 865
DdeI CTNAG 5 cut(s) 413, 439, 554, 765, 975
DpnI GATC 5 cut(s) 79, 152, 696, 849, 995
DpnII GATC 5 cut(s) 77, 150, 694, 847, 993
EaeI YGGCCR 1 cut(s) 571
Eam1104I CTCTTC 1 cut(s) 822
EarI CTCTTC 1 cut(s) 822
Ecl136II GAGCTC 1 cut(s) 349
Eco24I GRGCYC 1 cut(s) 351
Eco53kI GAGCTC 1 cut(s) 349
Eco57I CTGAAG 1 cut(s) 301
Eco88I CYCGRG 1 cut(s) 189
EcoICRI GAGCTC 1 cut(s) 349
EcoRI GAATTC 1 cut(s) 266
EcoT22I ATGCAT 1 cut(s) 474
EcoT38I GRGCYC 1 cut(s) 351
Esp3I CGTCTC 1 cut(s) 192
FalI AAGNNNNNCTT 2 cut(s) 727, 759
Fnu4HI GCNGC 1 cut(s) 227
FokI GGATG 1 cut(s) 98
FriOI GRGCYC 1 cut(s) 351
Fsp4HI GCNGC 1 cut(s) 227
FspBI CTAG 5 cut(s) 116, 230, 564, 929, 1066
GluI GCNGC 1 cut(s) 227
GsaI CCCAGC 2 cut(s) 283, 1040
HaeIII GGCC 1 cut(s) 573
HapII CCGG 1 cut(s) 887
HincII GTYRAC 2 cut(s) 687, 884
HindII GTYRAC 2 cut(s) 687, 884
HinfI GANTC 7 cut(s) 32, 101, 435, 604, 611, 654, 752
HpaII CCGG 1 cut(s) 887
HphI GGTGA 3 cut(s) 11, 65, 343
Hpy166II GTNNAC 4 cut(s) 19, 410, 687, 884
Hpy188I TCNGA 3 cut(s) 37, 88, 442
Hpy8I GTNNAC 4 cut(s) 19, 410, 687, 884
Hpy99I CGWCG 1 cut(s) 330
HpyAV CCTTC 1 cut(s) 56
HpyCH4III ACNGT 2 cut(s) 425, 872
HpyCH4IV ACGT 6 cut(s) 68, 203, 325, 583, 957, 969
HpyCH4V TGCA 3 cut(s) 472, 816, 1047
HpyF10VI GCNNNNNNNGC 3 cut(s) 318, 327, 536
HpyF3I CTNAG 5 cut(s) 413, 439, 554, 765, 975
HpySE526I ACGT 6 cut(s) 68, 203, 325, 583, 957, 969
Kzo9I GATC 5 cut(s) 77, 150, 694, 847, 993
LmnI GCTCC 2 cut(s) 259, 283
LweI GCATC 1 cut(s) 849
MaeI CTAG 5 cut(s) 116, 230, 564, 929, 1066
MaeII ACGT 6 cut(s) 68, 203, 325, 583, 957, 969
MaeIII GTNAC 2 cut(s) 584, 737
MalI GATC 5 cut(s) 79, 152, 696, 849, 995
MboI GATC 5 cut(s) 77, 150, 694, 847, 993
MboII GAAGA 7 cut(s) 75, 307, 485, 533, 839, 974, 988
MhlI GDGCHC 1 cut(s) 351
MlsI TGGCCA 1 cut(s) 573
MluCI AATT 7 cut(s) 106, 235, 266, 443, 803, 982, 1058
MluNI TGGCCA 1 cut(s) 573
MlyI GAGTC 4 cut(s) 26, 429, 620, 663
MmeI TCCRAC 2 cut(s) 111, 753
MnlI CCTC 5 cut(s) 519, 699, 926, 1019, 1033
Mox20I TGGCCA 1 cut(s) 573
Mph1103I ATGCAT 1 cut(s) 474
MroXI GAANNNNTTC 1 cut(s) 311
MscI TGGCCA 1 cut(s) 573
MseI TTAA 2 cut(s) 125, 980
MslI CAYNNNNRTG 1 cut(s) 27
Msp20I TGGCCA 1 cut(s) 573
MspA1I CMGCKG 1 cut(s) 279
MspI CCGG 1 cut(s) 887
Mva1269I GAATGC 1 cut(s) 249
MwoI GCNNNNNNNGC 3 cut(s) 318, 327, 536
NdeII GATC 5 cut(s) 77, 150, 694, 847, 993
NheI GCTAGC 1 cut(s) 928
NlaIV GGNNCC 2 cut(s) 261, 597
NmuCI GTSAC 1 cut(s) 584
NsiI ATGCAT 1 cut(s) 474
NspI RCATGY 3 cut(s) 334, 472, 1047
PaeI GCATGC 2 cut(s) 472, 1047
PaeR7I CTCGAG 1 cut(s) 189
PagI TCATGA 3 cut(s) 541, 645, 921
PctI GAATGC 1 cut(s) 249
PdmI GAANNNNTTC 1 cut(s) 311
PfeI GAWTC 3 cut(s) 101, 604, 752
PinAI ACCGGT 1 cut(s) 886
PkrI GCNGC 1 cut(s) 228
PleI GAGTC 4 cut(s) 26, 429, 619, 662
PpsI GAGTC 4 cut(s) 26, 429, 619, 662
PshBI ATTAAT 1 cut(s) 125
Psp124BI GAGCTC 1 cut(s) 351
PspFI CCCAGC 2 cut(s) 279, 1036
PspN4I GGNNCC 2 cut(s) 261, 597
PvuII CAGCTG 1 cut(s) 279
RsaI GTAC 3 cut(s) 409, 488, 866
RsaNI GTAC 3 cut(s) 408, 487, 865
RseI CAYNNNNRTG 1 cut(s) 27
SacI GAGCTC 1 cut(s) 351
SaqAI TTAA 2 cut(s) 125, 980
SatI GCNGC 1 cut(s) 227
Sau3AI GATC 5 cut(s) 77, 150, 694, 847, 993
SchI GAGTC 4 cut(s) 26, 429, 620, 663
SduI GDGCHC 1 cut(s) 351
SfaNI GCATC 1 cut(s) 849
SfcI CTRYAG 1 cut(s) 384
Sfr274I CTCGAG 1 cut(s) 189
SlaI CTCGAG 1 cut(s) 189
SmiMI CAYNNNNRTG 1 cut(s) 27
SmlI CTYRAG 3 cut(s) 189, 534, 690
SmoI CTYRAG 3 cut(s) 189, 534, 690
SphI GCATGC 2 cut(s) 472, 1047
Sse9I AATT 7 cut(s) 106, 235, 266, 443, 803, 982, 1058
SsiI CCGC 3 cut(s) 226, 310, 1016
SspMI CTAG 5 cut(s) 116, 230, 564, 929, 1066
SstI GAGCTC 1 cut(s) 351
TaaI ACNGT 2 cut(s) 425, 872
TaiI ACGT 6 cut(s) 71, 206, 328, 586, 960, 972
TaqI TCGA 2 cut(s) 190, 420
TaqII GACCGA 1 cut(s) 447
TasI AATT 7 cut(s) 106, 235, 266, 443, 803, 982, 1058
TatI WGTACW 1 cut(s) 486
TauI GCSGC 1 cut(s) 229
TfiI GAWTC 3 cut(s) 101, 604, 752
Tru1I TTAA 2 cut(s) 125, 980
Tru9I TTAA 2 cut(s) 125, 980
TscAI CASTG 1 cut(s) 456
TseFI GTSAC 1 cut(s) 584
Tsp45I GTSAC 1 cut(s) 584
TspDTI ATGAA 7 cut(s) 38, 111, 259, 382, 563, 662, 938
TspRI CASTG 1 cut(s) 456
VspI ATTAAT 1 cut(s) 125
XapI RAATTY 3 cut(s) 106, 266, 1058
XceI RCATGY 3 cut(s) 334, 472, 1047
XhoI CTCGAG 1 cut(s) 189
XmnI GAANNNNTTC 1 cut(s) 311
XspI CTAG 5 cut(s) 116, 230, 564, 929, 1066
Zsp2I ATGCAT 1 cut(s) 474
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.