FvH4_6g53790

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000128
Physical Location & Seq
Reverse (-)
39373724 .. 39375901
2178 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g53790.t1

Sequence Viewer

Length: 618 bp
ATGTTGGAAAACTTGCTTGAAAAAGAACTAATCAAATTGCCAAACTGCAAGCGTCCAGAAGAGATGCATCGGGTCAATGATCCTAAGTATTGTAAGTACCACCGTGTCATCGGTCATCCGATGGAAAAGTGTTTCGTCTTGAAAGACCTCATCATGAAGCTAGCACAACAAGGAAAGATATGTTTAGATGTTGAAGATGACGTGGCTCAGTCAAATTATGCAACCGTCTTCTTTGAACACCTCAAAGTGGTGTCCTCAACGCCTTTGTTAGGGGCATACAACCCGAGCTGCTTCCGAATCCCGACGGATGTCCAGTCGTCTTCCTCGCTGTCGTCGTCGTCGTCCACCATGTCCTCGATTGGCTTCTCCATCTTGATCTGGAATCGGTCCAAGCTCGCTAAACCATTACCACCGAATCACGACGATCCGACGGCCAAGGACGACGGCGACTCATCCTCCACCGTTCCTCGATCTCATCAGGTGCCAACTCCACGACCTCAACTCGGTCGAGTTACCGCCGAGTCCCACCGAGCTAAAACCACCCTCTTCAACCTCACCAAGCTCTCCTTTCGCCAGAACCTCTTCGAAGATGTCGCCGTCGAGCCGATCTCTGCCTAG
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

206

Amino Acids

22.97

Weight (kDa)

8.25

Isoelectric Point (pI)

50.95

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

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)
AccB1I GGYRCC 1 cut(s) 481
AciI CCGC 1 cut(s) 516
AclWI GGATC 2 cut(s) 74, 419
AcoI YGGCCR 1 cut(s) 432
AfaI GTAC 1 cut(s) 98
AfiI CCNNNNNNNGG 3 cut(s) 247, 269, 503
AgsI TTSAA 5 cut(s) 20, 142, 194, 236, 550
AjiI CACGTC 1 cut(s) 202
AluBI AGCT 5 cut(s) 160, 288, 394, 533, 562
AluI AGCT 5 cut(s) 160, 288, 394, 533, 562
AlwI GGATC 2 cut(s) 74, 419
Ama87I CYCGRG 1 cut(s) 283
AoxI GGCC 1 cut(s) 432
ApeKI GCWGC 1 cut(s) 288
Asp700I GAANNNNTTC 1 cut(s) 581
AspS9I GGNCC 1 cut(s) 387
AsuHPI GGTGA 1 cut(s) 547
AsuII TTCGAA 1 cut(s) 585
AsuNHI GCTAGC 1 cut(s) 160
AvaI CYCGRG 1 cut(s) 283
AvaII GGWCC 1 cut(s) 387
BanI GGYRCC 1 cut(s) 481
BbsI GAAGAC 2 cut(s) 220, 312
BbvI GCAGC 1 cut(s) 275
BccI CCATC 2 cut(s) 115, 377
BceAI ACGGC 3 cut(s) 447, 460, 581
BfaI CTAG 2 cut(s) 161, 616
BisI GCNGC 1 cut(s) 289
BlsI GCNGC 1 cut(s) 290
Bme18I GGWCC 1 cut(s) 387
BmeT110I CYCGRG 1 cut(s) 283
BmgBI CACGTC 1 cut(s) 202
BmgT120I GGNCC 1 cut(s) 387
BmiI GGNNCC 1 cut(s) 483
BmsI GCATC 2 cut(s) 54, 76
BmtI GCTAGC 1 cut(s) 164
BoxI GACNNNNGTC 1 cut(s) 308
BpiI GAAGAC 2 cut(s) 220, 312
BplI GAGNNNNNCTC 1 cut(s) 593
Bpu14I TTCGAA 1 cut(s) 585
BsaJI CCNNGG 1 cut(s) 435
BsaXI ACNNNNNCTCC 2 cut(s) 440, 470
Bsc4I CCNNNNNNNGG 3 cut(s) 247, 269, 503
Bse1I ACTGG 1 cut(s) 313
BseDI CCNNGG 1 cut(s) 435
BseGI GGATG 3 cut(s) 115, 313, 452
BseLI CCNNNNNNNGG 3 cut(s) 247, 269, 503
BseMII CTCAG 1 cut(s) 221
BseNI ACTGG 1 cut(s) 313
BseXI GCAGC 1 cut(s) 275
Bsh1285I CGRYCG 1 cut(s) 508
BshFI GGCC 1 cut(s) 434
BshNI GGYRCC 1 cut(s) 481
BsiEI CGRYCG 1 cut(s) 508
BsiHKCI CYCGRG 1 cut(s) 283
BslFI GGGAC 1 cut(s) 508
BslI CCNNNNNNNGG 3 cut(s) 247, 269, 503
BsmFI GGGAC 1 cut(s) 508
BsnI GGCC 1 cut(s) 434
BsoBI CYCGRG 1 cut(s) 283
Bsp119I TTCGAA 1 cut(s) 585
Bsp143I GATC 5 cut(s) 79, 375, 424, 470, 606
BspACI CCGC 1 cut(s) 516
BspANI GGCC 1 cut(s) 434
BspCNI CTCAG 1 cut(s) 220
BspHI TCATGA 1 cut(s) 153
BspLI GGNNCC 1 cut(s) 483
BspOI GCTAGC 1 cut(s) 164
BspPI GGATC 2 cut(s) 74, 419
BspT104I TTCGAA 1 cut(s) 585
BspT107I GGYRCC 1 cut(s) 481
BsrI ACTGG 1 cut(s) 313
BssECI CCNNGG 1 cut(s) 435
BssMI GATC 5 cut(s) 79, 375, 424, 470, 606
BssT1I CCWWGG 1 cut(s) 435
Bst4CI ACNGT 3 cut(s) 104, 226, 463
Bst6I CTCTTC 3 cut(s) 54, 551, 587
BstBI TTCGAA 1 cut(s) 585
BstC8I GCNNGC 3 cut(s) 50, 162, 396
BstDEI CTNAG 2 cut(s) 84, 207
BstENI CCTNNNNNAGG 1 cut(s) 267
BstF5I GGATG 3 cut(s) 115, 313, 452
BstKTI GATC 5 cut(s) 82, 378, 427, 473, 609
BstMBI GATC 5 cut(s) 79, 375, 424, 470, 606
BstMCI CGRYCG 1 cut(s) 508
BstPAI GACNNNNGTC 1 cut(s) 308
BstV1I GCAGC 1 cut(s) 275
BstV2I GAAGAC 2 cut(s) 220, 312
BsuRI GGCC 1 cut(s) 434
BtrI CACGTC 1 cut(s) 202
BtsCI GGATG 3 cut(s) 115, 313, 452
Cac8I GCNNGC 3 cut(s) 50, 162, 396
CciI TCATGA 1 cut(s) 153
Cfr13I GGNCC 1 cut(s) 387
CseI GACGC 1 cut(s) 41
Csp6I GTAC 1 cut(s) 97
CviAII CATG 2 cut(s) 154, 349
CviJI RGCY 9 cut(s) 160, 206, 288, 363, 394, 434, 533, 562, 604
CviKI_1 RGCY 9 cut(s) 160, 206, 288, 363, 394, 434, 533, 562, 604
CviQI GTAC 1 cut(s) 97
DdeI CTNAG 2 cut(s) 84, 207
DpnI GATC 5 cut(s) 81, 377, 426, 472, 608
DpnII GATC 5 cut(s) 79, 375, 424, 470, 606
EaeI YGGCCR 1 cut(s) 432
Eam1104I CTCTTC 3 cut(s) 54, 551, 587
EarI CTCTTC 3 cut(s) 54, 551, 587
Eco130I CCWWGG 1 cut(s) 435
Eco47I GGWCC 1 cut(s) 387
Eco88I CYCGRG 1 cut(s) 283
EcoNI CCTNNNNNAGG 1 cut(s) 267
EcoT14I CCWWGG 1 cut(s) 435
EcoT22I ATGCAT 1 cut(s) 69
ErhI CCWWGG 1 cut(s) 435
FaeI CATG 2 cut(s) 157, 352
FaiI YATR 5 cut(s) 155, 181, 219, 277, 350
FalI AAGNNNNNCTT 2 cut(s) 551, 583
FaqI GGGAC 1 cut(s) 508
FatI CATG 2 cut(s) 153, 348
Fnu4HI GCNGC 1 cut(s) 289
FokI GGATG 3 cut(s) 102, 320, 439
Fsp4HI GCNGC 1 cut(s) 289
FspBI CTAG 2 cut(s) 161, 616
GluI GCNGC 1 cut(s) 289
HaeIII GGCC 1 cut(s) 434
HgaI GACGC 1 cut(s) 41
Hin1II CATG 2 cut(s) 157, 352
HinfI GANTC 5 cut(s) 297, 382, 415, 449, 521
HphI GGTGA 1 cut(s) 547
Hpy166II GTNNAC 1 cut(s) 345
Hpy188I TCNGA 3 cut(s) 120, 296, 429
Hpy188III TCNNGA 7 cut(s) 56, 139, 154, 301, 373, 379, 419
Hpy8I GTNNAC 1 cut(s) 345
Hpy99I CGWCG 8 cut(s) 307, 337, 340, 343, 425, 433, 446, 602
HpyCH4III ACNGT 3 cut(s) 104, 226, 463
HpyCH4IV ACGT 1 cut(s) 201
HpyCH4V TGCA 3 cut(s) 48, 67, 221
HpyF3I CTNAG 2 cut(s) 84, 207
HpySE526I ACGT 1 cut(s) 201
Hsp92II CATG 2 cut(s) 157, 352
Kzo9I GATC 5 cut(s) 79, 375, 424, 470, 606
LpnPI CCDG 5 cut(s) 69, 326, 364, 464, 587
Lsp1109I GCAGC 1 cut(s) 275
LweI GCATC 2 cut(s) 54, 76
MaeI CTAG 2 cut(s) 161, 616
MaeII ACGT 1 cut(s) 201
MaeIII GTNAC 1 cut(s) 511
MalI GATC 5 cut(s) 81, 377, 426, 472, 608
MboI GATC 5 cut(s) 79, 375, 424, 470, 606
MboII GAAGA 7 cut(s) 71, 206, 220, 312, 538, 574, 599
MluCI AATT 2 cut(s) 35, 214
MlyI GAGTC 2 cut(s) 443, 530
MmeI TCCRAC 1 cut(s) 452
Mph1103I ATGCAT 1 cut(s) 69
MroXI GAANNNNTTC 1 cut(s) 581
NdeII GATC 5 cut(s) 79, 375, 424, 470, 606
NheI GCTAGC 1 cut(s) 160
NlaIII CATG 2 cut(s) 157, 352
NlaIV GGNNCC 1 cut(s) 483
NmeAIII GCCGAG 1 cut(s) 544
NsiI ATGCAT 1 cut(s) 69
NspV TTCGAA 1 cut(s) 585
PagI TCATGA 1 cut(s) 153
PcsI WCGNNNNNNNCGW 2 cut(s) 332, 338
PdmI GAANNNNTTC 1 cut(s) 581
PfeI GAWTC 3 cut(s) 297, 382, 415
PkrI GCNGC 1 cut(s) 290
PleI GAGTC 2 cut(s) 443, 529
PpsI GAGTC 2 cut(s) 443, 529
PshAI GACNNNNGTC 1 cut(s) 308
PspN4I GGNNCC 1 cut(s) 483
PspPI GGNCC 1 cut(s) 387
RsaI GTAC 1 cut(s) 98
RsaNI GTAC 1 cut(s) 97
SatI GCNGC 1 cut(s) 289
Sau3AI GATC 5 cut(s) 79, 375, 424, 470, 606
Sau96I GGNCC 1 cut(s) 387
SchI GAGTC 2 cut(s) 443, 530
SfaNI GCATC 2 cut(s) 54, 76
SfuI TTCGAA 1 cut(s) 585
SinI GGWCC 1 cut(s) 387
Sse9I AATT 2 cut(s) 35, 214
SsiI CCGC 1 cut(s) 516
SspMI CTAG 2 cut(s) 161, 616
StyI CCWWGG 1 cut(s) 435
TaaI ACNGT 3 cut(s) 104, 226, 463
TaiI ACGT 1 cut(s) 204
TaqI TCGA 5 cut(s) 356, 469, 508, 585, 600
TaqII GACCGA 3 cut(s) 101, 375, 494
TasI AATT 2 cut(s) 35, 214
TfiI GAWTC 3 cut(s) 297, 382, 415
TseI GCWGC 1 cut(s) 288
TspDTI ATGAA 1 cut(s) 170
TspGWI ACGGA 1 cut(s) 320
VpaK11BI GGWCC 1 cut(s) 387
XagI CCTNNNNNAGG 1 cut(s) 267
XmnI GAANNNNTTC 1 cut(s) 581
XspI CTAG 2 cut(s) 161, 616
Zsp2I ATGCAT 1 cut(s) 69
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.