FvH4_2g15291

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000278
Physical Location & Seq
Reverse (-)
13457039 .. 13458251
1213 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g15291.t1

Sequence Viewer

Length: 798 bp
ATGGGAGAAGGTGTGAGTCTCATGGAGCACATGAACGTGTTCAGCGGATTGATTGATCAACTAGTAAAAGTTGATGTAAAGATTGAGGAAAAAGATCAAGCCCTTCTACTTCTTACCTCACTTCCCGATTTGTATGAGAATATCACCACTACAATCTTGTATGGTAAGGACACATTGAAGATAGAGGAGGTGGAATCGACTCTCTTGTCTCTCGAGAAGCGGAGGAAAGCCAATGATTACCAGAGTTCCGTCTTTGTTGCTCATGGTCAGAATCAAAGGGGAAGGTCAACTGCCAAAGGGTCTAGTGAACATAACAGAAGAGAATATTTTGATACGTTCCAAGAAGTCAAGGGATTTGTGACTTGGGGTGATGGCACAAGGCGTCGTGTCATGGGTGTTGGAACGGTGAAGGTCAAAATGTTTGATGGAGCAGTTTGCTCTTTGGGTGATGTGGTGTTTGTCCCAACGTTCCGGAGAAATTTAAAATCACTGAGCCAATTAGACTCCAAAGGCTTCAGGGTTTCTTCAGCGGGGGGAGTTATGAAAGTATCACGTGGTTTCATGGTCCTGATGAAAGGAGAAAAGTGTGGAAGTATGTTCCGTCTGATAGGAAAAACTCAGACCTCGAAGGTTGTTGGGAAACAGTGTGCACAAGAATCCAGGTACCTGAGGCAGGTCTTATTTGCGGGCATAGCAAAGAGGGCAGGCACAAGTTTCCAAGTTTCAGATGATGGTGAGAAGGTAAATCCTGCTAGGGAAGAGGTGAAGACAAGGTCCCTCTTCAGAGTCAACAAGTGA
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

Protein Analysis

266

Amino Acids

29.58

Weight (kDa)

9.7

Isoelectric Point (pI)

40.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 1 - 78 1.1e-13 gag-polypeptide of LTR copia-type
Pol_BBD PF22936 105 - 172 1.7e-15 Pol polyprotein, beta-barrel domain
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: OG0000278)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G29785
fragaria_vesca FvH4_1g10046 FvH4_1g17351 FvH4_1g18441 FvH4_1g24222 FvH4_2g00141 FvH4_2g05931 FvH4_2g06671 FvH4_2g14030 FvH4_2g15291 FvH4_2g22611 FvH4_2g22612 FvH4_2g26380 FvH4_2g39202 FvH4_2g39202 FvH4_3g06691 FvH4_3g08580 FvH4_3g20502 FvH4_3g20503 FvH4_3g22421 FvH4_3g42580 FvH4_4g02061 FvH4_4g06794 FvH4_4g08661 FvH4_4g11771 FvH4_4g14601 FvH4_4g14721 FvH4_4g20921 FvH4_4g33601 FvH4_4g33602 FvH4_5g07492 FvH4_5g20321 FvH4_5g21591 FvH4_5g30343 FvH4_5g37875 FvH4_6g04372 FvH4_6g04373 FvH4_6g04373 FvH4_6g21377 FvH4_6g23760 FvH4_6g29471 FvH4_6g43142 FvH4_7g14351 FvH4_7g14352 FvH4_7g22582 FvH4_7g22583 FvH4_7g22584
malus_domestica MD00G1179400.v1.1 MD01G1170500.v1.1 MD03G1286700.v1.1 MD04G1054600.v1.1 MD04G1071700.v1.1 MD04G1193900.v1.1 MD08G1054300.v1.1 MD08G1217500.v1.1 MD09G1034600.v1.1 MD09G1098100.v1.1 MD10G1018300.v1.1 MD10G1220000.v1.1 MD10G1250300.v1.1 MD12G1014400.v1.1 MD15G1021000.v1.1 MD16G1112200.v1.1
prunus_persica Prupe.1G188900_v2.0.a1 Prupe.1G258000_v2.0.a1 Prupe.4G233400_v2.0.a1
pyrus_communis pycom01g10100 pycom02g01340 pycom03g19700 pycom05g01320 pycom07g16000 pycom07g16520 pycom11g26500 pycom13g09380 pycom13g13960 pycom14g08180 pycom14g16810 pycom16g09590
rosa_chinensis RchiOBHm_Chr1g0319891 RchiOBHm_Chr1g0333711 RchiOBHm_Chr2g0115331 RchiOBHm_Chr2g0143411 RchiOBHm_Chr2g0167631 RchiOBHm_Chr3g0448581 RchiOBHm_Chr3g0494991 RchiOBHm_Chr4g0442471 RchiOBHm_Chr6g0262311 RchiOBHm_Chr6g0301831 RchiOBHm_Chr6g0301841 RchiOBHm_Chr7g0183451
rosa_roxburghii Rroxscaffold_1G00039280 Rroxscaffold_1G00047670 Rroxscaffold_1G00066330 Rroxscaffold_2G00107510 Rroxscaffold_3G00255410 Rroxscaffold_4G00301460 Rroxscaffold_5G00352730 Rroxscaffold_7G00166350 Rroxscaffold_7G00166360 Rroxscaffold_7G00203820
rosa_rugosa Rorug03G0240500 Rorug05G0191700 Rorug06G0310200
rosa_samantha Rh2BG287000 Rh4CG073500 Rh4CG176200 Rh4CG191400 Rh5BG356100 Rh5BG434100 Rh6AG110600 Rh6AG421900 Rh6AG422000 Rh6AG422100 Rh6BG428600 Rh6BG428700 Rh6BG428800 Rh6CG435200 Rh6CG435300 Rh6CG435400 Rh6DG422000 Rh6DG422100 Rh6DG422200 Rh7BG190500 Rh7CG172800 Rh7CG225200
rosa_wichuraiana Rw2G044060 Rw6G036540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 205
Acc36I ACCTGC 1 cut(s) 664
Acc65I GGTACC 1 cut(s) 663
AccB1I GGYRCC 1 cut(s) 663
AccIII TCCGGA 1 cut(s) 471
AciI CCGC 4 cut(s) 45, 220, 530, 686
AclI AACGTT 1 cut(s) 467
AcsI RAATTY 1 cut(s) 478
AcuI CTGAAG 3 cut(s) 499, 510, 766
AcvI CACGTG 1 cut(s) 554
AcyI GRCGYC 1 cut(s) 382
AfaI GTAC 1 cut(s) 665
AfiI CCNNNNNNNGG 1 cut(s) 673
AflIII ACRYGT 1 cut(s) 36
AgsI TTSAA 1 cut(s) 178
AhlI ACTAGT 1 cut(s) 61
AjnI CCWGG 1 cut(s) 659
Alw21I GWGCWC 2 cut(s) 30, 652
Alw26I GTCTC 2 cut(s) 23, 213
Alw44I GTGCAC 1 cut(s) 648
Ama87I CYCGRG 1 cut(s) 212
Aor13HI TCCGGA 1 cut(s) 471
ApaLI GTGCAC 1 cut(s) 648
ApoI RAATTY 1 cut(s) 478
Asp700I GAANNNNTTC 1 cut(s) 38
Asp718I GGTACC 1 cut(s) 663
AspS9I GGNCC 2 cut(s) 565, 774
AsuHPI GGTGA 6 cut(s) 136, 380, 418, 458, 746, 775
AvaI CYCGRG 1 cut(s) 212
AvaII GGWCC 2 cut(s) 565, 774
AxyI CCTNAGG 1 cut(s) 668
BaeGI GKGCMC 1 cut(s) 652
BanI GGYRCC 1 cut(s) 663
BbrPI CACGTG 1 cut(s) 554
BbsI GAAGAC 1 cut(s) 773
Bbv12I GWGCWC 2 cut(s) 30, 652
BccI CCATC 3 cut(s) 365, 419, 725
BciT130I CCWGG 1 cut(s) 661
BclI TGATCA 1 cut(s) 55
BcoDI GTCTC 2 cut(s) 23, 213
BcuI ACTAGT 1 cut(s) 61
BfaI CTAG 3 cut(s) 62, 303, 753
BfuAI ACCTGC 1 cut(s) 664
Bme1390I CCNGG 1 cut(s) 661
Bme18I GGWCC 2 cut(s) 565, 774
BmeT110I CYCGRG 1 cut(s) 212
BmgT120I GGNCC 2 cut(s) 565, 774
BmiI GGNNCC 2 cut(s) 665, 776
BmrFI CCNGG 1 cut(s) 661
BpiI GAAGAC 1 cut(s) 773
BsaAI YACGTR 1 cut(s) 554
BsaHI GRCGYC 1 cut(s) 382
BsaWI WCCGGW 1 cut(s) 471
BsaXI ACNNNNNCTCC 1 cut(s) 27
Bsc4I CCNNNNNNNGG 1 cut(s) 673
Bse21I CCTNAGG 1 cut(s) 668
BseAI TCCGGA 1 cut(s) 471
BseBI CCWGG 1 cut(s) 661
BseLI CCNNNNNNNGG 1 cut(s) 673
BseMII CTCAG 3 cut(s) 482, 632, 659
BseRI GAGGAG 1 cut(s) 200
BseSI GKGCMC 1 cut(s) 652
BshNI GGYRCC 1 cut(s) 663
BsiHKAI GWGCWC 2 cut(s) 30, 652
BsiHKCI CYCGRG 1 cut(s) 212
BsiSI CCGG 1 cut(s) 472
BslFI GGGAC 2 cut(s) 446, 760
BslI CCNNNNNNNGG 1 cut(s) 673
BsmAI GTCTC 2 cut(s) 23, 213
BsmFI GGGAC 2 cut(s) 446, 760
BsoBI CYCGRG 1 cut(s) 212
Bsp1286I GDGCHC 2 cut(s) 30, 652
Bsp13I TCCGGA 1 cut(s) 471
Bsp143I GATC 2 cut(s) 55, 94
BspACI CCGC 4 cut(s) 45, 220, 530, 686
BspCNI CTCAG 3 cut(s) 483, 631, 660
BspEI TCCGGA 1 cut(s) 471
BspLI GGNNCC 2 cut(s) 665, 776
BspMI ACCTGC 1 cut(s) 664
BspT107I GGYRCC 1 cut(s) 663
BssMI GATC 2 cut(s) 55, 94
BssNI GRCGYC 1 cut(s) 382
Bst2UI CCWGG 1 cut(s) 661
Bst4CI ACNGT 2 cut(s) 406, 645
Bst6I CTCTTC 3 cut(s) 313, 753, 785
BstACI GRCGYC 1 cut(s) 382
BstBAI YACGTR 1 cut(s) 554
BstC8I GCNNGC 2 cut(s) 688, 706
BstDEI CTNAG 3 cut(s) 491, 618, 668
BstENI CCTNNNNNAGG 1 cut(s) 671
BstKTI GATC 2 cut(s) 58, 97
BstMAI GTCTC 2 cut(s) 23, 213
BstMBI GATC 2 cut(s) 55, 94
BstMWI GCNNNNNNNGC 2 cut(s) 692, 701
BstNI CCWGG 1 cut(s) 661
BstSCI CCNGG 1 cut(s) 659
BstSLI GKGCMC 1 cut(s) 652
BstV2I GAAGAC 1 cut(s) 773
Bsu36I CCTNAGG 1 cut(s) 668
BtsIMutI CAGTG 2 cut(s) 488, 650
BveI ACCTGC 1 cut(s) 664
Cac8I GCNNGC 2 cut(s) 688, 706
Cfr13I GGNCC 2 cut(s) 565, 774
CseI GACGC 1 cut(s) 371
Csp6I GTAC 1 cut(s) 664
CviAII CATG 5 cut(s) 22, 31, 263, 391, 562
CviJI RGCY 4 cut(s) 101, 230, 495, 513
CviKI_1 RGCY 4 cut(s) 101, 230, 495, 513
CviQI GTAC 1 cut(s) 664
DdeI CTNAG 3 cut(s) 491, 618, 668
DpnI GATC 2 cut(s) 57, 96
DpnII GATC 2 cut(s) 55, 94
DraI TTTAAA 1 cut(s) 483
DrdI GACNNNNNNGTC 1 cut(s) 205
DseDI GACNNNNNNGTC 1 cut(s) 205
Eam1104I CTCTTC 3 cut(s) 313, 753, 785
EarI CTCTTC 3 cut(s) 313, 753, 785
Eco47I GGWCC 2 cut(s) 565, 774
Eco57I CTGAAG 3 cut(s) 499, 510, 766
Eco72I CACGTG 1 cut(s) 554
Eco81I CCTNAGG 1 cut(s) 668
Eco88I CYCGRG 1 cut(s) 212
EcoNI CCTNNNNNAGG 1 cut(s) 671
EcoO109I RGGNCCY 1 cut(s) 774
EcoRII CCWGG 1 cut(s) 659
FaeI CATG 5 cut(s) 25, 34, 266, 394, 565
FaqI GGGAC 2 cut(s) 446, 760
FatI CATG 5 cut(s) 21, 30, 262, 390, 561
FauI CCCGC 2 cut(s) 523, 679
FbaI TGATCA 1 cut(s) 55
FspBI CTAG 3 cut(s) 62, 303, 753
HapII CCGG 1 cut(s) 472
HgaI GACGC 1 cut(s) 371
Hin1I GRCGYC 1 cut(s) 382
Hin1II CATG 5 cut(s) 25, 34, 266, 394, 565
HincII GTYRAC 2 cut(s) 288, 790
HindII GTYRAC 2 cut(s) 288, 790
HinfI GANTC 7 cut(s) 16, 194, 199, 271, 503, 656, 786
HpaII CCGG 1 cut(s) 472
HphI GGTGA 6 cut(s) 136, 380, 418, 458, 746, 775
Hpy166II GTNNAC 4 cut(s) 288, 308, 650, 790
Hpy188I TCNGA 5 cut(s) 270, 606, 621, 727, 785
Hpy188III TCNNGA 5 cut(s) 125, 212, 214, 472, 568
Hpy8I GTNNAC 4 cut(s) 288, 308, 650, 790
Hpy99I CGWCG 1 cut(s) 387
HpyAV CCTTC 5 cut(s) 113, 276, 403, 622, 733
HpyCH4III ACNGT 2 cut(s) 406, 645
HpyCH4IV ACGT 4 cut(s) 36, 335, 467, 553
HpyCH4V TGCA 1 cut(s) 650
HpyF10VI GCNNNNNNNGC 2 cut(s) 692, 701
HpyF3I CTNAG 3 cut(s) 491, 618, 668
HpySE526I ACGT 4 cut(s) 36, 335, 467, 553
Hsp92I GRCGYC 1 cut(s) 382
Hsp92II CATG 5 cut(s) 25, 34, 266, 394, 565
Kpn2I TCCGGA 1 cut(s) 471
KpnI GGTACC 1 cut(s) 667
Ksp22I TGATCA 1 cut(s) 55
Kzo9I GATC 2 cut(s) 55, 94
LmnI GCTCC 2 cut(s) 25, 428
MaeI CTAG 3 cut(s) 62, 303, 753
MaeII ACGT 4 cut(s) 36, 335, 467, 553
MaeIII GTNAC 1 cut(s) 358
MalI GATC 2 cut(s) 57, 96
MboI GATC 2 cut(s) 55, 94
MboII GAAGA 6 cut(s) 190, 330, 516, 770, 772, 778
MhlI GDGCHC 2 cut(s) 30, 652
MluCI AATT 2 cut(s) 478, 497
MlyI GAGTC 4 cut(s) 25, 193, 497, 795
MmeI TCCRAC 1 cut(s) 379
MroI TCCGGA 1 cut(s) 471
MroXI GAANNNNTTC 1 cut(s) 38
MseI TTAA 1 cut(s) 482
MslI CAYNNNNRTG 1 cut(s) 35
MspA1I CMGCKG 2 cut(s) 45, 530
MspI CCGG 1 cut(s) 472
MspR9I CCNGG 1 cut(s) 661
MvaI CCWGG 1 cut(s) 661
MwoI GCNNNNNNNGC 2 cut(s) 692, 701
NdeII GATC 2 cut(s) 55, 94
NlaIII CATG 5 cut(s) 25, 34, 266, 394, 565
NlaIV GGNNCC 2 cut(s) 665, 776
NmuCI GTSAC 1 cut(s) 358
PaeR7I CTCGAG 1 cut(s) 212
PdmI GAANNNNTTC 1 cut(s) 38
PfeI GAWTC 3 cut(s) 194, 271, 656
PflFI GACNNNGTC 1 cut(s) 772
PleI GAGTC 4 cut(s) 24, 193, 497, 794
PmaCI CACGTG 1 cut(s) 554
PmlI CACGTG 1 cut(s) 554
PpsI GAGTC 4 cut(s) 24, 193, 497, 794
Ppu21I YACGTR 1 cut(s) 554
PpuMI RGGWCCY 1 cut(s) 774
Psp1406I AACGTT 1 cut(s) 467
Psp5II RGGWCCY 1 cut(s) 774
Psp6I CCWGG 1 cut(s) 659
PspCI CACGTG 1 cut(s) 554
PspGI CCWGG 1 cut(s) 659
PspN4I GGNNCC 2 cut(s) 665, 776
PspPI GGNCC 2 cut(s) 565, 774
PspPPI RGGWCCY 1 cut(s) 774
PsyI GACNNNGTC 1 cut(s) 772
RsaI GTAC 1 cut(s) 665
RsaNI GTAC 1 cut(s) 664
RseI CAYNNNNRTG 1 cut(s) 35
SaqAI TTAA 1 cut(s) 482
Sau3AI GATC 2 cut(s) 55, 94
Sau96I GGNCC 2 cut(s) 565, 774
SchI GAGTC 4 cut(s) 25, 193, 497, 795
ScrFI CCNGG 1 cut(s) 661
SduI GDGCHC 2 cut(s) 30, 652
Sfr274I CTCGAG 1 cut(s) 212
SinI GGWCC 2 cut(s) 565, 774
SlaI CTCGAG 1 cut(s) 212
SmiMI CAYNNNNRTG 1 cut(s) 35
SmlI CTYRAG 1 cut(s) 212
SmoI CTYRAG 1 cut(s) 212
SpeI ACTAGT 1 cut(s) 61
Sse9I AATT 2 cut(s) 478, 497
SsiI CCGC 4 cut(s) 45, 220, 530, 686
SspI AATATT 1 cut(s) 326
SspMI CTAG 3 cut(s) 62, 303, 753
StyD4I CCNGG 1 cut(s) 659
TaaI ACNGT 2 cut(s) 406, 645
TaiI ACGT 4 cut(s) 39, 338, 470, 556
TaqI TCGA 3 cut(s) 197, 213, 626
TasI AATT 2 cut(s) 478, 497
TfiI GAWTC 3 cut(s) 194, 271, 656
Tru1I TTAA 1 cut(s) 482
Tru9I TTAA 1 cut(s) 482
TscAI CASTG 2 cut(s) 495, 650
TseFI GTSAC 1 cut(s) 358
Tsp45I GTSAC 1 cut(s) 358
TspDTI ATGAA 4 cut(s) 47, 550, 557, 587
TspGWI ACGGA 2 cut(s) 238, 590
TspRI CASTG 2 cut(s) 495, 650
Tth111I GACNNNGTC 1 cut(s) 772
VneI GTGCAC 1 cut(s) 648
VpaK11BI GGWCC 2 cut(s) 565, 774
XagI CCTNNNNNAGG 1 cut(s) 671
XapI RAATTY 1 cut(s) 478
XhoI CTCGAG 1 cut(s) 212
XmnI GAANNNNTTC 1 cut(s) 38
XspI CTAG 3 cut(s) 62, 303, 753
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.