FvH4_4g12251

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000291
Physical Location & Seq
Reverse (-)
15947819 .. 15948907
1089 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g12251.t1

Sequence Viewer

Length: 741 bp
ATGTTAGACGACGAAGCGGAGGTTCCTGTCACAACACTCGCCGACGCTGGTCGGGAGATTACTCCAATGAAACAAGATATTGGGAAATTTTGTCAAGACACCAACAATGCTTTGGCAAATTTAACAACTTTTGTGCAGCAGCTTACGATGGAGATGAAAGCCCTTCTCAAGGGACGTTTCTTACCTCAAGATTATGAGCAGACTTTGTTTGAAAAATATTATGACTGCGCTCAGAAGAATCGGTCAGTGTTTGATTTCCATGAGTTTATGCGACTTAGCGAGCAAAACAGACTTGAAGAAAGAGAGACTCAGAAAGTTGCAAGGTATCTACATCATTTGAAGCCGGAAATCCAAGAAAAGATAGGGTTGCAGACAATATGGACTCTAGTGGAAGCCATGAACTTAGCTCTAAAAGTAGAAACTCTATTAGCAAGTAGTAAAGTTAAGCAGCAGACTACCATGAGTTATCGCAGAAATTGGCCTAAACCATCTACTTCAAAAGGATTGCAAATTAAAGAGCCTACAAGAGAGCAACAAGTTAGAACAGAAACAAGTAGTGGAGACCGAGGAAAAGCTATTGTTCCGTTTCGAAAACAAGAGCAACCTGACAACTTAGGGGACTATGTGAAACCAAGGGGAGAAAAGTGTAATCAATGTTTTATGCCTGGTCATACTTCCAACATGTGTCCCAAACCAAGGGGATTACATTATGTGGAAGAACATGAAGATGATGAAAAGTAG
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

247

Amino Acids

28.59

Weight (kDa)

6.62

Isoelectric Point (pI)

38.17

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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 17
AcsI RAATTY 2 cut(s) 86, 118
AfiI CCNNNNNNNGG 2 cut(s) 169, 696
AflIII ACRYGT 1 cut(s) 681
AgsI TTSAA 4 cut(s) 212, 296, 340, 498
AjnI CCWGG 1 cut(s) 664
AluBI AGCT 3 cut(s) 142, 407, 575
AluI AGCT 3 cut(s) 142, 407, 575
Alw26I GTCTC 2 cut(s) 299, 555
AoxI GGCC 1 cut(s) 479
ApeKI GCWGC 3 cut(s) 136, 139, 448
ApoI RAATTY 2 cut(s) 86, 118
AspLEI GCGC 1 cut(s) 230
AsuII TTCGAA 1 cut(s) 589
BbvI GCAGC 3 cut(s) 148, 151, 460
BccI CCATC 2 cut(s) 142, 496
BciT130I CCWGG 1 cut(s) 666
BcoDI GTCTC 2 cut(s) 299, 555
BfaI CTAG 1 cut(s) 386
BisI GCNGC 3 cut(s) 137, 140, 449
BlsI GCNGC 3 cut(s) 138, 141, 450
Bme1390I CCNGG 1 cut(s) 666
BmiI GGNNCC 1 cut(s) 24
BmrFI CCNGG 1 cut(s) 666
BoxI GACNNNNGTC 1 cut(s) 48
Bpu14I TTCGAA 1 cut(s) 589
BpuEI CTTGAG 2 cut(s) 152, 171
BsaI GGTCTC 1 cut(s) 555
BsaJI CCNNGG 3 cut(s) 565, 632, 695
Bsc4I CCNNNNNNNGG 2 cut(s) 169, 696
BseBI CCWGG 1 cut(s) 666
BseDI CCNNGG 3 cut(s) 565, 632, 695
BseLI CCNNNNNNNGG 2 cut(s) 169, 696
BseMII CTCAG 2 cut(s) 245, 323
BseXI GCAGC 3 cut(s) 148, 151, 460
BsgI GTGCAG 1 cut(s) 155
BshFI GGCC 1 cut(s) 481
BsiSI CCGG 1 cut(s) 344
BslFI GGGAC 3 cut(s) 186, 632, 672
BslI CCNNNNNNNGG 2 cut(s) 169, 696
BsmAI GTCTC 2 cut(s) 299, 555
BsmFI GGGAC 3 cut(s) 186, 632, 672
BsnI GGCC 1 cut(s) 481
Bso31I GGTCTC 1 cut(s) 555
Bsp119I TTCGAA 1 cut(s) 589
BspACI CCGC 1 cut(s) 17
BspANI GGCC 1 cut(s) 481
BspCNI CTCAG 2 cut(s) 244, 322
BspLI GGNNCC 1 cut(s) 24
BspT104I TTCGAA 1 cut(s) 589
BspTNI GGTCTC 1 cut(s) 555
BssECI CCNNGG 3 cut(s) 565, 632, 695
BssT1I CCWWGG 2 cut(s) 632, 695
Bst2UI CCWGG 1 cut(s) 666
BstBI TTCGAA 1 cut(s) 589
BstC8I GCNNGC 1 cut(s) 281
BstDEI CTNAG 5 cut(s) 231, 275, 309, 403, 613
BstENI CCTNNNNNAGG 1 cut(s) 167
BstHHI GCGC 1 cut(s) 230
BstMAI GTCTC 2 cut(s) 299, 555
BstNI CCWGG 1 cut(s) 666
BstNSI RCATGY 1 cut(s) 685
BstPAI GACNNNNGTC 1 cut(s) 48
BstSCI CCNGG 1 cut(s) 664
BstV1I GCAGC 3 cut(s) 148, 151, 460
BsuRI GGCC 1 cut(s) 481
BtsIMutI CAGTG 1 cut(s) 252
Cac8I GCNNGC 1 cut(s) 281
CfoI GCGC 1 cut(s) 230
CseI GACGC 1 cut(s) 53
CviAII CATG 5 cut(s) 260, 397, 460, 682, 722
CviJI RGCY 8 cut(s) 142, 161, 343, 395, 407, 481, 520, 575
CviKI_1 RGCY 8 cut(s) 142, 161, 343, 395, 407, 481, 520, 575
DdeI CTNAG 5 cut(s) 231, 275, 309, 403, 613
Eco130I CCWWGG 2 cut(s) 632, 695
Eco31I GGTCTC 1 cut(s) 555
EcoNI CCTNNNNNAGG 1 cut(s) 167
EcoRII CCWGG 1 cut(s) 664
EcoT14I CCWWGG 2 cut(s) 632, 695
ErhI CCWWGG 2 cut(s) 632, 695
FaeI CATG 5 cut(s) 263, 400, 463, 685, 725
FaqI GGGAC 3 cut(s) 186, 632, 672
FatI CATG 5 cut(s) 259, 396, 459, 681, 721
Fnu4HI GCNGC 3 cut(s) 137, 140, 449
Fsp4HI GCNGC 3 cut(s) 137, 140, 449
FspBI CTAG 1 cut(s) 386
GlaI GCGC 1 cut(s) 229
GluI GCNGC 3 cut(s) 137, 140, 449
HaeIII GGCC 1 cut(s) 481
HapII CCGG 1 cut(s) 344
HgaI GACGC 1 cut(s) 53
HhaI GCGC 1 cut(s) 230
Hin1II CATG 5 cut(s) 263, 400, 463, 685, 725
Hin6I GCGC 1 cut(s) 228
HinP1I GCGC 1 cut(s) 228
HinfI GANTC 3 cut(s) 238, 307, 382
HpaII CCGG 1 cut(s) 344
Hpy188I TCNGA 2 cut(s) 234, 312
Hpy188III TCNNGA 3 cut(s) 53, 95, 188
Hpy99I CGWCG 2 cut(s) 14, 47
HpyAV CCTTC 1 cut(s) 173
HpyCH4IV ACGT 1 cut(s) 175
HpyCH4V TGCA 4 cut(s) 136, 320, 370, 508
HpyF3I CTNAG 5 cut(s) 231, 275, 309, 403, 613
HpySE526I ACGT 1 cut(s) 175
Hsp92II CATG 5 cut(s) 263, 400, 463, 685, 725
HspAI GCGC 1 cut(s) 228
LpnPI CCDG 6 cut(s) 33, 39, 357, 618, 651, 678
Lsp1109I GCAGC 3 cut(s) 148, 151, 460
MaeI CTAG 1 cut(s) 386
MaeII ACGT 1 cut(s) 175
MaeIII GTNAC 1 cut(s) 28
MboII GAAGA 4 cut(s) 247, 308, 728, 737
MluCI AATT 4 cut(s) 86, 118, 475, 510
MlyI GAGTC 2 cut(s) 301, 376
MmeI TCCRAC 1 cut(s) 702
MnlI CCTC 3 cut(s) 13, 195, 560
MseI TTAA 3 cut(s) 122, 444, 513
MslI CAYNNNNRTG 1 cut(s) 726
MspI CCGG 1 cut(s) 344
MspR9I CCNGG 1 cut(s) 666
MvaI CCWGG 1 cut(s) 666
NlaIII CATG 5 cut(s) 263, 400, 463, 685, 725
NlaIV GGNNCC 1 cut(s) 24
NmuCI GTSAC 1 cut(s) 28
NspI RCATGY 1 cut(s) 685
NspV TTCGAA 1 cut(s) 589
PciI ACATGT 1 cut(s) 681
PfeI GAWTC 1 cut(s) 238
PkrI GCNGC 3 cut(s) 138, 141, 450
PleI GAGTC 2 cut(s) 301, 376
PpsI GAGTC 2 cut(s) 301, 376
PscI ACATGT 1 cut(s) 681
PshAI GACNNNNGTC 1 cut(s) 48
Psp6I CCWGG 1 cut(s) 664
PspGI CCWGG 1 cut(s) 664
PspN4I GGNNCC 1 cut(s) 24
RseI CAYNNNNRTG 1 cut(s) 726
SaqAI TTAA 3 cut(s) 122, 444, 513
SatI GCNGC 3 cut(s) 137, 140, 449
SchI GAGTC 2 cut(s) 301, 376
ScrFI CCNGG 1 cut(s) 666
SetI ASST 8 cut(s) 24, 144, 178, 187, 326, 409, 577, 607
SfuI TTCGAA 1 cut(s) 589
SmiMI CAYNNNNRTG 1 cut(s) 726
SmlI CTYRAG 2 cut(s) 167, 186
SmoI CTYRAG 2 cut(s) 167, 186
Sse9I AATT 4 cut(s) 86, 118, 475, 510
SsiI CCGC 1 cut(s) 17
SspI AATATT 1 cut(s) 218
SspMI CTAG 1 cut(s) 386
StyD4I CCNGG 1 cut(s) 664
StyI CCWWGG 2 cut(s) 632, 695
TaiI ACGT 1 cut(s) 178
TaqI TCGA 1 cut(s) 589
TaqII GACCGA 2 cut(s) 231, 579
TasI AATT 4 cut(s) 86, 118, 475, 510
TfiI GAWTC 1 cut(s) 238
Tru1I TTAA 3 cut(s) 122, 444, 513
Tru9I TTAA 3 cut(s) 122, 444, 513
TscAI CASTG 1 cut(s) 252
TseFI GTSAC 1 cut(s) 28
TseI GCWGC 3 cut(s) 136, 139, 448
Tsp45I GTSAC 1 cut(s) 28
TspDTI ATGAA 4 cut(s) 83, 170, 413, 738
TspGWI ACGGA 1 cut(s) 573
TspRI CASTG 1 cut(s) 252
XagI CCTNNNNNAGG 1 cut(s) 167
XapI RAATTY 2 cut(s) 86, 118
XceI RCATGY 1 cut(s) 685
XcmI CCANNNNNNNNNTGG 1 cut(s) 109
XspI CTAG 1 cut(s) 386
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.