FvH4_6g29691

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000106
Physical Location & Seq
Reverse (-)
22923687 .. 22924674
988 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g29691.t1

Sequence Viewer

Length: 894 bp
ATGGCTATCAATGATGTCATCTCCTCAAACAACCAAGACAGTTCGTCCTCCCTGGATGAATCTGCCAGCCCGTTTTTCCTTCACCATTCAGACCATCAAGGTCTGGTTCTTGTCTCCAAGAAATTGACAGGCGAGAACTACACTTCTTGGTGCCGCGCTATGCGCATCTCTTTGAGTGCCAAAAATAAAATTGGCTTCATCACCGACAAAATTACAGAGCCGTCTGCAGCCCTAGAACCAGATGAGCATGCACTGTGGCAAAGGTGCAATGATATGGTGCTTTCATGGATTCTCAACGCTCTTGAACCTGACCTTGCCGATTCAGTTCTTAGCTGTGCCACACCATATGCTGTATGGGAAGACCTTCGCGAGAGATTTACGTTGGGCAATGCTCCTCGCATTTTTCAGGTTCAAAGAGACATTTATCGTATTGAACAGGGTCAACTATCCATTGCAGCATACTATACAAAACTGAAGGCTCTTTGGGATGAGCTTGGTTCGTACAACACAGTAACCTGTACCTGTCGAGCACAGAATGATCGAAGTAAGTTGATGCAATTTCTTATGGGTTTAAATGAATCTTATGCTGCTACTCGTGGACAGATCTTGTTGATGAATCTTTTGCCTTCGTGCGTAGCAACAACTATGGACCACAACCTTAGATGCATGAGAATCAAGGCAACAATTATCGTTCTCGTGCTCCAATCAAACATTGCACTTACTGTGACAAGGACTACCATACTGAAGCAACTTGTCATAAGAAGCATGGCTACCCTCCTGGCCATCGTCTCTACAAAGGTCCAAAGGCAAGTAACTCTACAAGGAGACGTCAAGAAAATCCTGGTGCCAACCATGTTGATGCAACTCCAACATTTGAGGAACTACAGAGAATGA
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 Retrotran_gag_3 Retrotrans_gag

Protein Analysis

298

Amino Acids

33.56

Weight (kDa)

8.64

Isoelectric Point (pI)

40.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 28 - 74 3.6e-17 gag-polypeptide of LTR copia-type
Retrotrans_gag PF03732 116 - 193 7.3e-06 Retrotransposon gag 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: OG0000106)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G20980 AT3G21000
fragaria_vesca FvH4_1g15931 FvH4_1g15931 FvH4_1g18381 FvH4_1g18382 FvH4_1g22571 FvH4_1g24950 FvH4_1g29372 FvH4_2g03582 FvH4_2g09851 FvH4_2g13112 FvH4_2g20843 FvH4_2g22701 FvH4_2g22702 FvH4_2g23403 FvH4_2g40201 FvH4_3g03542 FvH4_3g03543 FvH4_3g04761 FvH4_3g10464 FvH4_3g12741 FvH4_3g15781 FvH4_3g30981 FvH4_4g00985 FvH4_4g07035 FvH4_4g08192 FvH4_4g08211 FvH4_4g08553 FvH4_4g14242 FvH4_4g14243 FvH4_4g14641 FvH4_4g14843 FvH4_4g14844 FvH4_4g15061 FvH4_4g16281 FvH4_4g19152 FvH4_4g26451 FvH4_5g06442 FvH4_5g22521 FvH4_5g24301 FvH4_5g38641 FvH4_6g02393 FvH4_6g12782 FvH4_6g13871 FvH4_6g19391 FvH4_6g20105 FvH4_6g21292 FvH4_6g23581 FvH4_6g29153 FvH4_6g29691 FvH4_6g30871 FvH4_6g33351 FvH4_6g37042 FvH4_6g38781 FvH4_6g40340 FvH4_7g11221 FvH4_7g23352 FvH4_7g23352 FvH4_7g31212 FvH4_7g32172 FvH4_7g32173 FvH4_7g33701
malus_domestica MD03G1006900.v1.1 MD04G1039100.v1.1 MD04G1239100.v1.1 MD05G1048700.v1.1 MD08G1001800.v1.1 MD09G1165800.v1.1 MD11G1065200.v1.1 MD11G1138200.v1.1 MD14G1033300.v1.1 MD14G1173900.v1.1 MD15G1218200.v1.1 MD16G1034000.v1.1
prunus_persica Prupe.1G219500_v2.0.a1 Prupe.2G169400_v2.0.a1 Prupe.4G109700_v2.0.a1 Prupe.7G022000_v2.0.a1
pyrus_communis pycom01g02000 pycom02g13350 pycom03g01010 pycom04g05000 pycom04g06100 pycom05g05580 pycom05g09950 pycom05g13280 pycom05g26610 pycom06g05940 pycom06g07760 pycom07g06120 pycom07g24780 pycom08g08820 pycom09g03600 pycom09g07200 pycom10g01280 pycom10g06730 pycom10g08410 pycom10g25520 pycom11g00470 pycom11g05250 pycom11g25180 pycom12g08050 pycom13g14760 pycom13g28170 pycom15g14310 pycom15g19880 pycom15g24230 pycom15g33640 pycom16g02150 pycom16g16240 pycom16g20050 pycom16g21090 pycom17g06100
rosa_chinensis RchiOBHm_Chr1g0322161 RchiOBHm_Chr1g0326341 RchiOBHm_Chr1g0357701 RchiOBHm_Chr1g0379861 RchiOBHm_Chr1g0383421 RchiOBHm_Chr2g0093981 RchiOBHm_Chr2g0139051 RchiOBHm_Chr2g0145501 RchiOBHm_Chr3g0450971 RchiOBHm_Chr3g0451441 RchiOBHm_Chr3g0457411 RchiOBHm_Chr4g0436261 RchiOBHm_Chr5g0051431 RchiOBHm_Chr5g0064031 RchiOBHm_Chr5g0073141 RchiOBHm_Chr5g0080061 RchiOBHm_Chr7g0200561 RchiOBHm_Chr7g0235911
rosa_laevigata RLG00000000145 RLG00000000429 RLG00000020339 RLG00000035212
rosa_multiflora Rmu_co7977988.1_g000001 Rmu_co8037866.1_g000001 Rmu_co8243895.1_g000001 Rmu_co8363787.1_g000001 Rmu_co8381003.1_g000001 Rmu_sc0000263.1_g000006 Rmu_sc0000349.1_g000002 Rmu_sc0000455.1_g000031 Rmu_sc0000936.1_g000022 Rmu_sc0001035.1_g000023 Rmu_sc0001169.1_g000019 Rmu_sc0001250.1_g000026 Rmu_sc0002200.1_g000051 Rmu_sc0002230.1_g000027 Rmu_sc0002591.1_g000039 Rmu_sc0003182.1_g000003 Rmu_sc0003441.1_g000068 Rmu_sc0003722.1_g000018 Rmu_sc0003764.1_g000007 Rmu_sc0006014.1_g000016 Rmu_sc0012582.1_g000002 Rmu_sc0013519.1_g000002 Rmu_sc0014550.1_g000005 Rmu_sc0014857.1_g000007 Rmu_sc0019855.1_g000001 Rmu_sc0030839.1_g000001 Rmu_sc0031308.1_g000001
rosa_roxburghii Rroxscaffold_1G00011290 Rroxscaffold_1G00041340 Rroxscaffold_1G00053780 Rroxscaffold_1G00059130 Rroxscaffold_1G00061580 Rroxscaffold_2G00080940 Rroxscaffold_2G00109540 Rroxscaffold_3G00228400 Rroxscaffold_3G00237710 Rroxscaffold_4G00285210 Rroxscaffold_4G00299600 Rroxscaffold_4G00324940 Rroxscaffold_4G00330580 Rroxscaffold_5G00333000 Rroxscaffold_5G00347920 Rroxscaffold_5G00375310 Rroxscaffold_6G00394760 Rroxscaffold_6G00406260 Rroxscaffold_7G00165690 Rroxscaffold_7G00187680
rosa_rugosa Rorug01G0050200 Rorug02G0273800 Rorug06G0490600 Rorug06G0490600 Rorug06G0490700
rosa_samantha Rh1AG348400 Rh5AG222600 Rh6DG000500 Rh6DG194500 Rh7BG452700
rosa_wichuraiana Rw0G003060 Rw0G010530 Rw0G012970 Rw0G022560 Rw0G023390 Rw1G001270 Rw1G001530 Rw1G006070 Rw1G008210 Rw1G022090 Rw1G023320 Rw2G003790 Rw2G004140 Rw2G005280 Rw2G006460 Rw2G019620 Rw2G019840 Rw2G022530 Rw2G023280 Rw2G024990 Rw2G042380 Rw2G051390 Rw3G001640 Rw3G016720 Rw3G017100 Rw3G020890 Rw3G020900 Rw3G021100 Rw4G004820 Rw4G014950 Rw4G030920 Rw4G031400 Rw5G008500 Rw5G017950 Rw5G020170 Rw5G030160 Rw5G033050 Rw5G034640 Rw5G043920 Rw6G005060 Rw6G005540 Rw6G006720 Rw6G008460 Rw6G008670 Rw6G014780 Rw6G019100 Rw6G019350 Rw6G026310 Rw7G016810 Rw7G019180 Rw7G022890 Rw7G025880 Rw7G026390 Rw7G028340 Rw7G034850 Rw7G035170 Rw7G035420 Rw7G037990 Rw7G041560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 831
Acc16I TGCGCA 1 cut(s) 164
AccB1I GGYRCC 2 cut(s) 150, 844
AccII CGCG 2 cut(s) 156, 369
AciI CCGC 1 cut(s) 154
AcoI YGGCCR 1 cut(s) 780
AcuI CTGAAG 2 cut(s) 494, 764
AcyI GRCGYC 1 cut(s) 828
AfaI GTAC 2 cut(s) 503, 520
AgsI TTSAA 3 cut(s) 305, 413, 434
AhdI GACNNNNNGTC 1 cut(s) 43
AjnI CCWGG 3 cut(s) 51, 777, 840
AluBI AGCT 2 cut(s) 333, 493
AluI AGCT 2 cut(s) 333, 493
Alw21I GWGCWC 2 cut(s) 532, 702
Alw26I GTCTC 4 cut(s) 118, 411, 793, 819
AoxI GGCC 1 cut(s) 780
ApeKI GCWGC 3 cut(s) 227, 455, 587
Asp700I GAANNNNTTC 1 cut(s) 363
AspLEI GCGC 2 cut(s) 158, 165
AspS9I GGNCC 2 cut(s) 649, 799
AsuHPI GGTGA 2 cut(s) 74, 193
AvaII GGWCC 2 cut(s) 649, 799
BalI TGGCCA 1 cut(s) 782
BanI GGYRCC 2 cut(s) 150, 844
BarI GAAGNNNNNNTAC 2 cut(s) 754, 786
BauI CACGAG 2 cut(s) 594, 695
BbsI GAAGAC 1 cut(s) 366
Bbv12I GWGCWC 2 cut(s) 532, 702
BbvI GCAGC 3 cut(s) 239, 467, 574
BccI CCATC 2 cut(s) 102, 791
BceAI ACGGC 1 cut(s) 205
BciT130I CCWGG 3 cut(s) 53, 779, 842
BcoDI GTCTC 4 cut(s) 118, 411, 793, 819
BfaI CTAG 1 cut(s) 233
BfmI CTRYAG 2 cut(s) 225, 883
BglII AGATCT 1 cut(s) 603
BisI GCNGC 4 cut(s) 154, 228, 456, 588
BlsI GCNGC 4 cut(s) 155, 229, 457, 589
Bme1390I CCNGG 3 cut(s) 53, 779, 842
Bme18I GGWCC 2 cut(s) 649, 799
BmeRI GACNNNNNGTC 1 cut(s) 43
BmgT120I GGNCC 2 cut(s) 649, 799
BmiI GGNNCC 2 cut(s) 152, 846
BmrFI CCNGG 3 cut(s) 53, 779, 842
BmsI GCATC 4 cut(s) 174, 543, 653, 849
BpiI GAAGAC 1 cut(s) 366
BsaHI GRCGYC 1 cut(s) 828
BsaJI CCNNGG 1 cut(s) 51
Bse3DI GCAATG 4 cut(s) 274, 394, 450, 711
BseBI CCWGG 3 cut(s) 53, 779, 842
BseDI CCNNGG 1 cut(s) 51
BseGI GGATG 2 cut(s) 61, 493
BseMI GCAATG 4 cut(s) 274, 394, 450, 711
BseRI GAGGAG 2 cut(s) 13, 384
BseXI GCAGC 3 cut(s) 239, 467, 574
Bsh1236I CGCG 2 cut(s) 156, 369
BshFI GGCC 1 cut(s) 782
BshNI GGYRCC 2 cut(s) 150, 844
BsiHKAI GWGCWC 2 cut(s) 532, 702
BsmAI GTCTC 4 cut(s) 118, 411, 793, 819
BsmBI CGTCTC 2 cut(s) 793, 819
BsnI GGCC 1 cut(s) 782
Bsp1286I GDGCHC 2 cut(s) 532, 702
Bsp143I GATC 2 cut(s) 538, 603
Bsp68I TCGCGA 1 cut(s) 369
BspACI CCGC 1 cut(s) 154
BspANI GGCC 1 cut(s) 782
BspFNI CGCG 2 cut(s) 156, 369
BspLI GGNNCC 2 cut(s) 152, 846
BspMAI CTGCAG 1 cut(s) 229
BspT107I GGYRCC 2 cut(s) 150, 844
BsrDI GCAATG 4 cut(s) 274, 394, 450, 711
BssECI CCNNGG 1 cut(s) 51
BssMI GATC 2 cut(s) 538, 603
BssNI GRCGYC 1 cut(s) 828
BssSI CACGAG 2 cut(s) 594, 695
Bst2BI CACGAG 2 cut(s) 594, 695
Bst2UI CCWGG 3 cut(s) 53, 779, 842
Bst4CI ACNGT 4 cut(s) 41, 255, 511, 724
BstACI GRCGYC 1 cut(s) 828
BstC8I GCNNGC 2 cut(s) 67, 249
BstDEI CTNAG 2 cut(s) 329, 659
BstF5I GGATG 2 cut(s) 61, 493
BstFNI CGCG 2 cut(s) 156, 369
BstHHI GCGC 2 cut(s) 158, 165
BstKTI GATC 2 cut(s) 541, 606
BstMAI GTCTC 4 cut(s) 118, 411, 793, 819
BstMBI GATC 2 cut(s) 538, 603
BstMWI GCNNNNNNNGC 1 cut(s) 162
BstNI CCWGG 3 cut(s) 53, 779, 842
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 3 cut(s) 51, 777, 840
BstSFI CTRYAG 2 cut(s) 225, 883
BstUI CGCG 2 cut(s) 156, 369
BstV1I GCAGC 3 cut(s) 239, 467, 574
BstV2I GAAGAC 1 cut(s) 366
BstX2I RGATCY 1 cut(s) 603
BstYI RGATCY 1 cut(s) 603
BsuRI GGCC 1 cut(s) 782
BtsCI GGATG 2 cut(s) 61, 493
BtsIMutI CAGTG 1 cut(s) 251
BtuMI TCGCGA 1 cut(s) 369
Cac8I GCNNGC 2 cut(s) 67, 249
CfoI GCGC 2 cut(s) 158, 165
Cfr13I GGNCC 2 cut(s) 649, 799
Csp6I GTAC 2 cut(s) 502, 519
CviAII CATG 5 cut(s) 248, 285, 667, 766, 853
CviQI GTAC 2 cut(s) 502, 519
DdeI CTNAG 2 cut(s) 329, 659
DpnI GATC 2 cut(s) 540, 605
DpnII GATC 2 cut(s) 538, 603
DraI TTTAAA 1 cut(s) 573
DriI GACNNNNNGTC 1 cut(s) 43
EaeI YGGCCR 1 cut(s) 780
Eam1105I GACNNNNNGTC 1 cut(s) 43
Eco47I GGWCC 2 cut(s) 649, 799
Eco57I CTGAAG 2 cut(s) 494, 764
EcoRII CCWGG 3 cut(s) 51, 777, 840
EcoT22I ATGCAT 1 cut(s) 668
Esp3I CGTCTC 2 cut(s) 793, 819
FaeI CATG 5 cut(s) 251, 288, 670, 769, 856
FatI CATG 5 cut(s) 247, 284, 666, 765, 852
FauNDI CATATG 1 cut(s) 346
Fnu4HI GCNGC 4 cut(s) 154, 228, 456, 588
FokI GGATG 2 cut(s) 68, 500
Fsp4HI GCNGC 4 cut(s) 154, 228, 456, 588
FspAI RTGCGCAY 1 cut(s) 164
FspBI CTAG 1 cut(s) 233
FspI TGCGCA 1 cut(s) 164
GlaI GCGC 2 cut(s) 157, 164
GluI GCNGC 4 cut(s) 154, 228, 456, 588
HaeIII GGCC 1 cut(s) 782
HhaI GCGC 2 cut(s) 158, 165
Hin1I GRCGYC 1 cut(s) 828
Hin1II CATG 5 cut(s) 251, 288, 670, 769, 856
Hin6I GCGC 2 cut(s) 156, 163
HinP1I GCGC 2 cut(s) 156, 163
HincII GTYRAC 1 cut(s) 443
HindII GTYRAC 1 cut(s) 443
HinfI GANTC 6 cut(s) 59, 289, 320, 578, 616, 672
HphI GGTGA 2 cut(s) 74, 193
Hpy166II GTNNAC 2 cut(s) 443, 599
Hpy188I TCNGA 1 cut(s) 91
Hpy188III TCNNGA 3 cut(s) 302, 368, 832
Hpy8I GTNNAC 2 cut(s) 443, 599
HpyAV CCTTC 4 cut(s) 89, 374, 469, 636
HpyCH4III ACNGT 4 cut(s) 41, 255, 511, 724
HpyCH4IV ACGT 2 cut(s) 380, 828
HpyCH4V TGCA 8 cut(s) 227, 251, 267, 455, 556, 666, 716, 862
HpyF10VI GCNNNNNNNGC 1 cut(s) 162
HpyF3I CTNAG 2 cut(s) 329, 659
HpySE526I ACGT 2 cut(s) 380, 828
Hsp92I GRCGYC 1 cut(s) 828
Hsp92II CATG 5 cut(s) 251, 288, 670, 769, 856
HspAI GCGC 2 cut(s) 156, 163
Kzo9I GATC 2 cut(s) 538, 603
LmnI GCTCC 2 cut(s) 397, 705
Lsp1109I GCAGC 3 cut(s) 239, 467, 574
LweI GCATC 4 cut(s) 174, 543, 653, 849
MaeI CTAG 1 cut(s) 233
MaeII ACGT 2 cut(s) 380, 828
MaeIII GTNAC 3 cut(s) 511, 724, 811
MalI GATC 2 cut(s) 540, 605
MboI GATC 2 cut(s) 538, 603
MboII GAAGA 1 cut(s) 371
MflI RGATCY 1 cut(s) 603
MhlI GDGCHC 2 cut(s) 532, 702
MlsI TGGCCA 1 cut(s) 782
MluCI AATT 5 cut(s) 122, 189, 210, 557, 684
MluNI TGGCCA 1 cut(s) 782
MmeI TCCRAC 1 cut(s) 892
MnlI CCTC 5 cut(s) 34, 58, 405, 785, 870
Mox20I TGGCCA 1 cut(s) 782
Mph1103I ATGCAT 1 cut(s) 668
MroXI GAANNNNTTC 1 cut(s) 363
MscI TGGCCA 1 cut(s) 782
MseI TTAA 1 cut(s) 572
MslI CAYNNNNRTG 1 cut(s) 857
Msp20I TGGCCA 1 cut(s) 782
MspR9I CCNGG 3 cut(s) 53, 779, 842
MvaI CCWGG 3 cut(s) 53, 779, 842
MvnI CGCG 2 cut(s) 156, 369
MwoI GCNNNNNNNGC 1 cut(s) 162
NdeI CATATG 1 cut(s) 346
NdeII GATC 2 cut(s) 538, 603
NlaIII CATG 5 cut(s) 251, 288, 670, 769, 856
NlaIV GGNNCC 2 cut(s) 152, 846
NmuCI GTSAC 1 cut(s) 724
NruI TCGCGA 1 cut(s) 369
NsbI TGCGCA 1 cut(s) 164
NsiI ATGCAT 1 cut(s) 668
NspI RCATGY 1 cut(s) 251
PaeI GCATGC 1 cut(s) 251
PdmI GAANNNNTTC 1 cut(s) 363
PfeI GAWTC 6 cut(s) 59, 289, 320, 578, 616, 672
PkrI GCNGC 4 cut(s) 155, 229, 457, 589
Psp6I CCWGG 3 cut(s) 51, 777, 840
PspGI CCWGG 3 cut(s) 51, 777, 840
PspN4I GGNNCC 2 cut(s) 152, 846
PspPI GGNCC 2 cut(s) 649, 799
PstI CTGCAG 1 cut(s) 229
PsuI RGATCY 1 cut(s) 603
RruI TCGCGA 1 cut(s) 369
RsaI GTAC 2 cut(s) 503, 520
RsaNI GTAC 2 cut(s) 502, 519
RseI CAYNNNNRTG 1 cut(s) 857
SaqAI TTAA 1 cut(s) 572
SatI GCNGC 4 cut(s) 154, 228, 456, 588
Sau3AI GATC 2 cut(s) 538, 603
Sau96I GGNCC 2 cut(s) 649, 799
ScrFI CCNGG 3 cut(s) 53, 779, 842
SduI GDGCHC 2 cut(s) 532, 702
SfaNI GCATC 4 cut(s) 174, 543, 653, 849
SfcI CTRYAG 2 cut(s) 225, 883
SinI GGWCC 2 cut(s) 649, 799
SmiMI CAYNNNNRTG 1 cut(s) 857
SphI GCATGC 1 cut(s) 251
Sse9I AATT 5 cut(s) 122, 189, 210, 557, 684
SsiI CCGC 1 cut(s) 154
SspMI CTAG 1 cut(s) 233
StyD4I CCNGG 3 cut(s) 51, 777, 840
TaaI ACNGT 4 cut(s) 41, 255, 511, 724
TaiI ACGT 2 cut(s) 383, 831
TaqI TCGA 2 cut(s) 526, 541
TasI AATT 5 cut(s) 122, 189, 210, 557, 684
TauI GCSGC 1 cut(s) 156
TfiI GAWTC 6 cut(s) 59, 289, 320, 578, 616, 672
Tru1I TTAA 1 cut(s) 572
Tru9I TTAA 1 cut(s) 572
TscAI CASTG 1 cut(s) 258
TseFI GTSAC 1 cut(s) 724
TseI GCWGC 3 cut(s) 227, 455, 587
Tsp45I GTSAC 1 cut(s) 724
TspDTI ATGAA 5 cut(s) 72, 187, 273, 591, 629
TspRI CASTG 1 cut(s) 258
VpaK11BI GGWCC 2 cut(s) 649, 799
XceI RCATGY 1 cut(s) 251
XcmI CCANNNNNNNNNTGG 1 cut(s) 351
XmnI GAANNNNTTC 1 cut(s) 363
XspI CTAG 1 cut(s) 233
ZraI GACGTC 1 cut(s) 829
Zsp2I ATGCAT 1 cut(s) 668
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.