FvH4_7g14351

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb7
OG0000278
Physical Location & Seq
Reverse (-)
12711102 .. 12712436
1335 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_7g14351.t1

Sequence Viewer

Length: 1182 bp
ATGACATATGCAAAAGTCTGTAGTGGGTATGCAATTACACTCGGAGCAGACTCGCCGGTGGAGCTGTGGCACAAGCGGCTTGGTCATATCAGCGAGAAGGGACTTACTATTCTAGCCAAAAGAGAGGTACTGTCTGGTGTCAATGTTAAAGATATGCCTCTAAAATCATGTACGCATTGCTTGGCTGGAAAGCAACATCGAGCTTCATTCCATCGTTATCCTGCGCCAAGGAAATCCAATGTTTTGAATGTTGTACATTCTGATGTGTGTGGTCCCATGACCACGAGTACTCACAGAGGTGCAAGATACTTCGTTACCTTCATTGATGATCATTCCAGGAAGGTATGGGCTTATGCATTGACGACGAAAGATCAAGTGCTGGAAGTATTCAAGCAACTTCATGCCAGAGTTGAACGGGAGACCGGCAAAACCCTGAAATGCATTCGCACCGACAACGGGGGAGAGTACATGGGGGCGTTCAGACACTATTGTAAAAGTAACGGAATCAGGCATGAACGATCTGTTCCAAAGACTCCTCAGCACAACGGAGTGGCCGAAAGGATGAACAGAGCTATTGTTGAAAGAATCAGAACAATGTTATCTCATGCCAAGCTGCCTAAGAGCTTTTGGGGTGAAGCTCTGATGACTGCGGTTTATGTGATCAACCTTTCTCCTTCAGCTCCATTGAATGGTGACCTGTCGAACAAGCTGTGGGATCCTGTCAACAAGAAGATTGTCAGAAGCAGAGATGTTGTCTTCTTCGAAGATCAAAATATTGAAGATACTCAGAAGACTGAGAAGCCTAAGAAACCCAGAGAATATCCAGTCAACTCGGATAAAGATTCTCCGCCAACAAAGCAGGATGGCAGGAAAGAAACCGGAGACTTCGATGATGCAGCAAATGACCCGATGATCAATGATCCAGTTGGTGATACAACTGATGATGAGGAAGAGGCACCGACCCCACGAAGATCAACCAGGAAACGCAGAACCTCGAGAAGATACCCTCCAGATGAGTTCGTTACTCTCACAGATGGAGGAGAACCAGAGTCTTATGAAGAAGCTCTGACGGATGACCACAAGGGGGAGTGGTTGGAAGCCATGCAAGAAGAGATACAATCCTTGCATGAGAACCAGACTCATAAACAAATGGGTGTACAAACTGAAGACCGAGGAGAATAA
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
RVT_2 gag_pre-integrs rve

Protein Analysis

394

Amino Acids

44.68

Weight (kDa)

7.7

Isoelectric Point (pI)

51.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
gag_pre-integrs PF13976 16 - 65 6.3e-14 GAG-pre-integrase domain
rve PF00665 84 - 179 6.4e-13 Integrase core domain
SH3_retrovirus PF25597 236 - 265 5.5e-06 Retroviral polymerase SH3-like 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)
AccB1I GGYRCC 1 cut(s) 955
AccB7I CCANNNNNTGG 1 cut(s) 689
AciI CCGC 3 cut(s) 76, 650, 848
AclWI GGATC 3 cut(s) 710, 723, 914
AcoI YGGCCR 1 cut(s) 552
AcuI CTGAAG 1 cut(s) 660
AfaI GTAC 6 cut(s) 129, 172, 255, 289, 467, 1158
AfiI CCNNNNNNNGG 3 cut(s) 456, 689, 1084
AgsI TTSAA 6 cut(s) 247, 391, 413, 581, 688, 779
AjnI CCWGG 2 cut(s) 335, 977
AleI CACNNNNGTG 1 cut(s) 297
AluBI AGCT 9 cut(s) 64, 203, 572, 613, 624, 638, 680, 709, 1064
AluI AGCT 9 cut(s) 64, 203, 572, 613, 624, 638, 680, 709, 1064
Alw26I GTCTC 2 cut(s) 413, 876
AlwI GGATC 3 cut(s) 710, 723, 914
Ama87I CYCGRG 1 cut(s) 994
AoxI GGCC 1 cut(s) 552
ApeKI GCWGC 2 cut(s) 613, 896
AspLEI GCGC 1 cut(s) 226
AspS9I GGNCC 1 cut(s) 272
AsuHPI GGTGA 3 cut(s) 644, 704, 941
AsuII TTCGAA 1 cut(s) 762
AvaI CYCGRG 1 cut(s) 994
AvaII GGWCC 1 cut(s) 272
BamHI GGATCC 1 cut(s) 715
BanI GGYRCC 1 cut(s) 955
BauI CACGAG 1 cut(s) 283
BbsI GAAGAC 3 cut(s) 748, 797, 1173
BbvCI CCTCAGC 1 cut(s) 537
BbvI GCAGC 2 cut(s) 600, 908
BccI CCATC 3 cut(s) 219, 857, 1028
BciT130I CCWGG 2 cut(s) 337, 979
BclI TGATCA 3 cut(s) 328, 660, 912
BcoDI GTCTC 2 cut(s) 413, 876
BfaI CTAG 1 cut(s) 113
BfmI CTRYAG 1 cut(s) 19
BisI GCNGC 3 cut(s) 77, 614, 897
BlsI GCNGC 3 cut(s) 78, 615, 898
BmcAI AGTACT 1 cut(s) 289
Bme1390I CCNGG 2 cut(s) 337, 979
Bme18I GGWCC 1 cut(s) 272
BmeT110I CYCGRG 1 cut(s) 994
BmgT120I GGNCC 1 cut(s) 272
BmiI GGNNCC 3 cut(s) 274, 717, 957
BmrFI CCNGG 2 cut(s) 337, 979
BmsI GCATC 1 cut(s) 883
BpiI GAAGAC 3 cut(s) 748, 797, 1173
BpmI CTGGAG 1 cut(s) 993
Bpu10I CCTNAGC 1 cut(s) 537
Bpu14I TTCGAA 1 cut(s) 762
BsaI GGTCTC 1 cut(s) 413
BsaJI CCNNGG 2 cut(s) 227, 1171
BsaWI WCCGGW 1 cut(s) 878
Bsc4I CCNNNNNNNGG 3 cut(s) 456, 689, 1084
Bse118I RCCGGY 2 cut(s) 55, 422
Bse1I ACTGG 2 cut(s) 824, 923
Bse3DI GCAATG 1 cut(s) 175
BseBI CCWGG 2 cut(s) 337, 979
BseDI CCNNGG 2 cut(s) 227, 1171
BseGI GGATG 3 cut(s) 567, 868, 1078
BseLI CCNNNNNNNGG 3 cut(s) 456, 689, 1084
BseMI GCAATG 1 cut(s) 175
BseMII CTCAG 3 cut(s) 551, 786, 800
BseNI ACTGG 2 cut(s) 824, 923
BseRI GAGGAG 2 cut(s) 525, 1053
BseXI GCAGC 2 cut(s) 600, 908
BshFI GGCC 1 cut(s) 554
BshNI GGYRCC 1 cut(s) 955
BsiHKCI CYCGRG 1 cut(s) 994
BsiSI CCGG 3 cut(s) 56, 423, 879
BslFI GGGAC 2 cut(s) 114, 258
BslI CCNNNNNNNGG 3 cut(s) 456, 689, 1084
BsmAI GTCTC 2 cut(s) 413, 876
BsmFI GGGAC 2 cut(s) 114, 258
BsmI GAATGC 1 cut(s) 441
BsnI GGCC 1 cut(s) 554
Bso31I GGTCTC 1 cut(s) 413
BsoBI CYCGRG 1 cut(s) 994
Bsp119I TTCGAA 1 cut(s) 762
Bsp1407I TGTACA 2 cut(s) 253, 1156
Bsp143I GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
BspACI CCGC 3 cut(s) 76, 650, 848
BspANI GGCC 1 cut(s) 554
BspCNI CTCAG 3 cut(s) 550, 787, 799
BspLI GGNNCC 3 cut(s) 274, 717, 957
BspPI GGATC 3 cut(s) 710, 723, 914
BspT104I TTCGAA 1 cut(s) 762
BspT107I GGYRCC 1 cut(s) 955
BspTNI GGTCTC 1 cut(s) 413
BsrDI GCAATG 1 cut(s) 175
BsrFI RCCGGY 2 cut(s) 55, 422
BsrGI TGTACA 2 cut(s) 253, 1156
BsrI ACTGG 2 cut(s) 824, 923
BssAI RCCGGY 2 cut(s) 55, 422
BssECI CCNNGG 2 cut(s) 227, 1171
BssMI GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
BssSI CACGAG 1 cut(s) 283
BssT1I CCWWGG 1 cut(s) 227
Bst2BI CACGAG 1 cut(s) 283
Bst2UI CCWGG 2 cut(s) 337, 979
Bst4CI ACNGT 1 cut(s) 132
Bst6I CTCTTC 2 cut(s) 945, 1104
BstAUI TGTACA 2 cut(s) 253, 1156
BstBI TTCGAA 1 cut(s) 762
BstDEI CTNAG 5 cut(s) 537, 618, 786, 795, 804
BstEII GGTNACC 1 cut(s) 692
BstF5I GGATG 3 cut(s) 567, 868, 1078
BstHHI GCGC 1 cut(s) 226
BstKTI GATC 9 cut(s) 331, 373, 521, 663, 718, 769, 915, 922, 974
BstMAI GTCTC 2 cut(s) 413, 876
BstMBI GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
BstMWI GCNNNNNNNGC 3 cut(s) 61, 76, 856
BstNI CCWGG 2 cut(s) 337, 979
BstPI GGTNACC 1 cut(s) 692
BstSCI CCNGG 2 cut(s) 335, 977
BstSFI CTRYAG 1 cut(s) 19
BstV1I GCAGC 2 cut(s) 600, 908
BstV2I GAAGAC 3 cut(s) 748, 797, 1173
BstX2I RGATCY 1 cut(s) 715
BstYI RGATCY 1 cut(s) 715
BsuRI GGCC 1 cut(s) 554
BtsCI GGATG 3 cut(s) 567, 868, 1078
CfoI GCGC 1 cut(s) 226
Cfr10I RCCGGY 2 cut(s) 55, 422
Cfr13I GGNCC 1 cut(s) 272
Csp6I GTAC 6 cut(s) 128, 171, 254, 288, 466, 1157
CviAII CATG 8 cut(s) 168, 277, 401, 469, 512, 605, 1102, 1127
CviQI GTAC 6 cut(s) 128, 171, 254, 288, 466, 1157
DdeI CTNAG 5 cut(s) 537, 618, 786, 795, 804
DpnI GATC 9 cut(s) 330, 372, 520, 662, 717, 768, 914, 921, 973
DpnII GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
EaeI YGGCCR 1 cut(s) 552
Eam1104I CTCTTC 2 cut(s) 945, 1104
EarI CTCTTC 2 cut(s) 945, 1104
EciI GGCGGA 1 cut(s) 837
Eco130I CCWWGG 1 cut(s) 227
Eco31I GGTCTC 1 cut(s) 413
Eco47I GGWCC 1 cut(s) 272
Eco57I CTGAAG 1 cut(s) 660
Eco88I CYCGRG 1 cut(s) 994
Eco91I GGTNACC 1 cut(s) 692
EcoO65I GGTNACC 1 cut(s) 692
EcoRII CCWGG 2 cut(s) 335, 977
EcoT14I CCWWGG 1 cut(s) 227
EcoT22I ATGCAT 2 cut(s) 358, 443
ErhI CCWWGG 1 cut(s) 227
FaeI CATG 8 cut(s) 171, 280, 404, 472, 515, 608, 1105, 1130
FaqI GGGAC 2 cut(s) 114, 258
FatI CATG 8 cut(s) 167, 276, 400, 468, 511, 604, 1101, 1126
FauNDI CATATG 1 cut(s) 7
FbaI TGATCA 3 cut(s) 328, 660, 912
Fnu4HI GCNGC 3 cut(s) 77, 614, 897
FokI GGATG 3 cut(s) 574, 875, 1085
Fsp4HI GCNGC 3 cut(s) 77, 614, 897
FspBI CTAG 1 cut(s) 113
GlaI GCGC 1 cut(s) 225
GluI GCNGC 3 cut(s) 77, 614, 897
GsuI CTGGAG 1 cut(s) 993
HaeIII GGCC 1 cut(s) 554
HapII CCGG 3 cut(s) 56, 423, 879
HhaI GCGC 1 cut(s) 226
Hin1II CATG 8 cut(s) 171, 280, 404, 472, 515, 608, 1105, 1130
Hin6I GCGC 1 cut(s) 224
HinP1I GCGC 1 cut(s) 224
HincII GTYRAC 2 cut(s) 724, 829
HindII GTYRAC 2 cut(s) 724, 829
HinfI GANTC 7 cut(s) 50, 504, 532, 585, 842, 1049, 1138
HpaII CCGG 3 cut(s) 56, 423, 879
HphI GGTGA 3 cut(s) 644, 704, 941
Hpy166II GTNNAC 3 cut(s) 724, 829, 1157
Hpy188I TCNGA 9 cut(s) 44, 262, 482, 590, 642, 740, 789, 835, 1068
Hpy188III TCNNGA 2 cut(s) 996, 1010
Hpy8I GTNNAC 3 cut(s) 724, 829, 1157
Hpy99I CGWCG 1 cut(s) 367
HpyAV CCTTC 4 cut(s) 91, 328, 334, 684
HpyCH4III ACNGT 1 cut(s) 132
HpyCH4V TGCA 8 cut(s) 11, 32, 302, 356, 441, 896, 1105, 1126
HpyF10VI GCNNNNNNNGC 3 cut(s) 61, 76, 856
HpyF3I CTNAG 5 cut(s) 537, 618, 786, 795, 804
Hsp92II CATG 8 cut(s) 171, 280, 404, 472, 515, 608, 1105, 1130
HspAI GCGC 1 cut(s) 224
Ksp22I TGATCA 3 cut(s) 328, 660, 912
Kzo9I GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
LmnI GCTCC 3 cut(s) 44, 61, 685
Lsp1109I GCAGC 2 cut(s) 600, 908
LweI GCATC 1 cut(s) 883
MaeI CTAG 1 cut(s) 113
MaeIII GTNAC 4 cut(s) 313, 497, 692, 1021
MalI GATC 9 cut(s) 330, 372, 520, 662, 717, 768, 914, 921, 973
MboI GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
MflI RGATCY 1 cut(s) 715
MluCI AATT 1 cut(s) 33
MlyI GAGTC 4 cut(s) 44, 526, 1058, 1132
MmeI TCCRAC 1 cut(s) 1074
Mph1103I ATGCAT 2 cut(s) 358, 443
MseI TTAA 1 cut(s) 147
MslI CAYNNNNRTG 2 cut(s) 261, 297
MspI CCGG 3 cut(s) 56, 423, 879
MspR9I CCNGG 2 cut(s) 337, 979
Mva1269I GAATGC 1 cut(s) 441
MvaI CCWGG 2 cut(s) 337, 979
MwoI GCNNNNNNNGC 3 cut(s) 61, 76, 856
NdeI CATATG 1 cut(s) 7
NdeII GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
NlaIII CATG 8 cut(s) 171, 280, 404, 472, 515, 608, 1105, 1130
NlaIV GGNNCC 3 cut(s) 274, 717, 957
NmuCI GTSAC 1 cut(s) 692
NsiI ATGCAT 2 cut(s) 358, 443
NspV TTCGAA 1 cut(s) 762
OliI CACNNNNGTG 1 cut(s) 297
PaeR7I CTCGAG 1 cut(s) 994
PcsI WCGNNNNNNNCGW 1 cut(s) 552
PctI GAATGC 1 cut(s) 441
PfeI GAWTC 3 cut(s) 504, 585, 842
PflMI CCANNNNNTGG 1 cut(s) 689
PfoI TCCNGGA 1 cut(s) 335
PkrI GCNGC 3 cut(s) 78, 615, 898
PleI GAGTC 4 cut(s) 44, 526, 1057, 1132
PpsI GAGTC 4 cut(s) 44, 526, 1057, 1132
Psp6I CCWGG 2 cut(s) 335, 977
PspEI GGTNACC 1 cut(s) 692
PspGI CCWGG 2 cut(s) 335, 977
PspN4I GGNNCC 3 cut(s) 274, 717, 957
PspPI GGNCC 1 cut(s) 272
PsuI RGATCY 1 cut(s) 715
RsaI GTAC 6 cut(s) 129, 172, 255, 289, 467, 1158
RsaNI GTAC 6 cut(s) 128, 171, 254, 288, 466, 1157
RseI CAYNNNNRTG 2 cut(s) 261, 297
SaqAI TTAA 1 cut(s) 147
SatI GCNGC 3 cut(s) 77, 614, 897
Sau3AI GATC 9 cut(s) 328, 370, 518, 660, 715, 766, 912, 919, 971
Sau96I GGNCC 1 cut(s) 272
ScaI AGTACT 1 cut(s) 289
SchI GAGTC 4 cut(s) 44, 526, 1058, 1132
ScrFI CCNGG 2 cut(s) 337, 979
SfaNI GCATC 1 cut(s) 883
SfcI CTRYAG 1 cut(s) 19
Sfr274I CTCGAG 1 cut(s) 994
SfuI TTCGAA 1 cut(s) 762
SgrAI CRCCGGYG 1 cut(s) 55
SinI GGWCC 1 cut(s) 272
SlaI CTCGAG 1 cut(s) 994
SmiMI CAYNNNNRTG 2 cut(s) 261, 297
SmlI CTYRAG 1 cut(s) 994
SmoI CTYRAG 1 cut(s) 994
Sse9I AATT 1 cut(s) 33
SsiI CCGC 3 cut(s) 76, 650, 848
SspI AATATT 1 cut(s) 775
SspMI CTAG 1 cut(s) 113
StyD4I CCNGG 2 cut(s) 335, 977
StyI CCWWGG 1 cut(s) 227
TaaI ACNGT 1 cut(s) 132
TaqI TCGA 5 cut(s) 199, 701, 762, 888, 995
TasI AATT 1 cut(s) 33
TatI WGTACW 4 cut(s) 253, 287, 465, 1156
TauI GCSGC 1 cut(s) 79
TfiI GAWTC 3 cut(s) 504, 585, 842
Tru1I TTAA 1 cut(s) 147
Tru9I TTAA 1 cut(s) 147
TseFI GTSAC 1 cut(s) 692
TseI GCWGC 2 cut(s) 613, 896
Tsp45I GTSAC 1 cut(s) 692
TspDTI ATGAA 6 cut(s) 195, 310, 389, 528, 578, 1071
TspGWI ACGGA 3 cut(s) 516, 561, 1085
Van91I CCANNNNNTGG 1 cut(s) 689
VpaK11BI GGWCC 1 cut(s) 272
XhoI CTCGAG 1 cut(s) 994
XspI CTAG 1 cut(s) 113
ZrmI AGTACT 1 cut(s) 289
Zsp2I ATGCAT 2 cut(s) 358, 443
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.