FvH4_2g05351

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0001157
Physical Location & Seq
Reverse (-)
4407674 .. 4408837
1164 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g05351.t1

Sequence Viewer

Length: 1164 bp
ATGCGTCGGGATGTGAAACGCTTTGTTGCTAGTTGTGACCAATGCCAACGCAACAATTACGAGACTGTCCATCCTCCGGGTCTCCTACAACCCCTTCCGGTGCCGGATAATGTCTGGGTCGACATAGCTATAGACTTCATCGATGGACTACCACTTTCGGAGGGCAAATCCTCGATTCTAGTCGTGGTTGATCGACTTTCCAAGCAAGGCCACTTCATCGCCGTAGCTCATCCCTACACAGCTAGTGACATAGCAGAGACATTCACCAGAGAAGTCTTTCGCCTCCACGGCATGCCTCGTTCCATTGTCAGTGATCGGGACAAAATCTTTATCAGCCATTTTTGGAAGCACTTCTTCAAGCTTCAAGGTACTCAGCTTTGTCGTAGCTCTGCCTATCACCCACAAACCGATGGCCAAACGGAAGTGCTCAATCGTACCTTGGAGCACTATTTGCGGTGCTTCATTCAGGATAAACCAACAAACTGGGCAAATCTCCTCCACTGGGCTGAATGGTGGTACAATTCCACTTATCATTCCACCATCAAAATGACTCCATTCCAGGCAGTATATGGCTATCCACCACCTGCAATCTCAACCTACCTTCCAGGTTCGACCGCGGTGGCATCAGTGGACAAGCAATTGAAGGACAGAGACTCTCTGCTCACTTCCCTGAAGTCTCATATGCAATTGGCCCAAAATCGAATGAAGCAACACTCTGATCGGAAACGCACTGAGCGCAAGTTTGCCGAGGGCGACTGGGTCTTTCTCAAACTCCATCCCTATCGCCAGCAATCGGTGGTTCGCCGACCCTCTCAAAAATTGGCTCCCCGCTTCTATGGTCCCTTCCAAGTCGCTGCAAAAATTGGCAAAGTGGCCTACAAGCTGCACCTTCCGGCTCACACCAGGATCCATCCTATCTTCCATGTCTCGCTGCTCAAGCTCCGGATTGGAGATCAGACGCCGGTCACCACAACCCTCCCTCAATTTGACACCGACGGTGCTCTCTCTTGGGAACCAGAGCGTGTGATTGATATGCGTGTTGTGAGAAAGAAGAAACGCTCAGTCACTGAATGGCTAGTAGTTTGGGCTGGTCTGCCAGAAGAGGACGCCACGTGGGAACAAGCCCACTCACTCATGTCCAAATTTCCCACCTTCCAAGCTTGA
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

388

Amino Acids

44.8

Weight (kDa)

9.57

Isoelectric Point (pI)

36.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
rve PF00665 44 - 134 2.2e-06 Integrase core domain
SH3_Tf2-1 PF24626 251 - 313 1.4e-23 Tf2-1-like, SH3 domain
Chromo PF00385 337 - 383 1.7e-08 Chromo (CHRromatin Organisation MOdifier) 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 592
Acc36I ACCTGC 1 cut(s) 592
AccB1I GGYRCC 1 cut(s) 100
AccI GTMKAC 1 cut(s) 120
AccII CGCG 1 cut(s) 617
AccIII TCCGGA 1 cut(s) 942
AciI CCGC 4 cut(s) 454, 615, 617, 829
AclWI GGATC 2 cut(s) 901, 914
AcoI YGGCCR 1 cut(s) 412
AcsI RAATTY 1 cut(s) 1142
AcuI CTGAAG 1 cut(s) 692
AcvI CACGTG 1 cut(s) 1113
AcyI GRCGYC 2 cut(s) 959, 1107
AfaI GTAC 3 cut(s) 370, 436, 518
AfiI CCNNNNNNNGG 3 cut(s) 76, 502, 793
AgsI TTSAA 3 cut(s) 358, 365, 643
AjnI CCWGG 3 cut(s) 558, 604, 902
AluBI AGCT 9 cut(s) 128, 227, 242, 361, 376, 387, 883, 940, 1160
AluI AGCT 9 cut(s) 128, 227, 242, 361, 376, 387, 883, 940, 1160
Alw21I GWGCWC 3 cut(s) 429, 447, 1003
Alw26I GTCTC 6 cut(s) 56, 86, 251, 645, 681, 931
AlwI GGATC 2 cut(s) 901, 914
AlwNI CAGNNNCTG 1 cut(s) 1067
Aor13HI TCCGGA 1 cut(s) 942
AoxI GGCC 4 cut(s) 208, 412, 690, 873
ApeKI GCWGC 3 cut(s) 854, 883, 931
ApoI RAATTY 1 cut(s) 1142
Asp700I GAANNNNTTC 2 cut(s) 276, 350
AspLEI GCGC 1 cut(s) 738
AspS9I GGNCC 2 cut(s) 691, 839
AsuC2I CCSGG 1 cut(s) 78
AsuHPI GGTGA 3 cut(s) 256, 389, 958
AvaII GGWCC 1 cut(s) 839
BalI TGGCCA 1 cut(s) 414
BamHI GGATCC 1 cut(s) 906
BanI GGYRCC 1 cut(s) 100
BbrPI CACGTG 1 cut(s) 1113
Bbv12I GWGCWC 3 cut(s) 429, 447, 1003
BbvI GCAGC 3 cut(s) 841, 870, 918
BccI CCATC 6 cut(s) 78, 137, 404, 548, 783, 918
BceAI ACGGC 2 cut(s) 206, 304
BciT130I CCWGG 3 cut(s) 560, 606, 904
BcnI CCSGG 1 cut(s) 78
BcoDI GTCTC 6 cut(s) 56, 86, 251, 645, 681, 931
BfaI CTAG 4 cut(s) 30, 179, 243, 1076
BfmI CTRYAG 1 cut(s) 129
BfuAI ACCTGC 1 cut(s) 592
BglI GCCNNNNNGGC 1 cut(s) 288
BisI GCNGC 3 cut(s) 855, 884, 932
BlsI GCNGC 3 cut(s) 856, 885, 933
Bme1390I CCNGG 4 cut(s) 78, 560, 606, 904
Bme18I GGWCC 1 cut(s) 839
BmgT120I GGNCC 2 cut(s) 691, 839
BmiI GGNNCC 5 cut(s) 102, 825, 841, 908, 1014
BmrFI CCNGG 4 cut(s) 78, 560, 606, 904
BmrI ACTGGG 3 cut(s) 493, 511, 766
BmsI GCATC 1 cut(s) 632
BmuI ACTGGG 3 cut(s) 493, 511, 766
BoxI GACNNNNGTC 1 cut(s) 962
BpuEI CTTGAG 1 cut(s) 920
BpuMI CCSGG 1 cut(s) 78
Bsa29I ATCGAT 1 cut(s) 141
BsaAI YACGTR 1 cut(s) 1113
BsaHI GRCGYC 2 cut(s) 959, 1107
BsaI GGTCTC 1 cut(s) 86
BsaJI CCNNGG 4 cut(s) 286, 438, 615, 747
BsaWI WCCGGW 2 cut(s) 97, 942
Bsc4I CCNNNNNNNGG 3 cut(s) 76, 502, 793
Bse118I RCCGGY 1 cut(s) 961
Bse1I ACTGG 3 cut(s) 488, 506, 761
BseAI TCCGGA 1 cut(s) 942
BseBI CCWGG 3 cut(s) 560, 606, 904
BseCI ATCGAT 1 cut(s) 141
BseDI CCNNGG 4 cut(s) 286, 438, 615, 747
BseGI GGATG 5 cut(s) 16, 70, 229, 775, 910
BseLI CCNNNNNNNGG 3 cut(s) 76, 502, 793
BseMII CTCAG 3 cut(s) 386, 723, 1074
BseNI ACTGG 3 cut(s) 488, 506, 761
BseRI GAGGAG 1 cut(s) 485
BseXI GCAGC 3 cut(s) 841, 870, 918
BsgI GTGCAG 1 cut(s) 869
Bsh1236I CGCG 1 cut(s) 617
Bsh1285I CGRYCG 1 cut(s) 615
BshFI GGCC 4 cut(s) 210, 414, 692, 875
BshNI GGYRCC 1 cut(s) 100
BshVI ATCGAT 1 cut(s) 141
BsiEI CGRYCG 1 cut(s) 615
BsiHKAI GWGCWC 3 cut(s) 429, 447, 1003
BsiSI CCGG 6 cut(s) 77, 98, 104, 893, 943, 962
BslFI GGGAC 2 cut(s) 332, 825
BslI CCNNNNNNNGG 3 cut(s) 76, 502, 793
BsmAI GTCTC 6 cut(s) 56, 86, 251, 645, 681, 931
BsmFI GGGAC 2 cut(s) 332, 825
BsnI GGCC 4 cut(s) 210, 414, 692, 875
Bso31I GGTCTC 1 cut(s) 86
Bsp1286I GDGCHC 3 cut(s) 429, 447, 1003
Bsp13I TCCGGA 1 cut(s) 942
Bsp143I GATC 5 cut(s) 190, 313, 718, 906, 952
BspACI CCGC 4 cut(s) 454, 615, 617, 829
BspANI GGCC 4 cut(s) 210, 414, 692, 875
BspCNI CTCAG 3 cut(s) 385, 724, 1073
BspDI ATCGAT 1 cut(s) 141
BspEI TCCGGA 1 cut(s) 942
BspFNI CGCG 1 cut(s) 617
BspLI GGNNCC 5 cut(s) 102, 825, 841, 908, 1014
BspMI ACCTGC 1 cut(s) 592
BspPI GGATC 2 cut(s) 901, 914
BspT107I GGYRCC 1 cut(s) 100
BspTNI GGTCTC 1 cut(s) 86
BsrFI RCCGGY 1 cut(s) 961
BsrI ACTGG 3 cut(s) 488, 506, 761
BssAI RCCGGY 1 cut(s) 961
BssECI CCNNGG 4 cut(s) 286, 438, 615, 747
BssMI GATC 5 cut(s) 190, 313, 718, 906, 952
BssNI GRCGYC 2 cut(s) 959, 1107
BssT1I CCWWGG 1 cut(s) 438
Bst2UI CCWGG 3 cut(s) 560, 606, 904
Bst4CI ACNGT 2 cut(s) 67, 998
Bst6I CTCTTC 1 cut(s) 1095
BstACI GRCGYC 2 cut(s) 959, 1107
BstAPI GCANNNNNTGC 1 cut(s) 451
BstBAI YACGTR 1 cut(s) 1113
BstC8I GCNNGC 2 cut(s) 293, 788
BstDEI CTNAG 3 cut(s) 372, 732, 1060
BstDSI CCRYGG 2 cut(s) 286, 615
BstEII GGTNACC 1 cut(s) 964
BstF5I GGATG 5 cut(s) 16, 70, 229, 775, 910
BstFNI CGCG 1 cut(s) 617
BstHHI GCGC 1 cut(s) 738
BstKTI GATC 5 cut(s) 193, 316, 721, 909, 955
BstMAI GTCTC 6 cut(s) 56, 86, 251, 645, 681, 931
BstMBI GATC 5 cut(s) 190, 313, 718, 906, 952
BstMCI CGRYCG 1 cut(s) 615
BstMWI GCNNNNNNNGC 4 cut(s) 288, 451, 735, 937
BstNI CCWGG 3 cut(s) 560, 606, 904
BstNSI RCATGY 1 cut(s) 295
BstPAI GACNNNNGTC 1 cut(s) 962
BstPI GGTNACC 1 cut(s) 964
BstSCI CCNGG 4 cut(s) 76, 558, 604, 902
BstSFI CTRYAG 1 cut(s) 129
BstUI CGCG 1 cut(s) 617
BstV1I GCAGC 3 cut(s) 841, 870, 918
BstX2I RGATCY 1 cut(s) 906
BstXI CCANNNNNNTGG 1 cut(s) 483
BstYI RGATCY 1 cut(s) 906
Bsu15I ATCGAT 1 cut(s) 141
BsuRI GGCC 4 cut(s) 210, 414, 692, 875
BsuTUI ATCGAT 1 cut(s) 141
BtgI CCRYGG 2 cut(s) 286, 615
BtgZI GCGATG 1 cut(s) 202
BtsCI GGATG 5 cut(s) 16, 70, 229, 775, 910
BtsIMutI CAGTG 5 cut(s) 316, 499, 633, 729, 1065
BveI ACCTGC 1 cut(s) 592
Cac8I GCNNGC 2 cut(s) 293, 788
CaiI CAGNNNCTG 1 cut(s) 1067
CfoI GCGC 1 cut(s) 738
Cfr10I RCCGGY 1 cut(s) 961
Cfr13I GGNCC 2 cut(s) 691, 839
Cfr42I CCGCGG 1 cut(s) 618
ClaI ATCGAT 1 cut(s) 141
CseI GACGC 2 cut(s) 967, 1115
Csp6I GTAC 3 cut(s) 369, 435, 517
CviAII CATG 3 cut(s) 292, 923, 1135
CviQI GTAC 3 cut(s) 369, 435, 517
DdeI CTNAG 3 cut(s) 372, 732, 1060
DpnI GATC 5 cut(s) 192, 315, 720, 908, 954
DpnII GATC 5 cut(s) 190, 313, 718, 906, 952
EaeI YGGCCR 1 cut(s) 412
Eam1104I CTCTTC 1 cut(s) 1095
EarI CTCTTC 1 cut(s) 1095
Eco130I CCWWGG 1 cut(s) 438
Eco31I GGTCTC 1 cut(s) 86
Eco47I GGWCC 1 cut(s) 839
Eco57I CTGAAG 1 cut(s) 692
Eco72I CACGTG 1 cut(s) 1113
Eco91I GGTNACC 1 cut(s) 964
EcoO65I GGTNACC 1 cut(s) 964
EcoRII CCWGG 3 cut(s) 558, 604, 902
EcoT14I CCWWGG 1 cut(s) 438
ErhI CCWWGG 1 cut(s) 438
FaeI CATG 3 cut(s) 295, 926, 1138
FalI AAGNNNNNCTT 2 cut(s) 338, 370
FaqI GGGAC 2 cut(s) 332, 825
FatI CATG 3 cut(s) 291, 922, 1134
FauI CCCGC 1 cut(s) 836
FauNDI CATATG 1 cut(s) 681
FblI GTMKAC 1 cut(s) 120
Fnu4HI GCNGC 3 cut(s) 855, 884, 932
FokI GGATG 5 cut(s) 23, 57, 216, 762, 897
Fsp4HI GCNGC 3 cut(s) 855, 884, 932
FspBI CTAG 4 cut(s) 30, 179, 243, 1076
GlaI GCGC 1 cut(s) 737
GluI GCNGC 3 cut(s) 855, 884, 932
HaeIII GGCC 4 cut(s) 210, 414, 692, 875
HapII CCGG 6 cut(s) 77, 98, 104, 893, 943, 962
HgaI GACGC 2 cut(s) 967, 1115
HhaI GCGC 1 cut(s) 738
Hin1I GRCGYC 2 cut(s) 959, 1107
Hin1II CATG 3 cut(s) 295, 926, 1138
Hin6I GCGC 1 cut(s) 736
HinP1I GCGC 1 cut(s) 736
HincII GTYRAC 1 cut(s) 121
HindII GTYRAC 1 cut(s) 121
HindIII AAGCTT 2 cut(s) 359, 1158
HinfI GANTC 3 cut(s) 175, 550, 653
HpaII CCGG 6 cut(s) 77, 98, 104, 893, 943, 962
HphI GGTGA 3 cut(s) 256, 389, 958
Hpy166II GTNNAC 2 cut(s) 121, 631
Hpy188I TCNGA 4 cut(s) 160, 718, 723, 957
Hpy188III TCNNGA 4 cut(s) 8, 317, 467, 943
Hpy8I GTNNAC 2 cut(s) 121, 631
Hpy99I CGWCG 2 cut(s) 9, 998
HpyAV CCTTC 6 cut(s) 104, 611, 637, 853, 899, 1162
HpyCH4III ACNGT 2 cut(s) 67, 998
HpyCH4IV ACGT 1 cut(s) 1112
HpyCH4V TGCA 4 cut(s) 587, 685, 857, 886
HpyF10VI GCNNNNNNNGC 4 cut(s) 288, 451, 735, 937
HpyF3I CTNAG 3 cut(s) 372, 732, 1060
HpySE526I ACGT 1 cut(s) 1112
Hsp92I GRCGYC 2 cut(s) 959, 1107
Hsp92II CATG 3 cut(s) 295, 926, 1138
HspAI GCGC 1 cut(s) 736
Kpn2I TCCGGA 1 cut(s) 942
KspI CCGCGG 1 cut(s) 618
Kzo9I GATC 5 cut(s) 190, 313, 718, 906, 952
LmnI GCTCC 3 cut(s) 442, 829, 945
Lsp1109I GCAGC 3 cut(s) 841, 870, 918
LweI GCATC 1 cut(s) 632
MaeI CTAG 4 cut(s) 30, 179, 243, 1076
MaeII ACGT 1 cut(s) 1112
MaeIII GTNAC 4 cut(s) 35, 245, 964, 1063
MalI GATC 5 cut(s) 192, 315, 720, 908, 954
MboI GATC 5 cut(s) 190, 313, 718, 906, 952
MboII GAAGA 4 cut(s) 346, 910, 1063, 1112
MfeI CAATTG 2 cut(s) 638, 686
MflI RGATCY 1 cut(s) 906
MhlI GDGCHC 3 cut(s) 429, 447, 1003
MlsI TGGCCA 1 cut(s) 414
MluCI AATT 8 cut(s) 55, 520, 638, 686, 818, 861, 983, 1142
MluNI TGGCCA 1 cut(s) 414
MlyI GAGTC 2 cut(s) 544, 647
Mox20I TGGCCA 1 cut(s) 414
MroI TCCGGA 1 cut(s) 942
MroXI GAANNNNTTC 2 cut(s) 276, 350
MscI TGGCCA 1 cut(s) 414
MslI CAYNNNNRTG 1 cut(s) 545
Msp20I TGGCCA 1 cut(s) 414
MspA1I CMGCKG 1 cut(s) 617
MspI CCGG 6 cut(s) 77, 98, 104, 893, 943, 962
MspR9I CCNGG 4 cut(s) 78, 560, 606, 904
MunI CAATTG 2 cut(s) 638, 686
MvaI CCWGG 3 cut(s) 560, 606, 904
MvnI CGCG 1 cut(s) 617
MwoI GCNNNNNNNGC 4 cut(s) 288, 451, 735, 937
NciI CCSGG 1 cut(s) 78
NdeI CATATG 1 cut(s) 681
NdeII GATC 5 cut(s) 190, 313, 718, 906, 952
NlaIII CATG 3 cut(s) 295, 926, 1138
NlaIV GGNNCC 5 cut(s) 102, 825, 841, 908, 1014
NmeAIII GCCGAG 1 cut(s) 772
NmuCI GTSAC 4 cut(s) 35, 245, 964, 1063
NspI RCATGY 1 cut(s) 295
PaeI GCATGC 1 cut(s) 295
PaqCI CACCTGC 1 cut(s) 592
PdmI GAANNNNTTC 2 cut(s) 276, 350
PfeI GAWTC 1 cut(s) 175
PflFI GACNNNGTC 1 cut(s) 758
PkrI GCNGC 3 cut(s) 856, 885, 933
PleI GAGTC 2 cut(s) 544, 647
PmaCI CACGTG 1 cut(s) 1113
PmlI CACGTG 1 cut(s) 1113
PpsI GAGTC 2 cut(s) 544, 647
Ppu21I YACGTR 1 cut(s) 1113
PshAI GACNNNNGTC 1 cut(s) 962
Psp6I CCWGG 3 cut(s) 558, 604, 902
PspCI CACGTG 1 cut(s) 1113
PspEI GGTNACC 1 cut(s) 964
PspGI CCWGG 3 cut(s) 558, 604, 902
PspN4I GGNNCC 5 cut(s) 102, 825, 841, 908, 1014
PspPI GGNCC 2 cut(s) 691, 839
PstNI CAGNNNCTG 1 cut(s) 1067
PsuI RGATCY 1 cut(s) 906
PsyI GACNNNGTC 1 cut(s) 758
RsaI GTAC 3 cut(s) 370, 436, 518
RsaNI GTAC 3 cut(s) 369, 435, 517
RseI CAYNNNNRTG 1 cut(s) 545
SacII CCGCGG 1 cut(s) 618
SalI GTCGAC 1 cut(s) 119
SatI GCNGC 3 cut(s) 855, 884, 932
Sau3AI GATC 5 cut(s) 190, 313, 718, 906, 952
Sau96I GGNCC 2 cut(s) 691, 839
SchI GAGTC 2 cut(s) 544, 647
ScrFI CCNGG 4 cut(s) 78, 560, 606, 904
SduI GDGCHC 3 cut(s) 429, 447, 1003
SfaNI GCATC 1 cut(s) 632
SfcI CTRYAG 1 cut(s) 129
Sfr303I CCGCGG 1 cut(s) 618
SgrBI CCGCGG 1 cut(s) 618
SinI GGWCC 1 cut(s) 839
SmiMI CAYNNNNRTG 1 cut(s) 545
SmlI CTYRAG 1 cut(s) 935
SmoI CTYRAG 1 cut(s) 935
SphI GCATGC 1 cut(s) 295
Sse9I AATT 8 cut(s) 55, 520, 638, 686, 818, 861, 983, 1142
SsiI CCGC 4 cut(s) 454, 615, 617, 829
SspMI CTAG 4 cut(s) 30, 179, 243, 1076
StyD4I CCNGG 4 cut(s) 76, 558, 604, 902
StyI CCWWGG 1 cut(s) 438
TaaI ACNGT 2 cut(s) 67, 998
TaiI ACGT 1 cut(s) 1115
TaqI TCGA 6 cut(s) 120, 141, 173, 193, 611, 700
TasI AATT 8 cut(s) 55, 520, 638, 686, 818, 861, 983, 1142
TfiI GAWTC 1 cut(s) 175
TscAI CASTG 5 cut(s) 316, 506, 633, 736, 1072
TseFI GTSAC 4 cut(s) 35, 245, 964, 1063
TseI GCWGC 3 cut(s) 854, 883, 931
Tsp45I GTSAC 4 cut(s) 35, 245, 964, 1063
TspDTI ATGAA 4 cut(s) 127, 205, 451, 719
TspGWI ACGGA 1 cut(s) 434
TspRI CASTG 5 cut(s) 316, 506, 633, 736, 1072
Tth111I GACNNNGTC 1 cut(s) 758
VpaK11BI GGWCC 1 cut(s) 839
XapI RAATTY 1 cut(s) 1142
XceI RCATGY 1 cut(s) 295
XcmI CCANNNNNNNNNTGG 1 cut(s) 566
XmiI GTMKAC 1 cut(s) 120
XmnI GAANNNNTTC 2 cut(s) 276, 350
XspI CTAG 4 cut(s) 30, 179, 243, 1076
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.