FvH4_3g42050

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Reverse (-)
35166991 .. 35168603
1613 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g42050.t1

Sequence Viewer

Length: 324 bp
ATGAAGCAAAAGATTGTGATGAAGGTGCAATTTAGCTGCCAGAAACGCAGAACTGATGCCCTCAAGATTGCTGCCGGAACTACAGGTGTGAGCAATGTGTCTATAGAAGCAGATAAAGACCAAATTGTGGTGATCGGAGACGGAGTTGATTCGGTTTGTTTGGTCAAGTCGTTGAGGAAGAAGCTCCGGTACGTTGAAATAGTGAGTGTTGAAGAGGTGAAAAAGGCAGAAGAAAAGAAGCCAGAAGTTCAGAGAATTCCATTTCAATGTGCATCAAGCTATGTTCACTATCCCATGCCCTATGATCTTGTCTACCGTTGGTAA
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
HMA

Protein Analysis

108

Amino Acids

12.22

Weight (kDa)

9.3

Isoelectric Point (pI)

46.67

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
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Orthologous Genes (Group: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 127
AccI GTMKAC 1 cut(s) 312
AcsI RAATTY 1 cut(s) 255
AfaI GTAC 1 cut(s) 191
AfiI CCNNNNNNNGG 1 cut(s) 127
AgsI TTSAA 3 cut(s) 197, 212, 266
AluBI AGCT 3 cut(s) 36, 184, 279
AluI AGCT 3 cut(s) 36, 184, 279
Alw26I GTCTC 1 cut(s) 132
ApeKI GCWGC 2 cut(s) 36, 71
ApoI RAATTY 1 cut(s) 255
AsuHPI GGTGA 2 cut(s) 142, 229
BarI GAAGNNNNNNTAC 2 cut(s) 173, 205
BbvI GCAGC 2 cut(s) 23, 58
BcoDI GTCTC 1 cut(s) 132
BfmI CTRYAG 2 cut(s) 81, 102
BisI GCNGC 2 cut(s) 37, 72
BlsI GCNGC 2 cut(s) 38, 73
BmsI GCATC 2 cut(s) 46, 281
BpuEI CTTGAG 1 cut(s) 47
BsaWI WCCGGW 1 cut(s) 186
BsaXI ACNNNNNCTCC 2 cut(s) 129, 159
Bsc4I CCNNNNNNNGG 1 cut(s) 127
Bse3DI GCAATG 1 cut(s) 100
BseLI CCNNNNNNNGG 1 cut(s) 127
BseMI GCAATG 1 cut(s) 100
BseXI GCAGC 2 cut(s) 23, 58
BsiSI CCGG 2 cut(s) 75, 187
BslI CCNNNNNNNGG 1 cut(s) 127
BsmAI GTCTC 1 cut(s) 132
BsmBI CGTCTC 1 cut(s) 132
Bsp143I GATC 2 cut(s) 132, 304
BsrDI GCAATG 1 cut(s) 100
BssMI GATC 2 cut(s) 132, 304
Bst4CI ACNGT 1 cut(s) 317
Bst6I CTCTTC 1 cut(s) 207
BstKTI GATC 2 cut(s) 135, 307
BstMAI GTCTC 1 cut(s) 132
BstMBI GATC 2 cut(s) 132, 304
BstMWI GCNNNNNNNGC 1 cut(s) 45
BstSFI CTRYAG 2 cut(s) 81, 102
BstV1I GCAGC 2 cut(s) 23, 58
Csp6I GTAC 1 cut(s) 190
CviAII CATG 1 cut(s) 295
CviJI RGCY 4 cut(s) 36, 184, 241, 279
CviKI_1 RGCY 4 cut(s) 36, 184, 241, 279
CviQI GTAC 1 cut(s) 190
DpnI GATC 2 cut(s) 134, 306
DpnII GATC 2 cut(s) 132, 304
Eam1104I CTCTTC 1 cut(s) 207
EarI CTCTTC 1 cut(s) 207
EcoRI GAATTC 1 cut(s) 255
Esp3I CGTCTC 1 cut(s) 132
FaeI CATG 1 cut(s) 298
FaiI YATR 4 cut(s) 104, 282, 296, 303
FatI CATG 1 cut(s) 294
FblI GTMKAC 1 cut(s) 312
Fnu4HI GCNGC 2 cut(s) 37, 72
Fsp4HI GCNGC 2 cut(s) 37, 72
GluI GCNGC 2 cut(s) 37, 72
HapII CCGG 2 cut(s) 75, 187
Hin1II CATG 1 cut(s) 298
HinfI GANTC 1 cut(s) 149
HpaII CCGG 2 cut(s) 75, 187
HphI GGTGA 2 cut(s) 142, 229
Hpy166II GTNNAC 2 cut(s) 286, 313
Hpy188I TCNGA 2 cut(s) 137, 252
Hpy188III TCNNGA 1 cut(s) 64
Hpy8I GTNNAC 2 cut(s) 286, 313
HpyAV CCTTC 1 cut(s) 16
HpyCH4III ACNGT 1 cut(s) 317
HpyCH4IV ACGT 1 cut(s) 192
HpyCH4V TGCA 2 cut(s) 28, 272
HpyF10VI GCNNNNNNNGC 1 cut(s) 45
HpySE526I ACGT 1 cut(s) 192
Hsp92II CATG 1 cut(s) 298
Kzo9I GATC 2 cut(s) 132, 304
LmnI GCTCC 1 cut(s) 189
LpnPI CCDG 5 cut(s) 53, 69, 88, 200, 255
Lsp1109I GCAGC 2 cut(s) 23, 58
LweI GCATC 2 cut(s) 46, 281
MaeII ACGT 1 cut(s) 192
MalI GATC 2 cut(s) 134, 306
MboI GATC 2 cut(s) 132, 304
MboII GAAGA 3 cut(s) 190, 224, 242
MluCI AATT 3 cut(s) 29, 123, 255
MnlI CCTC 3 cut(s) 71, 168, 208
MslI CAYNNNNRTG 1 cut(s) 265
MspI CCGG 2 cut(s) 75, 187
MwoI GCNNNNNNNGC 1 cut(s) 45
NdeII GATC 2 cut(s) 132, 304
NlaIII CATG 1 cut(s) 298
PfeI GAWTC 1 cut(s) 149
PflMI CCANNNNNTGG 1 cut(s) 127
PkrI GCNGC 2 cut(s) 38, 73
RsaI GTAC 1 cut(s) 191
RsaNI GTAC 1 cut(s) 190
RseI CAYNNNNRTG 1 cut(s) 265
SatI GCNGC 2 cut(s) 37, 72
Sau3AI GATC 2 cut(s) 132, 304
SetI ASST 7 cut(s) 27, 38, 88, 186, 195, 219, 281
SfaNI GCATC 2 cut(s) 46, 281
SfcI CTRYAG 2 cut(s) 81, 102
SmiMI CAYNNNNRTG 1 cut(s) 265
SmlI CTYRAG 1 cut(s) 62
SmoI CTYRAG 1 cut(s) 62
Sse9I AATT 3 cut(s) 29, 123, 255
TaaI ACNGT 1 cut(s) 317
TaiI ACGT 1 cut(s) 195
TasI AATT 3 cut(s) 29, 123, 255
TfiI GAWTC 1 cut(s) 149
TseI GCWGC 2 cut(s) 36, 71
TspDTI ATGAA 2 cut(s) 17, 35
TspGWI ACGGA 1 cut(s) 156
Van91I CCANNNNNTGG 1 cut(s) 127
XapI RAATTY 1 cut(s) 255
XmiI GTMKAC 1 cut(s) 312
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.