FvH4_3g42090

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Reverse (-)
35184189 .. 35184881
693 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g42090.t1

Sequence Viewer

Length: 276 bp
ATGGAGGTGCGGTTTAGCTCTGAGAAACGCAAAACCCTTCAAGGTGTGAGCAACGTGTCTGTAGAAGCAGATAAAGATCAAATCGTTGTGATCGGAGTCGGAATCGATTCGGTTTGCTTGGCCAAGTCGTTAAGGAAGAAGCTCAAATACGCTGTTATAGTAAGTGTTGAAGAAGTGAAGCCCAAAGAAGAAGAGAAGAAACCAGAAGTTGAAACCATTCCGATTCAATGGACACCGGTACCAAGATATTTTGAATATCCTGTTGTCTGTTGGTGA
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

92

Amino Acids

10.41

Weight (kDa)

7.71

Isoelectric Point (pI)

40.14

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)
Acc65I GGTACC 1 cut(s) 238
AccB1I GGYRCC 1 cut(s) 238
AciI CCGC 1 cut(s) 10
AcoI YGGCCR 1 cut(s) 120
AfaI GTAC 1 cut(s) 240
AflIII ACRYGT 1 cut(s) 54
AgeI ACCGGT 1 cut(s) 235
AgsI TTSAA 5 cut(s) 41, 170, 212, 227, 254
AluBI AGCT 2 cut(s) 18, 142
AluI AGCT 2 cut(s) 18, 142
AoxI GGCC 1 cut(s) 120
AsiGI ACCGGT 1 cut(s) 235
Asp700I GAANNNNTTC 2 cut(s) 106, 216
Asp718I GGTACC 1 cut(s) 238
BaeI ACNNNNGTAYC 2 cut(s) 222, 255
BalI TGGCCA 1 cut(s) 122
BanI GGYRCC 1 cut(s) 238
BarI GAAGNNNNNNTAC 2 cut(s) 131, 163
BfmI CTRYAG 1 cut(s) 60
BmiI GGNNCC 1 cut(s) 240
Bsa29I ATCGAT 1 cut(s) 105
BsaBI GATNNNNATC 1 cut(s) 75
BsaWI WCCGGW 1 cut(s) 235
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bse118I RCCGGY 1 cut(s) 235
Bse8I GATNNNNATC 1 cut(s) 75
BseCI ATCGAT 1 cut(s) 105
BseJI GATNNNNATC 1 cut(s) 75
BseMII CTCAG 1 cut(s) 12
BshFI GGCC 1 cut(s) 122
BshNI GGYRCC 1 cut(s) 238
BshTI ACCGGT 1 cut(s) 235
BshVI ATCGAT 1 cut(s) 105
BsiSI CCGG 1 cut(s) 236
BsnI GGCC 1 cut(s) 122
Bsp143I GATC 2 cut(s) 76, 90
BspACI CCGC 1 cut(s) 10
BspANI GGCC 1 cut(s) 122
BspCNI CTCAG 1 cut(s) 13
BspDI ATCGAT 1 cut(s) 105
BspLI GGNNCC 1 cut(s) 240
BspT107I GGYRCC 1 cut(s) 238
BsrFI RCCGGY 1 cut(s) 235
BssAI RCCGGY 1 cut(s) 235
BssMI GATC 2 cut(s) 76, 90
Bst6I CTCTTC 1 cut(s) 186
BstDEI CTNAG 1 cut(s) 21
BstKTI GATC 2 cut(s) 79, 93
BstMBI GATC 2 cut(s) 76, 90
BstSFI CTRYAG 1 cut(s) 60
Bsu15I ATCGAT 1 cut(s) 105
BsuRI GGCC 1 cut(s) 122
BsuTUI ATCGAT 1 cut(s) 105
Cfr10I RCCGGY 1 cut(s) 235
ClaI ATCGAT 1 cut(s) 105
Csp6I GTAC 1 cut(s) 239
CspAI ACCGGT 1 cut(s) 235
CviJI RGCY 4 cut(s) 18, 122, 142, 181
CviKI_1 RGCY 4 cut(s) 18, 122, 142, 181
CviQI GTAC 1 cut(s) 239
DdeI CTNAG 1 cut(s) 21
DpnI GATC 2 cut(s) 78, 92
DpnII GATC 2 cut(s) 76, 90
EaeI YGGCCR 1 cut(s) 120
Eam1104I CTCTTC 1 cut(s) 186
EarI CTCTTC 1 cut(s) 186
FaiI YATR 1 cut(s) 158
HaeIII GGCC 1 cut(s) 122
HapII CCGG 1 cut(s) 236
HinfI GANTC 4 cut(s) 96, 102, 107, 223
HpaII CCGG 1 cut(s) 236
Hpy188I TCNGA 4 cut(s) 22, 95, 101, 222
HpyAV CCTTC 1 cut(s) 47
HpyCH4IV ACGT 1 cut(s) 54
HpyF3I CTNAG 1 cut(s) 21
HpySE526I ACGT 1 cut(s) 54
KpnI GGTACC 1 cut(s) 242
Kzo9I GATC 2 cut(s) 76, 90
LpnPI CCDG 2 cut(s) 216, 249
MaeII ACGT 1 cut(s) 54
MalI GATC 2 cut(s) 78, 92
MboI GATC 2 cut(s) 76, 90
MboII GAAGA 5 cut(s) 148, 182, 200, 203, 208
MlsI TGGCCA 1 cut(s) 122
MluNI TGGCCA 1 cut(s) 122
MlyI GAGTC 1 cut(s) 105
MmeI TCCRAC 1 cut(s) 79
Mox20I TGGCCA 1 cut(s) 122
MroXI GAANNNNTTC 2 cut(s) 106, 216
MscI TGGCCA 1 cut(s) 122
MseI TTAA 1 cut(s) 131
Msp20I TGGCCA 1 cut(s) 122
MspI CCGG 1 cut(s) 236
NdeII GATC 2 cut(s) 76, 90
NlaIV GGNNCC 1 cut(s) 240
PdmI GAANNNNTTC 2 cut(s) 106, 216
PfeI GAWTC 3 cut(s) 102, 107, 223
PinAI ACCGGT 1 cut(s) 235
PleI GAGTC 1 cut(s) 104
PpsI GAGTC 1 cut(s) 104
PspN4I GGNNCC 1 cut(s) 240
RsaI GTAC 1 cut(s) 240
RsaNI GTAC 1 cut(s) 239
SaqAI TTAA 1 cut(s) 131
Sau3AI GATC 2 cut(s) 76, 90
SchI GAGTC 1 cut(s) 105
SetI ASST 5 cut(s) 9, 20, 46, 57, 144
SfcI CTRYAG 1 cut(s) 60
SgeI CNNG 8 cut(s) 53, 67, 130, 136, 215, 248, 255, 272
SsiI CCGC 1 cut(s) 10
TaiI ACGT 1 cut(s) 57
TaqI TCGA 1 cut(s) 105
TfiI GAWTC 3 cut(s) 102, 107, 223
Tru1I TTAA 1 cut(s) 131
Tru9I TTAA 1 cut(s) 131
XmnI GAANNNNTTC 2 cut(s) 106, 216
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.