FvH4_3g24080

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Forward (+)
17115290 .. 17116515
1226 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g24080.t2

Sequence Viewer

Length: 246 bp
ATGATGCAAAGAATTGTGATTGAGGTGGAGATGAGAAGCCGAAAACGTCGTGCCAAGGCCATGAAGATAGCTGCTGTCGCTGACGGTGTTAATTCAGTGGCATTCAATAAGGAAAATAGAGATCAAATTGTGGTGATTGGAGATGGAGTCGATCCAGTTGGCTTGGCTCTCTCTTTGAGGAAGAAGGTTGGCCATGCTGACTTGGTGAATGTGGAAGAACTAGTGGAACAAGCGGAAGATGTATAA
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

82

Amino Acids

8.93

Weight (kDa)

6.57

Isoelectric Point (pI)

38.2

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)
AciI CCGC 1 cut(s) 233
AclWI GGATC 1 cut(s) 146
AcoI YGGCCR 1 cut(s) 190
AgsI TTSAA 1 cut(s) 106
AhlI ACTAGT 1 cut(s) 220
AluBI AGCT 1 cut(s) 71
AluI AGCT 1 cut(s) 71
AlwI GGATC 1 cut(s) 146
AoxI GGCC 2 cut(s) 57, 190
ApeKI GCWGC 1 cut(s) 71
AsuHPI GGTGA 2 cut(s) 145, 217
BalI TGGCCA 1 cut(s) 192
BbvI GCAGC 1 cut(s) 58
BccI CCATC 1 cut(s) 137
BcuI ACTAGT 1 cut(s) 220
BfaI CTAG 1 cut(s) 221
BisI GCNGC 1 cut(s) 72
BlsI GCNGC 1 cut(s) 73
BsaJI CCNNGG 1 cut(s) 54
BsaXI ACNNNNNCTCC 2 cut(s) 132, 162
Bse1I ACTGG 1 cut(s) 155
BseDI CCNNGG 1 cut(s) 54
BseNI ACTGG 1 cut(s) 155
BseXI GCAGC 1 cut(s) 58
BshFI GGCC 2 cut(s) 59, 192
BsmI GAATGC 1 cut(s) 101
BsnI GGCC 2 cut(s) 59, 192
Bsp143I GATC 2 cut(s) 121, 151
BspACI CCGC 1 cut(s) 233
BspANI GGCC 2 cut(s) 59, 192
BspPI GGATC 1 cut(s) 146
BsrI ACTGG 1 cut(s) 155
BssECI CCNNGG 1 cut(s) 54
BssMI GATC 2 cut(s) 121, 151
BssT1I CCWWGG 1 cut(s) 54
Bst4CI ACNGT 1 cut(s) 86
BstKTI GATC 2 cut(s) 124, 154
BstMBI GATC 2 cut(s) 121, 151
BstMWI GCNNNNNNNGC 1 cut(s) 77
BstV1I GCAGC 1 cut(s) 58
BsuRI GGCC 2 cut(s) 59, 192
BtsIMutI CAGTG 1 cut(s) 102
CviAII CATG 2 cut(s) 61, 194
CviJI RGCY 6 cut(s) 39, 59, 71, 162, 167, 192
CviKI_1 RGCY 6 cut(s) 39, 59, 71, 162, 167, 192
DpnI GATC 2 cut(s) 123, 153
DpnII GATC 2 cut(s) 121, 151
EaeI YGGCCR 1 cut(s) 190
Eco130I CCWWGG 1 cut(s) 54
EcoT14I CCWWGG 1 cut(s) 54
ErhI CCWWGG 1 cut(s) 54
FaeI CATG 2 cut(s) 64, 197
FaiI YATR 3 cut(s) 62, 195, 244
FatI CATG 2 cut(s) 60, 193
Fnu4HI GCNGC 1 cut(s) 72
Fsp4HI GCNGC 1 cut(s) 72
FspBI CTAG 1 cut(s) 221
GluI GCNGC 1 cut(s) 72
HaeIII GGCC 2 cut(s) 59, 192
Hin1II CATG 2 cut(s) 64, 197
HinfI GANTC 1 cut(s) 147
HphI GGTGA 2 cut(s) 145, 217
Hpy99I CGWCG 1 cut(s) 51
HpyAV CCTTC 1 cut(s) 178
HpyCH4III ACNGT 1 cut(s) 86
HpyCH4IV ACGT 1 cut(s) 46
HpyCH4V TGCA 1 cut(s) 7
HpyF10VI GCNNNNNNNGC 1 cut(s) 77
HpySE526I ACGT 1 cut(s) 46
Hsp92II CATG 2 cut(s) 64, 197
Kzo9I GATC 2 cut(s) 121, 151
LpnPI CCDG 1 cut(s) 168
Lsp1109I GCAGC 1 cut(s) 58
MaeI CTAG 1 cut(s) 221
MaeII ACGT 1 cut(s) 46
MalI GATC 2 cut(s) 123, 153
MboI GATC 2 cut(s) 121, 151
MboII GAAGA 3 cut(s) 76, 193, 227
MlsI TGGCCA 1 cut(s) 192
MluCI AATT 3 cut(s) 12, 91, 126
MluNI TGGCCA 1 cut(s) 192
MlyI GAGTC 1 cut(s) 156
MnlI CCTC 2 cut(s) 16, 171
Mox20I TGGCCA 1 cut(s) 192
MscI TGGCCA 1 cut(s) 192
MseI TTAA 1 cut(s) 90
Msp20I TGGCCA 1 cut(s) 192
Mva1269I GAATGC 1 cut(s) 101
MwoI GCNNNNNNNGC 1 cut(s) 77
NdeII GATC 2 cut(s) 121, 151
NlaIII CATG 2 cut(s) 64, 197
PctI GAATGC 1 cut(s) 101
PkrI GCNGC 1 cut(s) 73
PleI GAGTC 1 cut(s) 155
PpsI GAGTC 1 cut(s) 155
SaqAI TTAA 1 cut(s) 90
SatI GCNGC 1 cut(s) 72
Sau3AI GATC 2 cut(s) 121, 151
SchI GAGTC 1 cut(s) 156
SetI ASST 4 cut(s) 27, 49, 73, 189
SgeI CNNG 9 cut(s) 62, 67, 73, 167, 175, 206, 214, 233, 242
SpeI ACTAGT 1 cut(s) 220
Sse9I AATT 3 cut(s) 12, 91, 126
SsiI CCGC 1 cut(s) 233
SspMI CTAG 1 cut(s) 221
StyI CCWWGG 1 cut(s) 54
TaaI ACNGT 1 cut(s) 86
TaiI ACGT 1 cut(s) 49
TaqI TCGA 1 cut(s) 150
TasI AATT 3 cut(s) 12, 91, 126
Tru1I TTAA 1 cut(s) 90
Tru9I TTAA 1 cut(s) 90
TscAI CASTG 1 cut(s) 102
TseI GCWGC 1 cut(s) 71
TspDTI ATGAA 1 cut(s) 77
TspRI CASTG 1 cut(s) 102
XspI CTAG 1 cut(s) 221
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.