FvH4_3g42080

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Reverse (-)
35182202 .. 35183151
950 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g42080.t1

Sequence Viewer

Length: 423 bp
ATGAGTACTATTGTCCAAAAATCTTGGATAATTTCCAAGCAACTGGCATTACAGAAGAAAATCTTGTCTCAGATCGACACTAGTCGCCATCCCCAAAAGGACGTCAAGTCAAGCCAACTGGGAATATTATTCACAGGGCGCTTGAGTTCTAGCTTCCATTTCATATACTGTATCTCCAAGATGAAGCAAAAGATACTAGTGAAGTTGCACGTTCATTGCGCCAAATGCCGAACCAAGGCTTTGAAGATTGCGGCCACTGCACCTGTGACCAAAGTGTCAATACAAGGTGAAGACAGAGATCATCTGGAGGAGATTGGGGATGGAGTTGACTCGGTTTGCTTGACTAGGGCTATGAGGAAGAAGATTGGATCTGCCGATATTGTCAAGGTCGAACAAATAGGAGGATCATCCACAGATAACTAA
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

141

Amino Acids

15.48

Weight (kDa)

9.76

Isoelectric Point (pI)

36.63

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)
AasI GACNNNNNNGTC 1 cut(s) 274
AatII GACGTC 1 cut(s) 105
AciI CCGC 1 cut(s) 251
AclWI GGATC 2 cut(s) 376, 412
AcoI YGGCCR 1 cut(s) 252
AcyI GRCGYC 1 cut(s) 102
AfaI GTAC 1 cut(s) 7
AfiI CCNNNNNNNGG 1 cut(s) 235
AgsI TTSAA 1 cut(s) 244
AhdI GACNNNNNGTC 1 cut(s) 106
AhlI ACTAGT 2 cut(s) 80, 196
AluBI AGCT 1 cut(s) 153
AluI AGCT 1 cut(s) 153
Alw26I GTCTC 1 cut(s) 72
AlwI GGATC 2 cut(s) 376, 412
AoxI GGCC 1 cut(s) 252
AspLEI GCGC 2 cut(s) 141, 221
AsuHPI GGTGA 1 cut(s) 299
BbsI GAAGAC 1 cut(s) 297
BccI CCATC 2 cut(s) 96, 314
BcoDI GTCTC 1 cut(s) 72
BcuI ACTAGT 2 cut(s) 80, 196
BfaI CTAG 4 cut(s) 81, 150, 197, 345
BfoI RGCGCY 1 cut(s) 142
BisI GCNGC 1 cut(s) 252
BlsI GCNGC 1 cut(s) 253
BmcAI AGTACT 1 cut(s) 7
BmeRI GACNNNNNGTC 1 cut(s) 106
BmrI ACTGGG 1 cut(s) 128
BmuI ACTGGG 1 cut(s) 128
BoxI GACNNNNGTC 1 cut(s) 81
BpiI GAAGAC 1 cut(s) 297
BpmI CTGGAG 1 cut(s) 326
BpuEI CTTGAG 1 cut(s) 163
BsaHI GRCGYC 1 cut(s) 102
BsaJI CCNNGG 1 cut(s) 234
BsaXI ACNNNNNCTCC 2 cut(s) 158, 188
Bsc4I CCNNNNNNNGG 1 cut(s) 235
Bse1I ACTGG 2 cut(s) 48, 123
Bse3DI GCAATG 1 cut(s) 214
BseDI CCNNGG 1 cut(s) 234
BseGI GGATG 3 cut(s) 88, 325, 407
BseLI CCNNNNNNNGG 1 cut(s) 235
BseMI GCAATG 1 cut(s) 214
BseMII CTCAG 1 cut(s) 83
BseNI ACTGG 2 cut(s) 48, 123
BseRI GAGGAG 1 cut(s) 323
BsgI GTGCAG 1 cut(s) 243
BshFI GGCC 1 cut(s) 254
BslI CCNNNNNNNGG 1 cut(s) 235
BsmAI GTCTC 1 cut(s) 72
BsnI GGCC 1 cut(s) 254
Bsp143I GATC 4 cut(s) 72, 298, 368, 404
BspACI CCGC 1 cut(s) 251
BspANI GGCC 1 cut(s) 254
BspCNI CTCAG 1 cut(s) 82
BspPI GGATC 2 cut(s) 376, 412
BsrDI GCAATG 1 cut(s) 214
BsrI ACTGG 2 cut(s) 48, 123
BssECI CCNNGG 1 cut(s) 234
BssMI GATC 4 cut(s) 72, 298, 368, 404
BssNI GRCGYC 1 cut(s) 102
BssT1I CCWWGG 1 cut(s) 234
Bst4CI ACNGT 1 cut(s) 170
BstACI GRCGYC 1 cut(s) 102
BstDEI CTNAG 1 cut(s) 69
BstF5I GGATG 3 cut(s) 88, 325, 407
BstH2I RGCGCY 1 cut(s) 142
BstHHI GCGC 2 cut(s) 141, 221
BstKTI GATC 4 cut(s) 75, 301, 371, 407
BstMAI GTCTC 1 cut(s) 72
BstMBI GATC 4 cut(s) 72, 298, 368, 404
BstMWI GCNNNNNNNGC 2 cut(s) 225, 257
BstPAI GACNNNNGTC 1 cut(s) 81
BstV2I GAAGAC 1 cut(s) 297
BstX2I RGATCY 1 cut(s) 368
BstXI CCANNNNNNTGG 1 cut(s) 43
BstYI RGATCY 1 cut(s) 368
BsuRI GGCC 1 cut(s) 254
BtsCI GGATG 3 cut(s) 88, 325, 407
BtsI GCAGTG 1 cut(s) 255
BtsIMutI CAGTG 1 cut(s) 255
CfoI GCGC 2 cut(s) 141, 221
Csp6I GTAC 1 cut(s) 6
CviJI RGCY 5 cut(s) 114, 153, 239, 254, 350
CviKI_1 RGCY 5 cut(s) 114, 153, 239, 254, 350
CviQI GTAC 1 cut(s) 6
DdeI CTNAG 1 cut(s) 69
DpnI GATC 4 cut(s) 74, 300, 370, 406
DpnII GATC 4 cut(s) 72, 298, 368, 404
DrdI GACNNNNNNGTC 1 cut(s) 274
DriI GACNNNNNGTC 1 cut(s) 106
DseDI GACNNNNNNGTC 1 cut(s) 274
EaeI YGGCCR 1 cut(s) 252
Eam1105I GACNNNNNGTC 1 cut(s) 106
Eco130I CCWWGG 1 cut(s) 234
EcoT14I CCWWGG 1 cut(s) 234
ErhI CCWWGG 1 cut(s) 234
FaiI YATR 3 cut(s) 164, 166, 353
FalI AAGNNNNNCTT 2 cut(s) 47, 79
Fnu4HI GCNGC 1 cut(s) 252
FokI GGATG 3 cut(s) 75, 332, 394
Fsp4HI GCNGC 1 cut(s) 252
FspBI CTAG 4 cut(s) 81, 150, 197, 345
GlaI GCGC 2 cut(s) 140, 220
GluI GCNGC 1 cut(s) 252
GsuI CTGGAG 1 cut(s) 326
HaeII RGCGCY 1 cut(s) 142
HaeIII GGCC 1 cut(s) 254
HhaI GCGC 2 cut(s) 141, 221
Hin1I GRCGYC 1 cut(s) 102
Hin6I GCGC 2 cut(s) 139, 219
HinP1I GCGC 2 cut(s) 139, 219
HincII GTYRAC 1 cut(s) 328
HindII GTYRAC 1 cut(s) 328
HinfI GANTC 1 cut(s) 329
HphI GGTGA 1 cut(s) 299
Hpy166II GTNNAC 1 cut(s) 328
Hpy188I TCNGA 1 cut(s) 72
Hpy188III TCNNGA 1 cut(s) 305
Hpy8I GTNNAC 1 cut(s) 328
HpyCH4III ACNGT 1 cut(s) 170
HpyCH4IV ACGT 2 cut(s) 102, 210
HpyCH4V TGCA 2 cut(s) 208, 260
HpyF10VI GCNNNNNNNGC 2 cut(s) 225, 257
HpyF3I CTNAG 1 cut(s) 69
HpySE526I ACGT 2 cut(s) 102, 210
Hsp92I GRCGYC 1 cut(s) 102
HspAI GCGC 2 cut(s) 139, 219
Kzo9I GATC 4 cut(s) 72, 298, 368, 404
LpnPI CCDG 5 cut(s) 29, 104, 120, 276, 290
MaeI CTAG 4 cut(s) 81, 150, 197, 345
MaeII ACGT 2 cut(s) 102, 210
MaeIII GTNAC 1 cut(s) 265
MalI GATC 4 cut(s) 74, 300, 370, 406
MboI GATC 4 cut(s) 72, 298, 368, 404
MboII GAAGA 5 cut(s) 67, 256, 302, 370, 373
MflI RGATCY 1 cut(s) 368
MluCI AATT 1 cut(s) 30
MlyI GAGTC 1 cut(s) 323
MnlI CCTC 3 cut(s) 301, 348, 395
MwoI GCNNNNNNNGC 2 cut(s) 225, 257
NdeII GATC 4 cut(s) 72, 298, 368, 404
NmuCI GTSAC 1 cut(s) 265
PkrI GCNGC 1 cut(s) 253
PleI GAGTC 1 cut(s) 323
PpsI GAGTC 1 cut(s) 323
PshAI GACNNNNGTC 1 cut(s) 81
PsuI RGATCY 1 cut(s) 368
RsaI GTAC 1 cut(s) 7
RsaNI GTAC 1 cut(s) 6
SatI GCNGC 1 cut(s) 252
Sau3AI GATC 4 cut(s) 72, 298, 368, 404
ScaI AGTACT 1 cut(s) 7
SchI GAGTC 1 cut(s) 323
SetI ASST 6 cut(s) 105, 155, 213, 265, 289, 390
SmlI CTYRAG 1 cut(s) 142
SmoI CTYRAG 1 cut(s) 142
SpeI ACTAGT 2 cut(s) 80, 196
Sse9I AATT 1 cut(s) 30
SsiI CCGC 1 cut(s) 251
SspI AATATT 1 cut(s) 126
SspMI CTAG 4 cut(s) 81, 150, 197, 345
StyI CCWWGG 1 cut(s) 234
TaaI ACNGT 1 cut(s) 170
TaiI ACGT 2 cut(s) 105, 213
TaqI TCGA 2 cut(s) 75, 390
TasI AATT 1 cut(s) 30
TatI WGTACW 1 cut(s) 5
TauI GCSGC 1 cut(s) 254
TscAI CASTG 1 cut(s) 262
TseFI GTSAC 1 cut(s) 265
Tsp45I GTSAC 1 cut(s) 265
TspDTI ATGAA 3 cut(s) 151, 197, 203
TspRI CASTG 1 cut(s) 262
XspI CTAG 4 cut(s) 81, 150, 197, 345
ZraI GACGTC 1 cut(s) 103
ZrmI AGTACT 1 cut(s) 7
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.