FvH4_3g42060

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000276
Physical Location & Seq
Reverse (-)
35172306 .. 35173277
972 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g42060.t1

Sequence Viewer

Length: 381 bp
ATGTTGAATTTAGGATCCTGGGATTTATTTTCTTGTTGTTCAGATTCTTCTGTACACTGTTCGGCCTCTTCCGTGAAGCAAAAGATAGTGATAAAGGTGCAATTTAGCTCTGAGAAACGCAAAACTGAGGCCTTCAAGGTTGCTGCTGGCTTTAGAGGTGTGAGCAACGTGTCTGTAGAAGCAGATAAAGACCAAGTGGTTGTGATCGGAGTCGGAATTGATTCGGTTTGCTTGGCAAAGTCGTTGAGGAAGAAGCTCAGCTACGCTGTAATAGTGAGTGTTGAAGAAGTGAAGAAGCCGGAAGAGAAGAAACCAGAAGTTCAAACCATTCCAATTCAATGGACATCAACATATGTTGAATATCCTGTTGCCTGCTGGTGA
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

127

Amino Acids

13.89

Weight (kDa)

8.59

Isoelectric Point (pI)

34.87

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)
AclWI GGATC 2 cut(s) 9, 22
AcsI RAATTY 1 cut(s) 7
AfaI GTAC 1 cut(s) 54
AflIII ACRYGT 1 cut(s) 168
AgsI TTSAA 6 cut(s) 7, 136, 284, 323, 338, 359
AjnI CCWGG 1 cut(s) 17
AluBI AGCT 3 cut(s) 108, 256, 261
AluI AGCT 3 cut(s) 108, 256, 261
AlwI GGATC 2 cut(s) 9, 22
AoxI GGCC 2 cut(s) 63, 129
ApeKI GCWGC 1 cut(s) 143
ApoI RAATTY 1 cut(s) 7
Asp700I GAANNNNTTC 1 cut(s) 220
BamHI GGATCC 1 cut(s) 14
BarI GAAGNNNNNNTAC 2 cut(s) 245, 277
BbvI GCAGC 1 cut(s) 130
BciT130I CCWGG 1 cut(s) 19
BfmI CTRYAG 1 cut(s) 174
BisI GCNGC 1 cut(s) 144
BlpI GCTNAGC 1 cut(s) 257
BlsI GCNGC 1 cut(s) 145
Bme1390I CCNGG 1 cut(s) 19
BmiI GGNNCC 1 cut(s) 16
BmrFI CCNGG 1 cut(s) 19
Bpu1102I GCTNAGC 1 cut(s) 257
BsaJI CCNNGG 1 cut(s) 18
BseBI CCWGG 1 cut(s) 19
BseDI CCNNGG 1 cut(s) 18
BseMII CTCAG 3 cut(s) 102, 117, 271
BseXI GCAGC 1 cut(s) 130
BshFI GGCC 2 cut(s) 65, 131
BsiSI CCGG 1 cut(s) 299
BsnI GGCC 2 cut(s) 65, 131
Bsp1407I TGTACA 1 cut(s) 52
Bsp143I GATC 2 cut(s) 14, 204
Bsp1720I GCTNAGC 1 cut(s) 257
BspANI GGCC 2 cut(s) 65, 131
BspCNI CTCAG 3 cut(s) 103, 118, 270
BspLI GGNNCC 1 cut(s) 16
BspPI GGATC 2 cut(s) 9, 22
BsrGI TGTACA 1 cut(s) 52
BssECI CCNNGG 1 cut(s) 18
BssMI GATC 2 cut(s) 14, 204
Bst2UI CCWGG 1 cut(s) 19
Bst4CI ACNGT 1 cut(s) 59
Bst6I CTCTTC 2 cut(s) 73, 297
BstAUI TGTACA 1 cut(s) 52
BstC8I GCNNGC 2 cut(s) 148, 373
BstDEI CTNAG 3 cut(s) 111, 126, 257
BstKTI GATC 2 cut(s) 17, 207
BstMBI GATC 2 cut(s) 14, 204
BstNI CCWGG 1 cut(s) 19
BstSCI CCNGG 1 cut(s) 17
BstSFI CTRYAG 1 cut(s) 174
BstV1I GCAGC 1 cut(s) 130
BstX2I RGATCY 1 cut(s) 14
BstXI CCANNNNNNTGG 1 cut(s) 339
BstYI RGATCY 1 cut(s) 14
BsuRI GGCC 2 cut(s) 65, 131
BtsIMutI CAGTG 1 cut(s) 55
Cac8I GCNNGC 2 cut(s) 148, 373
Csp6I GTAC 1 cut(s) 53
CviJI RGCY 7 cut(s) 65, 108, 131, 150, 256, 261, 298
CviKI_1 RGCY 7 cut(s) 65, 108, 131, 150, 256, 261, 298
CviQI GTAC 1 cut(s) 53
DdeI CTNAG 3 cut(s) 111, 126, 257
DpnI GATC 2 cut(s) 16, 206
DpnII GATC 2 cut(s) 14, 204
Eam1104I CTCTTC 2 cut(s) 73, 297
EarI CTCTTC 2 cut(s) 73, 297
Eco147I AGGCCT 1 cut(s) 131
EcoRII CCWGG 1 cut(s) 17
FaiI YATR 2 cut(s) 352, 354
FauNDI CATATG 1 cut(s) 352
Fnu4HI GCNGC 1 cut(s) 144
Fsp4HI GCNGC 1 cut(s) 144
GluI GCNGC 1 cut(s) 144
HaeIII GGCC 2 cut(s) 65, 131
HapII CCGG 1 cut(s) 299
HinfI GANTC 3 cut(s) 44, 210, 221
HpaII CCGG 1 cut(s) 299
Hpy166II GTNNAC 1 cut(s) 55
Hpy188I TCNGA 4 cut(s) 43, 112, 209, 215
Hpy8I GTNNAC 1 cut(s) 55
HpyAV CCTTC 1 cut(s) 142
HpyCH4III ACNGT 1 cut(s) 59
HpyCH4IV ACGT 1 cut(s) 168
HpyCH4V TGCA 1 cut(s) 100
HpyF3I CTNAG 3 cut(s) 111, 126, 257
HpySE526I ACGT 1 cut(s) 168
Kzo9I GATC 2 cut(s) 14, 204
LpnPI CCDG 6 cut(s) 4, 31, 132, 312, 327, 361
Lsp1109I GCAGC 1 cut(s) 130
MaeII ACGT 1 cut(s) 168
MalI GATC 2 cut(s) 16, 206
MboI GATC 2 cut(s) 14, 204
MboII GAAGA 7 cut(s) 39, 60, 262, 296, 304, 314, 319
MflI RGATCY 1 cut(s) 14
MluCI AATT 4 cut(s) 7, 101, 216, 333
MlyI GAGTC 1 cut(s) 219
MmeI TCCRAC 1 cut(s) 193
MnlI CCTC 4 cut(s) 76, 121, 149, 240
MroXI GAANNNNTTC 1 cut(s) 220
MspI CCGG 1 cut(s) 299
MspR9I CCNGG 1 cut(s) 19
MvaI CCWGG 1 cut(s) 19
NdeI CATATG 1 cut(s) 352
NdeII GATC 2 cut(s) 14, 204
NlaIV GGNNCC 1 cut(s) 16
PceI AGGCCT 1 cut(s) 131
PdmI GAANNNNTTC 1 cut(s) 220
PfeI GAWTC 2 cut(s) 44, 221
PkrI GCNGC 1 cut(s) 145
PleI GAGTC 1 cut(s) 218
PpsI GAGTC 1 cut(s) 218
Psp6I CCWGG 1 cut(s) 17
PspGI CCWGG 1 cut(s) 17
PspN4I GGNNCC 1 cut(s) 16
PsuI RGATCY 1 cut(s) 14
RsaI GTAC 1 cut(s) 54
RsaNI GTAC 1 cut(s) 53
SatI GCNGC 1 cut(s) 144
Sau3AI GATC 2 cut(s) 14, 204
SchI GAGTC 1 cut(s) 219
ScrFI CCNGG 1 cut(s) 19
SetI ASST 7 cut(s) 99, 110, 141, 160, 171, 258, 263
SfcI CTRYAG 1 cut(s) 174
Sse9I AATT 4 cut(s) 7, 101, 216, 333
SseBI AGGCCT 1 cut(s) 131
StuI AGGCCT 1 cut(s) 131
StyD4I CCNGG 1 cut(s) 17
TaaI ACNGT 1 cut(s) 59
TaiI ACGT 1 cut(s) 171
TasI AATT 4 cut(s) 7, 101, 216, 333
TatI WGTACW 1 cut(s) 52
TfiI GAWTC 2 cut(s) 44, 221
TscAI CASTG 1 cut(s) 62
TseI GCWGC 1 cut(s) 143
TspGWI ACGGA 1 cut(s) 61
TspRI CASTG 1 cut(s) 62
XapI RAATTY 1 cut(s) 7
XmnI GAANNNNTTC 1 cut(s) 220
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.