FvH4_5g32571

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0000146
Physical Location & Seq
Forward (+)
23509017 .. 23509439
423 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g32571.t1

Sequence Viewer

Length: 423 bp
ATGGGAGATCAAATCACCGGACCTGAAAACCCCTTTGCACTCATGCCTCCGGTCGTCAACCATTATCATACCACCACTCAAGACAACTCGGCCTTTCCGACCAGTGTTGCCTTGAATGAAACCAATTATTCAATATGGGCACCTCTTATGAAGATGAGGATTGGAGCACGCGGTAAAGTTGGTTACCTCACCGGAGCCAAAGTCGCACCAGATGAGAATTCGCCTGAATTTGAAACTTGGGCCACAGAGAATGAGAGAGTAAAAAGTTGGCTCATTGATTCCATGGAGTCATCACTTATCAATCGATATATCCGACTACCAACAGCCAAAGATGTTTGGGAAGCAGTTGAGAAGACATTTTATGATGATTCTGATGAGACCCGAATCTTTGAATTGAATAAGAAGTGTTGTGCAGCGAGATAG
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
Retrotran_gag_2

Protein Analysis

141

Amino Acids

15.88

Weight (kDa)

5.04

Isoelectric Point (pI)

36.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 32 - 71 3.2e-06 gag-polypeptide of LTR copia-type
Retrotran_gag_2 PF14223 50 - 130 2.5e-07 gag-polypeptide of LTR copia-type
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: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 139
AccII CGCG 1 cut(s) 171
AciI CCGC 1 cut(s) 171
AcsI RAATTY 2 cut(s) 217, 227
AgsI TTSAA 5 cut(s) 115, 132, 233, 392, 397
Alw21I GWGCWC 1 cut(s) 169
Alw26I GTCTC 1 cut(s) 371
AoxI GGCC 2 cut(s) 90, 240
ApeKI GCWGC 1 cut(s) 413
ApoI RAATTY 2 cut(s) 217, 227
AspS9I GGNCC 2 cut(s) 20, 240
AsuHPI GGTGA 2 cut(s) 7, 181
AvaII GGWCC 1 cut(s) 20
BaeGI GKGCMC 1 cut(s) 142
BanI GGYRCC 1 cut(s) 139
BbsI GAAGAC 1 cut(s) 359
Bbv12I GWGCWC 1 cut(s) 169
BcoDI GTCTC 1 cut(s) 371
BisI GCNGC 1 cut(s) 414
BlsI GCNGC 1 cut(s) 415
Bme18I GGWCC 1 cut(s) 20
BmgT120I GGNCC 2 cut(s) 20, 240
BmiI GGNNCC 2 cut(s) 141, 196
BpiI GAAGAC 1 cut(s) 359
BpuEI CTTGAG 1 cut(s) 63
Bsa29I ATCGAT 1 cut(s) 304
BsaI GGTCTC 1 cut(s) 371
BsaJI CCNNGG 1 cut(s) 282
BsaWI WCCGGW 3 cut(s) 17, 49, 191
BsaXI ACNNNNNCTCC 2 cut(s) 186, 216
Bse1I ACTGG 1 cut(s) 102
BseCI ATCGAT 1 cut(s) 304
BseDI CCNNGG 1 cut(s) 282
BseNI ACTGG 1 cut(s) 102
BseSI GKGCMC 1 cut(s) 142
Bsh1236I CGCG 1 cut(s) 171
Bsh1285I CGRYCG 1 cut(s) 54
BshFI GGCC 2 cut(s) 92, 242
BshNI GGYRCC 1 cut(s) 139
BshVI ATCGAT 1 cut(s) 304
BsiEI CGRYCG 1 cut(s) 54
BsiHKAI GWGCWC 1 cut(s) 169
BsiSI CCGG 3 cut(s) 18, 50, 192
BsmAI GTCTC 1 cut(s) 371
BsnI GGCC 2 cut(s) 92, 242
Bso31I GGTCTC 1 cut(s) 371
Bsp1286I GDGCHC 2 cut(s) 142, 169
Bsp143I GATC 1 cut(s) 7
Bsp19I CCATGG 1 cut(s) 282
BspACI CCGC 1 cut(s) 171
BspANI GGCC 2 cut(s) 92, 242
BspDI ATCGAT 1 cut(s) 304
BspFNI CGCG 1 cut(s) 171
BspLI GGNNCC 2 cut(s) 141, 196
BspT107I GGYRCC 1 cut(s) 139
BspTNI GGTCTC 1 cut(s) 371
BsrI ACTGG 1 cut(s) 102
BssECI CCNNGG 1 cut(s) 282
BssMI GATC 1 cut(s) 7
BssT1I CCWWGG 1 cut(s) 282
BstC8I GCNNGC 1 cut(s) 169
BstDSI CCRYGG 1 cut(s) 282
BstEII GGTNACC 1 cut(s) 182
BstFNI CGCG 1 cut(s) 171
BstKTI GATC 1 cut(s) 10
BstMAI GTCTC 1 cut(s) 371
BstMBI GATC 1 cut(s) 7
BstMCI CGRYCG 1 cut(s) 54
BstMWI GCNNNNNNNGC 1 cut(s) 203
BstPI GGTNACC 1 cut(s) 182
BstSLI GKGCMC 1 cut(s) 142
BstUI CGCG 1 cut(s) 171
BstV2I GAAGAC 1 cut(s) 359
Bsu15I ATCGAT 1 cut(s) 304
BsuRI GGCC 2 cut(s) 92, 242
BsuTUI ATCGAT 1 cut(s) 304
BtgI CCRYGG 1 cut(s) 282
BtsIMutI CAGTG 1 cut(s) 109
Cac8I GCNNGC 1 cut(s) 169
Cfr13I GGNCC 2 cut(s) 20, 240
ClaI ATCGAT 1 cut(s) 304
CviAII CATG 2 cut(s) 43, 283
CviJI RGCY 5 cut(s) 92, 197, 242, 271, 326
CviKI_1 RGCY 5 cut(s) 92, 197, 242, 271, 326
DpnI GATC 1 cut(s) 9
DpnII GATC 1 cut(s) 7
Eco130I CCWWGG 1 cut(s) 282
Eco31I GGTCTC 1 cut(s) 371
Eco47I GGWCC 1 cut(s) 20
Eco91I GGTNACC 1 cut(s) 182
EcoO65I GGTNACC 1 cut(s) 182
EcoRI GAATTC 1 cut(s) 217
EcoT14I CCWWGG 1 cut(s) 282
ErhI CCWWGG 1 cut(s) 282
FaeI CATG 2 cut(s) 46, 286
FaiI YATR 7 cut(s) 44, 69, 136, 149, 284, 309, 363
FatI CATG 2 cut(s) 42, 282
Fnu4HI GCNGC 1 cut(s) 414
Fsp4HI GCNGC 1 cut(s) 414
GluI GCNGC 1 cut(s) 414
HaeIII GGCC 2 cut(s) 92, 242
HapII CCGG 3 cut(s) 18, 50, 192
Hin1II CATG 2 cut(s) 46, 286
HincII GTYRAC 1 cut(s) 58
HindII GTYRAC 1 cut(s) 58
HinfI GANTC 4 cut(s) 278, 287, 368, 384
HpaII CCGG 3 cut(s) 18, 50, 192
HphI GGTGA 2 cut(s) 7, 181
Hpy166II GTNNAC 1 cut(s) 58
Hpy188I TCNGA 3 cut(s) 99, 314, 373
Hpy188III TCNNGA 1 cut(s) 80
Hpy8I GTNNAC 1 cut(s) 58
HpyCH4V TGCA 2 cut(s) 38, 413
HpyF10VI GCNNNNNNNGC 1 cut(s) 203
Hsp92II CATG 2 cut(s) 46, 286
Kzo9I GATC 1 cut(s) 7
LmnI GCTCC 2 cut(s) 164, 194
LpnPI CCDG 7 cut(s) 31, 36, 63, 115, 205, 222, 237
MaeIII GTNAC 1 cut(s) 182
MalI GATC 1 cut(s) 9
MboI GATC 1 cut(s) 7
MboII GAAGA 2 cut(s) 163, 364
MhlI GDGCHC 2 cut(s) 142, 169
MluCI AATT 4 cut(s) 124, 217, 227, 392
MlyI GAGTC 1 cut(s) 296
MmeI TCCRAC 2 cut(s) 122, 337
MnlI CCTC 4 cut(s) 57, 150, 153, 197
MspI CCGG 3 cut(s) 18, 50, 192
MvnI CGCG 1 cut(s) 171
MwoI GCNNNNNNNGC 1 cut(s) 203
NcoI CCATGG 1 cut(s) 282
NdeII GATC 1 cut(s) 7
NlaIII CATG 2 cut(s) 46, 286
NlaIV GGNNCC 2 cut(s) 141, 196
NmeAIII GCCGAG 1 cut(s) 68
PcsI WCGNNNNNNNCGW 2 cut(s) 95, 310
PfeI GAWTC 3 cut(s) 278, 368, 384
PkrI GCNGC 1 cut(s) 415
PleI GAGTC 1 cut(s) 295
PpsI GAGTC 1 cut(s) 295
PspEI GGTNACC 1 cut(s) 182
PspN4I GGNNCC 2 cut(s) 141, 196
PspPI GGNCC 2 cut(s) 20, 240
SatI GCNGC 1 cut(s) 414
Sau3AI GATC 1 cut(s) 7
Sau96I GGNCC 2 cut(s) 20, 240
SchI GAGTC 1 cut(s) 296
SduI GDGCHC 2 cut(s) 142, 169
SetI ASST 3 cut(s) 25, 145, 189
SinI GGWCC 1 cut(s) 20
SmlI CTYRAG 1 cut(s) 78
SmoI CTYRAG 1 cut(s) 78
Sse9I AATT 4 cut(s) 124, 217, 227, 392
SsiI CCGC 1 cut(s) 171
StyI CCWWGG 1 cut(s) 282
TaqI TCGA 1 cut(s) 304
TasI AATT 4 cut(s) 124, 217, 227, 392
TfiI GAWTC 3 cut(s) 278, 368, 384
TscAI CASTG 1 cut(s) 109
TseI GCWGC 1 cut(s) 413
TspDTI ATGAA 2 cut(s) 132, 164
TspRI CASTG 1 cut(s) 109
VpaK11BI GGWCC 1 cut(s) 20
XapI RAATTY 2 cut(s) 217, 227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.