FvH4_1g25961

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb1
OG0000146
Physical Location & Seq
Forward (+)
17875458 .. 17875892
435 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_1g25961.t1

Sequence Viewer

Length: 435 bp
ATGAGGATTGGAGCACGCGGTAAGGTTGGTTACCTCACTAGAGCCAAAGTCGCACCGGTTGAGAATTTGCCTGAATTTGAAACTTGGGCCACAGAGAATGAGAGAGTAAAAAGTTGGCTCATTGATTCCATGGAGCCATCACTCATCAATCGGTATATCCGACTACCAATAGCCAAAGATGTTTGGGAAGCAGTTGAGAAGACTTTTTATGATGATTCTGATGAGACCCGAATCTTTGAATTGAATAAGAAGTGCTTTGCAGCGAGACAGAATGGTCGGCCTCTTCCTACCTATTATAATGAATTGGTGGGAATGTTTCAGGAGATCGATCAACGTATTGCCTCTCAAAACAACACAATAGCTGAAGTTATTCAAGAAATGACTGCTATGGCGCGTATGCGAGTTCACATGTTCCTTAGTGGGCTCGATTCATAG
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

145

Amino Acids

16.72

Weight (kDa)

5.53

Isoelectric Point (pI)

32.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 25 - 105 9.4e-06 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AanI TTATAA 1 cut(s) 297
AasI GACNNNNNNGTC 1 cut(s) 273
AccII CGCG 2 cut(s) 18, 394
AciI CCGC 1 cut(s) 18
AcsI RAATTY 2 cut(s) 64, 74
AcuI CTGAAG 1 cut(s) 384
AflIII ACRYGT 1 cut(s) 408
AgeI ACCGGT 1 cut(s) 55
AgsI TTSAA 4 cut(s) 80, 239, 244, 374
AluBI AGCT 1 cut(s) 362
AluI AGCT 1 cut(s) 362
Alw21I GWGCWC 1 cut(s) 16
Alw26I GTCTC 2 cut(s) 218, 259
AoxI GGCC 2 cut(s) 87, 278
ApeKI GCWGC 1 cut(s) 260
ApoI RAATTY 2 cut(s) 64, 74
AsiGI ACCGGT 1 cut(s) 55
Asp700I GAANNNNTTC 1 cut(s) 369
AspLEI GCGC 1 cut(s) 394
AspS9I GGNCC 1 cut(s) 87
BanII GRGCYC 1 cut(s) 426
BbsI GAAGAC 1 cut(s) 206
Bbv12I GWGCWC 1 cut(s) 16
BbvI GCAGC 1 cut(s) 272
BccI CCATC 1 cut(s) 145
BcoDI GTCTC 2 cut(s) 218, 259
BfaI CTAG 1 cut(s) 39
BisI GCNGC 1 cut(s) 261
BlsI GCNGC 1 cut(s) 262
BmgT120I GGNCC 1 cut(s) 87
BmiI GGNNCC 1 cut(s) 135
BpiI GAAGAC 1 cut(s) 206
Bsa29I ATCGAT 1 cut(s) 327
BsaI GGTCTC 1 cut(s) 218
BsaJI CCNNGG 1 cut(s) 129
BsaWI WCCGGW 1 cut(s) 55
Bse118I RCCGGY 1 cut(s) 55
BseCI ATCGAT 1 cut(s) 327
BseDI CCNNGG 1 cut(s) 129
BseXI GCAGC 1 cut(s) 272
Bsh1236I CGCG 2 cut(s) 18, 394
BshFI GGCC 2 cut(s) 89, 280
BshTI ACCGGT 1 cut(s) 55
BshVI ATCGAT 1 cut(s) 327
BsiHKAI GWGCWC 1 cut(s) 16
BsiSI CCGG 1 cut(s) 56
BsmAI GTCTC 2 cut(s) 218, 259
BsnI GGCC 2 cut(s) 89, 280
Bso31I GGTCTC 1 cut(s) 218
Bsp1286I GDGCHC 2 cut(s) 16, 426
Bsp143I GATC 2 cut(s) 324, 328
Bsp19I CCATGG 1 cut(s) 129
BspACI CCGC 1 cut(s) 18
BspANI GGCC 2 cut(s) 89, 280
BspDI ATCGAT 1 cut(s) 327
BspFNI CGCG 2 cut(s) 18, 394
BspLI GGNNCC 1 cut(s) 135
BspTNI GGTCTC 1 cut(s) 218
BsrFI RCCGGY 1 cut(s) 55
BssAI RCCGGY 1 cut(s) 55
BssECI CCNNGG 1 cut(s) 129
BssMI GATC 2 cut(s) 324, 328
BssT1I CCWWGG 1 cut(s) 129
Bst6I CTCTTC 1 cut(s) 288
BstC8I GCNNGC 1 cut(s) 16
BstDEI CTNAG 1 cut(s) 416
BstDSI CCRYGG 1 cut(s) 129
BstEII GGTNACC 1 cut(s) 29
BstFNI CGCG 2 cut(s) 18, 394
BstHHI GCGC 1 cut(s) 394
BstKTI GATC 2 cut(s) 327, 331
BstMAI GTCTC 2 cut(s) 218, 259
BstMBI GATC 2 cut(s) 324, 328
BstMWI GCNNNNNNNGC 1 cut(s) 50
BstNSI RCATGY 1 cut(s) 412
BstPI GGTNACC 1 cut(s) 29
BstUI CGCG 2 cut(s) 18, 394
BstV1I GCAGC 1 cut(s) 272
BstV2I GAAGAC 1 cut(s) 206
Bsu15I ATCGAT 1 cut(s) 327
BsuRI GGCC 2 cut(s) 89, 280
BsuTUI ATCGAT 1 cut(s) 327
BtgI CCRYGG 1 cut(s) 129
Cac8I GCNNGC 1 cut(s) 16
CfoI GCGC 1 cut(s) 394
Cfr10I RCCGGY 1 cut(s) 55
Cfr13I GGNCC 1 cut(s) 87
ClaI ATCGAT 1 cut(s) 327
CspAI ACCGGT 1 cut(s) 55
CviAII CATG 2 cut(s) 130, 409
CviJI RGCY 8 cut(s) 44, 89, 118, 136, 173, 280, 362, 424
CviKI_1 RGCY 8 cut(s) 44, 89, 118, 136, 173, 280, 362, 424
DdeI CTNAG 1 cut(s) 416
DpnI GATC 2 cut(s) 326, 330
DpnII GATC 2 cut(s) 324, 328
DrdI GACNNNNNNGTC 1 cut(s) 273
DseDI GACNNNNNNGTC 1 cut(s) 273
Eam1104I CTCTTC 1 cut(s) 288
EarI CTCTTC 1 cut(s) 288
Eco130I CCWWGG 1 cut(s) 129
Eco24I GRGCYC 1 cut(s) 426
Eco31I GGTCTC 1 cut(s) 218
Eco57I CTGAAG 1 cut(s) 384
Eco91I GGTNACC 1 cut(s) 29
EcoO65I GGTNACC 1 cut(s) 29
EcoT14I CCWWGG 1 cut(s) 129
EcoT38I GRGCYC 1 cut(s) 426
ErhI CCWWGG 1 cut(s) 129
FaeI CATG 2 cut(s) 133, 412
FaiI YATR 8 cut(s) 131, 156, 210, 297, 389, 398, 410, 433
FalI AAGNNNNNCTT 2 cut(s) 239, 271
FatI CATG 2 cut(s) 129, 408
Fnu4HI GCNGC 1 cut(s) 261
FriOI GRGCYC 1 cut(s) 426
Fsp4HI GCNGC 1 cut(s) 261
FspBI CTAG 1 cut(s) 39
GlaI GCGC 1 cut(s) 393
GluI GCNGC 1 cut(s) 261
HaeIII GGCC 2 cut(s) 89, 280
HapII CCGG 1 cut(s) 56
HhaI GCGC 1 cut(s) 394
Hin1II CATG 2 cut(s) 133, 412
Hin6I GCGC 1 cut(s) 392
HinP1I GCGC 1 cut(s) 392
HinfI GANTC 4 cut(s) 125, 215, 231, 428
HpaII CCGG 1 cut(s) 56
Hpy166II GTNNAC 1 cut(s) 406
Hpy188I TCNGA 2 cut(s) 161, 220
Hpy188III TCNNGA 2 cut(s) 320, 374
Hpy8I GTNNAC 1 cut(s) 406
HpyCH4IV ACGT 1 cut(s) 334
HpyCH4V TGCA 1 cut(s) 260
HpyF10VI GCNNNNNNNGC 1 cut(s) 50
HpyF3I CTNAG 1 cut(s) 416
HpySE526I ACGT 1 cut(s) 334
Hsp92II CATG 2 cut(s) 133, 412
HspAI GCGC 1 cut(s) 392
Kzo9I GATC 2 cut(s) 324, 328
LmnI GCTCC 2 cut(s) 11, 133
LpnPI CCDG 3 cut(s) 69, 84, 305
Lsp1109I GCAGC 1 cut(s) 272
MaeI CTAG 1 cut(s) 39
MaeII ACGT 1 cut(s) 334
MaeIII GTNAC 1 cut(s) 29
MalI GATC 2 cut(s) 326, 330
MboI GATC 2 cut(s) 324, 328
MboII GAAGA 2 cut(s) 211, 275
MhlI GDGCHC 2 cut(s) 16, 426
MluCI AATT 4 cut(s) 64, 74, 239, 302
MmeI TCCRAC 1 cut(s) 184
MnlI CCTC 3 cut(s) 44, 291, 352
MroXI GAANNNNTTC 1 cut(s) 369
MspI CCGG 1 cut(s) 56
MvnI CGCG 2 cut(s) 18, 394
MwoI GCNNNNNNNGC 1 cut(s) 50
NcoI CCATGG 1 cut(s) 129
NdeII GATC 2 cut(s) 324, 328
NlaIII CATG 2 cut(s) 133, 412
NlaIV GGNNCC 1 cut(s) 135
NspI RCATGY 1 cut(s) 412
PciI ACATGT 1 cut(s) 408
PcsI WCGNNNNNNNCGW 1 cut(s) 157
PdmI GAANNNNTTC 1 cut(s) 369
PfeI GAWTC 4 cut(s) 125, 215, 231, 428
PinAI ACCGGT 1 cut(s) 55
PkrI GCNGC 1 cut(s) 262
PscI ACATGT 1 cut(s) 408
PsiI TTATAA 1 cut(s) 297
PspEI GGTNACC 1 cut(s) 29
PspN4I GGNNCC 1 cut(s) 135
PspPI GGNCC 1 cut(s) 87
SatI GCNGC 1 cut(s) 261
Sau3AI GATC 2 cut(s) 324, 328
Sau96I GGNCC 1 cut(s) 87
SduI GDGCHC 2 cut(s) 16, 426
SetI ASST 5 cut(s) 27, 36, 293, 337, 364
Sse9I AATT 4 cut(s) 64, 74, 239, 302
SsiI CCGC 1 cut(s) 18
SspMI CTAG 1 cut(s) 39
StyI CCWWGG 1 cut(s) 129
TaiI ACGT 1 cut(s) 337
TaqI TCGA 2 cut(s) 327, 426
TasI AATT 4 cut(s) 64, 74, 239, 302
TfiI GAWTC 4 cut(s) 125, 215, 231, 428
TseI GCWGC 1 cut(s) 260
TspDTI ATGAA 2 cut(s) 315, 420
XapI RAATTY 2 cut(s) 64, 74
XceI RCATGY 1 cut(s) 412
XmnI GAANNNNTTC 1 cut(s) 369
XspI CTAG 1 cut(s) 39
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.