FvH4_6g33012

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0000291
Physical Location & Seq
Forward (+)
26068056 .. 26068586
531 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g33012.t1

Sequence Viewer

Length: 531 bp
ATGCGAGACGGGGTCAAAGAGTACGTGAGGACATGTCTTGTTTGTCAACAAGACAAGGTGGTACAACAGCAGCTGGGGGGCTTGCTTGACCCCTTAACCATTCCCGATAGATCATGGGAAAGCGTCTCTATGGACTTCATCACTTGTCTACCGAAGTCCGAAGGGTTTGGAAGCATCATAGTCGTGGTGGACCGATTCAGCAAGTATGCAACTTTCATGGCCGCATCAGCCGACTGCAAAGCGGAGGAAACGGCAAGGCTATTCCTACACAATGTGTACGCAATGTACACAATGCCAAAGAACATTGTCAGCGACCGAGACCCACTCTTCACTGGGAGATTTTGGACAGAGCTATTCAAGATGCTTGGGTCAGACTTGAACTTTTCAACAAGCTTCCATCCACAAAGCGACAGTCAGACGGAGCGTGTCAATGCTCTTTTGGAGCTATACTTGCAGCACTATGTGAGTGCCAACCAAAAGGACTGGGCCAAGCTTCTTGACGTTGCACAGTTTTCTTATAACTTGCAATAA
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
Asp_protease_2 Chromo RVP_2 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

177

Amino Acids

20.16

Weight (kDa)

5.34

Isoelectric Point (pI)

39.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
rve PF00665 40 - 133 1.1e-06 Integrase core domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 519
AccI GTMKAC 1 cut(s) 148
AciI CCGC 2 cut(s) 222, 242
AcoI YGGCCR 1 cut(s) 219
AdeI CACNNNGTG 2 cut(s) 274, 463
AfaI GTAC 4 cut(s) 23, 63, 278, 287
AflIII ACRYGT 1 cut(s) 32
AgsI TTSAA 3 cut(s) 358, 379, 387
AluBI AGCT 5 cut(s) 73, 352, 393, 445, 493
AluI AGCT 5 cut(s) 73, 352, 393, 445, 493
Alw26I GTCTC 2 cut(s) 130, 312
AlwNI CAGNNNCTG 1 cut(s) 73
AoxI GGCC 2 cut(s) 219, 486
ApeKI GCWGC 2 cut(s) 70, 454
ArsI GACNNNNNNTTYG 2 cut(s) 397, 429
AspS9I GGNCC 2 cut(s) 190, 486
AvaII GGWCC 1 cut(s) 190
BbvI GCAGC 2 cut(s) 82, 466
BccI CCATC 1 cut(s) 405
BceAI ACGGC 1 cut(s) 267
BcgI CGANNNNNNTGC 2 cut(s) 163, 197
BcoDI GTCTC 2 cut(s) 130, 312
BisI GCNGC 3 cut(s) 71, 222, 455
BlsI GCNGC 3 cut(s) 72, 223, 456
Bme18I GGWCC 1 cut(s) 190
BmgT120I GGNCC 2 cut(s) 190, 486
BmrI ACTGGG 2 cut(s) 342, 493
BmsI GCATC 3 cut(s) 183, 233, 351
BmuI ACTGGG 2 cut(s) 342, 493
BplI GAGNNNNNCTC 2 cut(s) 309, 341
BsaAI YACGTR 1 cut(s) 25
BsaI GGTCTC 1 cut(s) 312
Bse1I ACTGG 2 cut(s) 337, 488
Bse3DI GCAATG 1 cut(s) 288
BseGI GGATG 1 cut(s) 397
BseMI GCAATG 1 cut(s) 288
BseNI ACTGG 2 cut(s) 337, 488
BseXI GCAGC 2 cut(s) 82, 466
BseYI CCCAGC 1 cut(s) 73
Bsh1285I CGRYCG 1 cut(s) 316
BshFI GGCC 2 cut(s) 221, 488
BsiEI CGRYCG 1 cut(s) 316
BsmAI GTCTC 2 cut(s) 130, 312
BsmBI CGTCTC 1 cut(s) 130
BsnI GGCC 2 cut(s) 221, 488
Bso31I GGTCTC 1 cut(s) 312
Bsp1407I TGTACA 1 cut(s) 285
Bsp143I GATC 1 cut(s) 110
BspACI CCGC 2 cut(s) 222, 242
BspANI GGCC 2 cut(s) 221, 488
BspTNI GGTCTC 1 cut(s) 312
BsrDI GCAATG 1 cut(s) 288
BsrGI TGTACA 1 cut(s) 285
BsrI ACTGG 2 cut(s) 337, 488
BssMI GATC 1 cut(s) 110
Bst4CI ACNGT 2 cut(s) 413, 510
Bst6I CTCTTC 1 cut(s) 332
BstAUI TGTACA 1 cut(s) 285
BstBAI YACGTR 1 cut(s) 25
BstC8I GCNNGC 1 cut(s) 83
BstF5I GGATG 1 cut(s) 397
BstKTI GATC 1 cut(s) 113
BstMAI GTCTC 2 cut(s) 130, 312
BstMBI GATC 1 cut(s) 110
BstMCI CGRYCG 1 cut(s) 316
BstMWI GCNNNNNNNGC 2 cut(s) 227, 451
BstNSI RCATGY 1 cut(s) 36
BstV1I GCAGC 2 cut(s) 82, 466
BsuRI GGCC 2 cut(s) 221, 488
BtsCI GGATG 1 cut(s) 397
BtsIMutI CAGTG 1 cut(s) 330
Cac8I GCNNGC 1 cut(s) 83
CaiI CAGNNNCTG 1 cut(s) 73
Cfr13I GGNCC 2 cut(s) 190, 486
CseI GACGC 1 cut(s) 112
Csp6I GTAC 4 cut(s) 22, 62, 277, 286
CviAII CATG 3 cut(s) 33, 114, 217
CviQI GTAC 4 cut(s) 22, 62, 277, 286
DpnI GATC 1 cut(s) 112
DpnII GATC 1 cut(s) 110
DraIII CACNNNGTG 2 cut(s) 274, 463
EaeI YGGCCR 1 cut(s) 219
Eam1104I CTCTTC 1 cut(s) 332
EarI CTCTTC 1 cut(s) 332
Eco31I GGTCTC 1 cut(s) 312
Eco47I GGWCC 1 cut(s) 190
Esp3I CGTCTC 1 cut(s) 130
FaeI CATG 3 cut(s) 36, 117, 220
FaiI YATR 9 cut(s) 34, 115, 131, 179, 207, 218, 448, 462, 519
FatI CATG 3 cut(s) 32, 113, 216
FblI GTMKAC 1 cut(s) 148
Fnu4HI GCNGC 3 cut(s) 71, 222, 455
FokI GGATG 1 cut(s) 384
Fsp4HI GCNGC 3 cut(s) 71, 222, 455
GluI GCNGC 3 cut(s) 71, 222, 455
GsaI CCCAGC 1 cut(s) 77
HaeIII GGCC 2 cut(s) 221, 488
HgaI GACGC 1 cut(s) 112
Hin1II CATG 3 cut(s) 36, 117, 220
HincII GTYRAC 1 cut(s) 47
HindII GTYRAC 1 cut(s) 47
HindIII AAGCTT 2 cut(s) 391, 491
HinfI GANTC 1 cut(s) 195
Hpy166II GTNNAC 5 cut(s) 47, 149, 190, 277, 288
Hpy188I TCNGA 3 cut(s) 160, 373, 417
Hpy188III TCNNGA 3 cut(s) 104, 358, 497
Hpy8I GTNNAC 5 cut(s) 47, 149, 190, 277, 288
HpyAV CCTTC 1 cut(s) 155
HpyCH4III ACNGT 2 cut(s) 413, 510
HpyCH4IV ACGT 2 cut(s) 24, 501
HpyCH4V TGCA 5 cut(s) 209, 237, 454, 506, 526
HpyF10VI GCNNNNNNNGC 2 cut(s) 227, 451
HpySE526I ACGT 2 cut(s) 24, 501
Hsp92II CATG 3 cut(s) 36, 117, 220
Kzo9I GATC 1 cut(s) 110
LmnI GCTCC 2 cut(s) 421, 442
LpnPI CCDG 3 cut(s) 59, 318, 469
Lsp1109I GCAGC 2 cut(s) 82, 466
LweI GCATC 3 cut(s) 183, 233, 351
MaeII ACGT 2 cut(s) 24, 501
MalI GATC 1 cut(s) 112
MboI GATC 1 cut(s) 110
MboII GAAGA 1 cut(s) 319
MnlI CCTC 2 cut(s) 21, 238
MseI TTAA 1 cut(s) 95
MslI CAYNNNNRTG 1 cut(s) 182
MspA1I CMGCKG 1 cut(s) 73
MwoI GCNNNNNNNGC 2 cut(s) 227, 451
NdeII GATC 1 cut(s) 110
NlaIII CATG 3 cut(s) 36, 117, 220
NspI RCATGY 1 cut(s) 36
PciI ACATGT 1 cut(s) 32
PfeI GAWTC 1 cut(s) 195
PflFI GACNNNGTC 1 cut(s) 11
PkrI GCNGC 3 cut(s) 72, 223, 456
Ppu21I YACGTR 1 cut(s) 25
PscI ACATGT 1 cut(s) 32
PsiI TTATAA 1 cut(s) 519
PspFI CCCAGC 1 cut(s) 73
PspPI GGNCC 2 cut(s) 190, 486
PstNI CAGNNNCTG 1 cut(s) 73
PsyI GACNNNGTC 1 cut(s) 11
PvuII CAGCTG 1 cut(s) 73
RsaI GTAC 4 cut(s) 23, 63, 278, 287
RsaNI GTAC 4 cut(s) 22, 62, 277, 286
RseI CAYNNNNRTG 1 cut(s) 182
SaqAI TTAA 1 cut(s) 95
SatI GCNGC 3 cut(s) 71, 222, 455
Sau3AI GATC 1 cut(s) 110
Sau96I GGNCC 2 cut(s) 190, 486
SetI ASST 8 cut(s) 27, 60, 75, 354, 395, 447, 495, 504
SfaNI GCATC 3 cut(s) 183, 233, 351
SinI GGWCC 1 cut(s) 190
SmiMI CAYNNNNRTG 1 cut(s) 182
SsiI CCGC 2 cut(s) 222, 242
TaaI ACNGT 2 cut(s) 413, 510
TaiI ACGT 2 cut(s) 27, 504
TaqII GACCGA 2 cut(s) 207, 330
TatI WGTACW 1 cut(s) 285
TauI GCSGC 1 cut(s) 224
TfiI GAWTC 1 cut(s) 195
Tru1I TTAA 1 cut(s) 95
Tru9I TTAA 1 cut(s) 95
TscAI CASTG 1 cut(s) 337
TseI GCWGC 2 cut(s) 70, 454
TspDTI ATGAA 2 cut(s) 127, 205
TspGWI ACGGA 1 cut(s) 434
TspRI CASTG 1 cut(s) 337
Tth111I GACNNNGTC 1 cut(s) 11
VpaK11BI GGWCC 1 cut(s) 190
XceI RCATGY 1 cut(s) 36
XmiI GTMKAC 1 cut(s) 148
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.