FvH4_4g08646

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000094
Physical Location & Seq
Reverse (-)
9108198 .. 9108785
588 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g08646.t1

Sequence Viewer

Length: 588 bp
ATGTCTAGTAGATTTGCCCTCCATGCTAATGTGCCATTATCGTCTCTTCCAAGCGAGTGGCATGTGTGTCTAGCCTCCGACGAGGTGATGAGGATAAATTGGGTGTTTAGTGGTTGTGAAGTTTTAGTAGAAGGAGTTAATTTTAAGGCCGATTTAATTCCTTTAGATATAGTGGAGTTTGATGTGATCTTGGGAATGGACTTTTGGGAAGCATATAGAGCTATGGTAGATTGTTTTCAAAAAGTAGTGGTGCTTCGAAGTCCAAGTGGATTTGAGGTTGCTTTTCAAGGGGAAAGAGATGTTATTTCGAGTTGCCTAATTTCCGCTGTTGCTGCAAGGAAATTATTAAATAAAGTCTGTCAGGCCTATTTAGCTCACGTTGTGGATACAAGTATGAGAGTTTTGGGAGTAGAAGATATTCCTGTAGTAAGGGAGTTTCCGGATGTTTTTCCTGAGGAGTTGCCTGGTTTGCCTCCTGAAAGGGAGATAGACTTCTCTATTGAATTACTTCCTGGAACTGTGCCTATCTCTCAGGCACCTTACAGAATGGCTCCAGCAGAATTGAAGGAATTGAAGACTCAATTGTAG
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
RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

196

Amino Acids

21.77

Weight (kDa)

4.63

Isoelectric Point (pI)

39.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVP_2 PF08284 2 - 86 3.3e-15 Retroviral aspartyl protease
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: OG0000094)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42190
fragaria_vesca FvH4_1g22371 FvH4_1g23261 FvH4_1g27933 FvH4_1g27934 FvH4_1g29231 FvH4_2g02781 FvH4_2g08031 FvH4_2g08581 FvH4_3g06961 FvH4_3g06962 FvH4_3g13531 FvH4_3g14391 FvH4_3g14392 FvH4_3g18622 FvH4_3g18964 FvH4_3g26314 FvH4_3g28781 FvH4_3g30771 FvH4_3g30772 FvH4_3g31752 FvH4_3g32803 FvH4_3g35751 FvH4_3g35752 FvH4_4g02151 FvH4_4g02642 FvH4_4g05523 FvH4_4g05524 FvH4_4g06574 FvH4_4g06722 FvH4_4g08644 FvH4_4g08645 FvH4_4g08646 FvH4_4g08851 FvH4_4g08971 FvH4_4g09081 FvH4_4g09243 FvH4_4g09244 FvH4_4g09283 FvH4_4g10021 FvH4_4g10032 FvH4_4g10033 FvH4_4g10182 FvH4_4g10361 FvH4_4g12502 FvH4_4g12503 FvH4_4g13341 FvH4_4g13942 FvH4_4g13943 FvH4_4g13944 FvH4_4g14432 FvH4_4g14822 FvH4_4g14823 FvH4_4g15291 FvH4_4g15292 FvH4_4g15293 FvH4_4g15471 FvH4_4g15583 FvH4_4g15584 FvH4_4g15585 FvH4_4g15586 FvH4_4g15587 FvH4_4g15591 FvH4_4g15592 FvH4_4g15593 FvH4_4g16179 FvH4_4g18131 FvH4_4g21031 FvH4_4g22021 FvH4_4g22021 FvH4_4g22042 FvH4_5g03402 FvH4_5g07411 FvH4_5g13881 FvH4_5g15792 FvH4_5g24682 FvH4_5g24911 FvH4_5g25322 FvH4_5g25641 FvH4_5g36692 FvH4_5g38072 FvH4_5g38171 FvH4_6g05202 FvH4_6g08531 FvH4_6g16342 FvH4_6g21771 FvH4_6g23303 FvH4_6g23961 FvH4_6g25381 FvH4_6g27021 FvH4_6g27022 FvH4_6g30091 FvH4_6g30092 FvH4_7g02051 FvH4_7g06031 FvH4_7g07031 FvH4_7g07581 FvH4_7g08381 FvH4_7g11551 FvH4_7g19711 FvH4_7g25621 FvH4_7g29722
malus_domestica MD06G1134500.v1.1 MD09G1067600.v1.1 MD13G1145500.v1.1 MD15G1166500.v1.1 MD16G1270000.v1.1
prunus_persica Prupe.7G030900_v2.0.a1
pyrus_communis pycom01g00710 pycom01g03760 pycom03g10770 pycom04g02180 pycom05g08050 pycom06g04140 pycom06g11110 pycom07g07550 pycom07g21570 pycom08g17240 pycom09g13900 pycom09g19570 pycom10g22300 pycom11g03210 pycom11g13750 pycom11g24890 pycom12561g00270 pycom12668g00020 pycom12g11280 pycom12g20720 pycom12g20730 pycom13g21410 pycom13g21660 pycom14g06010 pycom14g06370 pycom14g12800 pycom16g21440 pycom16g22530 pycom17g02030 pycom420g00170 pycom50g00020 pycom5153684g00110 pycom520g00860 pycom581g00060
rosa_chinensis RchiOBHm_Chr0c08g0498091 RchiOBHm_Chr0c08g0498101 RchiOBHm_Chr1g0326991 RchiOBHm_Chr2g0084311 RchiOBHm_Chr2g0090701 RchiOBHm_Chr2g0098591 RchiOBHm_Chr2g0109491 RchiOBHm_Chr2g0109501 RchiOBHm_Chr2g0130801 RchiOBHm_Chr2g0145931 RchiOBHm_Chr2g0168091 RchiOBHm_Chr3g0457081 RchiOBHm_Chr3g0457091 RchiOBHm_Chr3g0467781 RchiOBHm_Chr3g0467791 RchiOBHm_Chr3g0493771 RchiOBHm_Chr3g0494051 RchiOBHm_Chr3g0496881 RchiOBHm_Chr4g0401391 RchiOBHm_Chr4g0414861 RchiOBHm_Chr4g0424081 RchiOBHm_Chr5g0009611 RchiOBHm_Chr5g0049881 RchiOBHm_Chr5g0050351 RchiOBHm_Chr5g0053791 RchiOBHm_Chr5g0078031 RchiOBHm_Chr6g0256481 RchiOBHm_Chr6g0271231 RchiOBHm_Chr6g0286381 RchiOBHm_Chr7g0197101 RchiOBHm_Chr7g0221891 RchiOBHm_Chr7g0237801 RchiOBHm_Chr7g0237821
rosa_multiflora Rmu_sc0000509.1_g000034 Rmu_sc0004751.1_g000014 Rmu_sc0008546.1_g000002 Rmu_sc0009320.1_g000003 Rmu_sc0010661.1_g000006 Rmu_sc0029652.1_g000002
rosa_roxburghii Rroxscaffold_10G00433150 Rroxscaffold_15G00447630 Rroxscaffold_26G00447790 Rroxscaffold_29G00441810 Rroxscaffold_32G00442860 Rroxscaffold_33G00439800 Rroxscaffold_34G00443230 Rroxscaffold_3G00220560 Rroxscaffold_3G00227370 Rroxscaffold_3G00239080 Rroxscaffold_3G00239090 Rroxscaffold_3G00273190 Rroxscaffold_4G00323530 Rroxscaffold_4G00326840 Rroxscaffold_57G00443110 Rroxscaffold_5G00338590 Rroxscaffold_5G00347530 Rroxscaffold_68G00446990 Rroxscaffold_76G00448570 Rroxscaffold_90G00448860
rosa_rugosa Rorug06G0233600
rosa_samantha Rh3CG302700 Rh6DG286700
rosa_wichuraiana Rw0G002280 Rw0G004080 Rw0G011830 Rw1G003690 Rw1G008800 Rw1G009130 Rw1G009140 Rw1G009150 Rw1G009160 Rw1G009410 Rw1G009580 Rw1G012770 Rw1G015850 Rw1G026860 Rw2G003780 Rw2G006480 Rw2G016520 Rw2G016960 Rw2G018170 Rw2G025180 Rw2G025510 Rw2G025610 Rw2G025750 Rw2G025920 Rw2G029950 Rw2G046360 Rw2G046370 Rw2G046380 Rw3G009070 Rw3G025820 Rw3G027340 Rw3G027900 Rw3G028150 Rw3G029060 Rw4G002440 Rw4G005960 Rw4G007520 Rw4G011970 Rw4G011980 Rw4G012190 Rw4G012530 Rw4G018490 Rw4G026380 Rw5G003970 Rw5G030920 Rw5G031780 Rw5G031900 Rw5G033030 Rw5G033040 Rw5G036330 Rw5G039730 Rw5G048110 Rw6G006670 Rw6G007910 Rw6G009720 Rw6G010990 Rw6G012930 Rw6G012940 Rw6G013420 Rw6G014690 Rw6G015290 Rw6G015790 Rw6G015920 Rw6G036510 Rw7G016650 Rw7G023140 Rw7G028650 Rw7G036450 Rw7G036460 Rw7G036910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 535
AccIII TCCGGA 1 cut(s) 439
AciI CCGC 1 cut(s) 324
AdeI CACNNNGTG 1 cut(s) 382
AgsI TTSAA 5 cut(s) 239, 287, 503, 565, 574
AjnI CCWGG 2 cut(s) 463, 511
AjuI GAANNNNNNNTTGG 2 cut(s) 187, 219
AluBI AGCT 2 cut(s) 221, 374
AluI AGCT 2 cut(s) 221, 374
Alw26I GTCTC 1 cut(s) 48
Aor13HI TCCGGA 1 cut(s) 439
AoxI GGCC 2 cut(s) 147, 363
ApeKI GCWGC 1 cut(s) 332
Asp700I GAANNNNTTC 2 cut(s) 417, 507
AsuHPI GGTGA 1 cut(s) 97
AsuII TTCGAA 1 cut(s) 256
AxyI CCTNAGG 1 cut(s) 453
BanI GGYRCC 1 cut(s) 535
BarI GAAGNNNNNNTAC 2 cut(s) 237, 269
BbsI GAAGAC 1 cut(s) 581
BbvI GCAGC 1 cut(s) 319
BciT130I CCWGG 2 cut(s) 465, 513
BciVI GTATCC 1 cut(s) 379
BcoDI GTCTC 1 cut(s) 48
BfaI CTAG 2 cut(s) 6, 71
BfmI CTRYAG 1 cut(s) 423
BfuI GTATCC 1 cut(s) 379
BisI GCNGC 1 cut(s) 333
BlsI GCNGC 1 cut(s) 334
Bme1390I CCNGG 2 cut(s) 465, 513
BmiI GGNNCC 2 cut(s) 537, 552
BmrFI CCNGG 2 cut(s) 465, 513
BpiI GAAGAC 1 cut(s) 581
BpmI CTGGAG 1 cut(s) 537
Bpu14I TTCGAA 1 cut(s) 256
BsaWI WCCGGW 1 cut(s) 439
Bse21I CCTNAGG 1 cut(s) 453
BseAI TCCGGA 1 cut(s) 439
BseBI CCWGG 2 cut(s) 465, 513
BseGI GGATG 1 cut(s) 448
BseMII CTCAG 2 cut(s) 444, 545
BseRI GAGGAG 1 cut(s) 470
BseXI GCAGC 1 cut(s) 319
BshFI GGCC 2 cut(s) 149, 365
BshNI GGYRCC 1 cut(s) 535
BsiSI CCGG 1 cut(s) 440
BsmAI GTCTC 1 cut(s) 48
BsmBI CGTCTC 1 cut(s) 48
BsnI GGCC 2 cut(s) 149, 365
Bsp119I TTCGAA 1 cut(s) 256
Bsp13I TCCGGA 1 cut(s) 439
Bsp143I GATC 1 cut(s) 186
BspACI CCGC 1 cut(s) 324
BspANI GGCC 2 cut(s) 149, 365
BspCNI CTCAG 2 cut(s) 445, 544
BspEI TCCGGA 1 cut(s) 439
BspLI GGNNCC 2 cut(s) 537, 552
BspT104I TTCGAA 1 cut(s) 256
BspT107I GGYRCC 1 cut(s) 535
BssMI GATC 1 cut(s) 186
Bst2UI CCWGG 2 cut(s) 465, 513
Bst4CI ACNGT 1 cut(s) 520
Bst6I CTCTTC 1 cut(s) 51
BstBI TTCGAA 1 cut(s) 256
BstDEI CTNAG 2 cut(s) 453, 531
BstF5I GGATG 1 cut(s) 448
BstKTI GATC 1 cut(s) 189
BstMAI GTCTC 1 cut(s) 48
BstMBI GATC 1 cut(s) 186
BstMWI GCNNNNNNNGC 5 cut(s) 23, 218, 332, 371, 469
BstNI CCWGG 2 cut(s) 465, 513
BstNSI RCATGY 1 cut(s) 65
BstSCI CCNGG 2 cut(s) 463, 511
BstSFI CTRYAG 1 cut(s) 423
BstV1I GCAGC 1 cut(s) 319
BstV2I GAAGAC 1 cut(s) 581
BstXI CCANNNNNNTGG 1 cut(s) 57
Bsu36I CCTNAGG 1 cut(s) 453
BsuI GTATCC 1 cut(s) 379
BsuRI GGCC 2 cut(s) 149, 365
BtsCI GGATG 1 cut(s) 448
CviAII CATG 2 cut(s) 23, 62
CviJI RGCY 6 cut(s) 74, 149, 221, 365, 374, 551
CviKI_1 RGCY 6 cut(s) 74, 149, 221, 365, 374, 551
DdeI CTNAG 2 cut(s) 453, 531
DpnI GATC 1 cut(s) 188
DpnII GATC 1 cut(s) 186
DraIII CACNNNGTG 1 cut(s) 382
Eam1104I CTCTTC 1 cut(s) 51
EarI CTCTTC 1 cut(s) 51
Eco147I AGGCCT 1 cut(s) 365
Eco81I CCTNAGG 1 cut(s) 453
EcoRII CCWGG 2 cut(s) 463, 511
Esp3I CGTCTC 1 cut(s) 48
FaeI CATG 2 cut(s) 26, 65
FaiI YATR 7 cut(s) 24, 63, 170, 214, 216, 224, 395
FatI CATG 2 cut(s) 22, 61
Fnu4HI GCNGC 1 cut(s) 333
FokI GGATG 1 cut(s) 455
Fsp4HI GCNGC 1 cut(s) 333
FspBI CTAG 2 cut(s) 6, 71
GluI GCNGC 1 cut(s) 333
GsuI CTGGAG 1 cut(s) 537
HaeIII GGCC 2 cut(s) 149, 365
HapII CCGG 1 cut(s) 440
Hin1II CATG 2 cut(s) 26, 65
HinfI GANTC 1 cut(s) 577
HpaII CCGG 1 cut(s) 440
HphI GGTGA 1 cut(s) 97
Hpy188I TCNGA 1 cut(s) 79
Hpy188III TCNNGA 3 cut(s) 440, 452, 476
Hpy99I CGWCG 1 cut(s) 83
HpyAV CCTTC 2 cut(s) 125, 559
HpyCH4III ACNGT 1 cut(s) 520
HpyCH4IV ACGT 1 cut(s) 378
HpyCH4V TGCA 1 cut(s) 335
HpyF10VI GCNNNNNNNGC 5 cut(s) 23, 218, 332, 371, 469
HpyF3I CTNAG 2 cut(s) 453, 531
HpySE526I ACGT 1 cut(s) 378
Hsp92II CATG 2 cut(s) 26, 65
Kpn2I TCCGGA 1 cut(s) 439
Kzo9I GATC 1 cut(s) 186
LmnI GCTCC 1 cut(s) 556
Lsp1109I GCAGC 1 cut(s) 319
MaeI CTAG 2 cut(s) 6, 71
MaeII ACGT 1 cut(s) 378
MalI GATC 1 cut(s) 188
MboI GATC 1 cut(s) 186
MboII GAAGA 3 cut(s) 38, 425, 586
MfeI CAATTG 1 cut(s) 581
MluCI AATT 9 cut(s) 97, 139, 156, 318, 341, 503, 560, 569, 581
MlyI GAGTC 1 cut(s) 571
MmeI TCCRAC 1 cut(s) 102
MnlI CCTC 7 cut(s) 29, 76, 84, 85, 268, 448, 483
MroI TCCGGA 1 cut(s) 439
MroXI GAANNNNTTC 2 cut(s) 417, 507
MseI TTAA 4 cut(s) 138, 144, 155, 347
MslI CAYNNNNRTG 1 cut(s) 27
MspA1I CMGCKG 1 cut(s) 326
MspI CCGG 1 cut(s) 440
MspR9I CCNGG 2 cut(s) 465, 513
MunI CAATTG 1 cut(s) 581
MvaI CCWGG 2 cut(s) 465, 513
MwoI GCNNNNNNNGC 5 cut(s) 23, 218, 332, 371, 469
NdeII GATC 1 cut(s) 186
NlaIII CATG 2 cut(s) 26, 65
NlaIV GGNNCC 2 cut(s) 537, 552
NspI RCATGY 1 cut(s) 65
NspV TTCGAA 1 cut(s) 256
PceI AGGCCT 1 cut(s) 365
PdmI GAANNNNTTC 2 cut(s) 417, 507
PfoI TCCNGGA 1 cut(s) 511
PkrI GCNGC 1 cut(s) 334
PleI GAGTC 1 cut(s) 571
PpsI GAGTC 1 cut(s) 571
Psp6I CCWGG 2 cut(s) 463, 511
PspGI CCWGG 2 cut(s) 463, 511
PspN4I GGNNCC 2 cut(s) 537, 552
RseI CAYNNNNRTG 1 cut(s) 27
SaqAI TTAA 4 cut(s) 138, 144, 155, 347
SatI GCNGC 1 cut(s) 333
Sau3AI GATC 1 cut(s) 186
SchI GAGTC 1 cut(s) 571
ScrFI CCNGG 2 cut(s) 465, 513
SetI ASST 6 cut(s) 87, 223, 279, 376, 381, 541
SfcI CTRYAG 1 cut(s) 423
SfuI TTCGAA 1 cut(s) 256
SmiMI CAYNNNNRTG 1 cut(s) 27
Sse9I AATT 9 cut(s) 97, 139, 156, 318, 341, 503, 560, 569, 581
SseBI AGGCCT 1 cut(s) 365
SsiI CCGC 1 cut(s) 324
SspMI CTAG 2 cut(s) 6, 71
StuI AGGCCT 1 cut(s) 365
StyD4I CCNGG 2 cut(s) 463, 511
TaaI ACNGT 1 cut(s) 520
TaiI ACGT 1 cut(s) 381
TaqI TCGA 2 cut(s) 256, 308
TasI AATT 9 cut(s) 97, 139, 156, 318, 341, 503, 560, 569, 581
Tru1I TTAA 4 cut(s) 138, 144, 155, 347
Tru9I TTAA 4 cut(s) 138, 144, 155, 347
TseI GCWGC 1 cut(s) 332
XceI RCATGY 1 cut(s) 65
XmnI GAANNNNTTC 2 cut(s) 417, 507
XspI CTAG 2 cut(s) 6, 71
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.