FvH4_4g08645

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000094
Physical Location & Seq
Reverse (-)
9107324 .. 9108164
841 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g08645.t1

Sequence Viewer

Length: 726 bp
ATGTCTCCATGGGGTGCTCCGGTGTTGTTTGTTAAGAAGAAAGATGGCACCGTGAGACTATGCATTGATTATAGGAAACTAAATCAAGTCATGGTGAAGAATAAATATCCGTTGCCTGGCATTGATGATTTATTTGATCAATTGAGAGCTGCTTCTGTTTTCTCCAAGATTGACTTGAGATCTGGTTATCATCAGTTGCGGATCAGGGAGAGTGACATAGCCAAGACTACTTTTCGATCACGCTATGGGCATTATGAATTTGTGGTGATGCCATTTGGACTTACTAATGCACCCACGACGTTCATGGACCTCATGAATAGGTTATATGCTAAGTTTAGCAAGTGTGAGTTTTGGCTTGATAAAGTGGGGTTCTTGGGTCATGTGGTTTCGGCAGAAGGAGTTAGTGTGGATCCCCAAAAGGTGGAAGCAGTGTTAAATTGGAGAAGACCCACCACTGTGACGGAGATTCGTAGTTTCTTGGGATTAGCAGGTTATTATCGGCGCTTTGTGCAAGATTTTTCAAAGATTGCTGCTCCTCTTACAAGATTGACCAAGAAGGGAGTTAAGTTCGAATGGTCAGATCAGTGTGAGCTAAGTTTTCAAGAATTGAAGAATCGCTTGACTAGTGCTCCTGTTTTGGCGCTTCCAGATGATAGTGGGGAGGATGTGGTTTATTGTGATGCTCCTAGACGTGGTCTAGGTGGGGTATTGATGCAGCATGATTGA
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

242

Amino Acids

27.53

Weight (kDa)

9.3

Isoelectric Point (pI)

41.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 11 - 114 1.5e-19 Reverse transcriptase (RNA-dependent DNA polymerase)
RT_RNaseH_2 PF17919 192 - 241 1.6e-11 RNase H-like domain found in reverse transcriptase
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)
Acc36I ACCTGC 1 cut(s) 479
AccB1I GGYRCC 1 cut(s) 47
AccB7I CCANNNNNTGG 1 cut(s) 421
AciI CCGC 1 cut(s) 199
AclWI GGATC 3 cut(s) 209, 404, 417
AcsI RAATTY 1 cut(s) 257
AfiI CCNNNNNNNGG 3 cut(s) 116, 421, 692
AgsI TTSAA 3 cut(s) 522, 602, 610
AhlI ACTAGT 1 cut(s) 623
AjiI CACGTC 1 cut(s) 692
AjnI CCWGG 1 cut(s) 115
AleI CACNNNNGTG 1 cut(s) 455
AluBI AGCT 2 cut(s) 149, 592
AluI AGCT 2 cut(s) 149, 592
Alw21I GWGCWC 2 cut(s) 19, 631
Alw26I GTCTC 2 cut(s) 9, 49
AlwI GGATC 3 cut(s) 209, 404, 417
ApeKI GCWGC 3 cut(s) 149, 530, 715
ApoI RAATTY 1 cut(s) 257
AspLEI GCGC 2 cut(s) 504, 643
AspS9I GGNCC 1 cut(s) 307
AsuHPI GGTGA 2 cut(s) 106, 277
AsuII TTCGAA 1 cut(s) 570
AvaII GGWCC 1 cut(s) 307
BamHI GGATCC 1 cut(s) 409
BanI GGYRCC 1 cut(s) 47
BbsI GAAGAC 1 cut(s) 451
Bbv12I GWGCWC 2 cut(s) 19, 631
BbvI GCAGC 2 cut(s) 136, 517
BccI CCATC 1 cut(s) 38
BciT130I CCWGG 1 cut(s) 117
BclI TGATCA 1 cut(s) 136
BcoDI GTCTC 2 cut(s) 9, 49
BcuI ACTAGT 1 cut(s) 623
BfaI CTAG 3 cut(s) 624, 687, 698
BfoI RGCGCY 2 cut(s) 505, 644
BfuAI ACCTGC 1 cut(s) 479
BglII AGATCT 1 cut(s) 179
BisI GCNGC 3 cut(s) 150, 531, 716
BlsI GCNGC 3 cut(s) 151, 532, 717
Bme1390I CCNGG 1 cut(s) 117
Bme18I GGWCC 1 cut(s) 307
BmgBI CACGTC 1 cut(s) 692
BmgT120I GGNCC 1 cut(s) 307
BmiI GGNNCC 2 cut(s) 49, 411
BmrFI CCNGG 1 cut(s) 117
BmsI GCATC 3 cut(s) 258, 670, 702
BpiI GAAGAC 1 cut(s) 451
Bpu14I TTCGAA 1 cut(s) 570
BpuEI CTTGAG 1 cut(s) 196
BsaJI CCNNGG 1 cut(s) 8
BsaWI WCCGGW 1 cut(s) 19
BsaXI ACNNNNNCTCC 4 cut(s) 390, 420, 613, 643
Bsc4I CCNNNNNNNGG 3 cut(s) 116, 421, 692
BseBI CCWGG 1 cut(s) 117
BseDI CCNNGG 1 cut(s) 8
BseGI GGATG 1 cut(s) 670
BseLI CCNNNNNNNGG 3 cut(s) 116, 421, 692
BseRI GAGGAG 1 cut(s) 525
BseXI GCAGC 2 cut(s) 136, 517
BshNI GGYRCC 1 cut(s) 47
BsiHKAI GWGCWC 2 cut(s) 19, 631
BsiSI CCGG 1 cut(s) 20
BslI CCNNNNNNNGG 3 cut(s) 116, 421, 692
BsmAI GTCTC 2 cut(s) 9, 49
Bsp119I TTCGAA 1 cut(s) 570
Bsp1286I GDGCHC 2 cut(s) 19, 631
Bsp143I GATC 6 cut(s) 136, 179, 201, 236, 409, 580
Bsp19I CCATGG 1 cut(s) 8
BspACI CCGC 1 cut(s) 199
BspHI TCATGA 1 cut(s) 312
BspLI GGNNCC 2 cut(s) 49, 411
BspMI ACCTGC 1 cut(s) 479
BspPI GGATC 3 cut(s) 209, 404, 417
BspT104I TTCGAA 1 cut(s) 570
BspT107I GGYRCC 1 cut(s) 47
BssECI CCNNGG 1 cut(s) 8
BssMI GATC 6 cut(s) 136, 179, 201, 236, 409, 580
BssT1I CCWWGG 1 cut(s) 8
Bst2UI CCWGG 1 cut(s) 117
Bst4CI ACNGT 2 cut(s) 52, 457
BstBI TTCGAA 1 cut(s) 570
BstDEI CTNAG 2 cut(s) 330, 593
BstDSI CCRYGG 1 cut(s) 8
BstF5I GGATG 1 cut(s) 670
BstH2I RGCGCY 2 cut(s) 505, 644
BstHHI GCGC 2 cut(s) 504, 643
BstKTI GATC 6 cut(s) 139, 182, 204, 239, 412, 583
BstMAI GTCTC 2 cut(s) 9, 49
BstMBI GATC 6 cut(s) 136, 179, 201, 236, 409, 580
BstMWI GCNNNNNNNGC 1 cut(s) 508
BstNI CCWGG 1 cut(s) 117
BstSCI CCNGG 1 cut(s) 115
BstV1I GCAGC 2 cut(s) 136, 517
BstV2I GAAGAC 1 cut(s) 451
BstX2I RGATCY 2 cut(s) 179, 409
BstYI RGATCY 2 cut(s) 179, 409
BtgI CCRYGG 1 cut(s) 8
BtrI CACGTC 1 cut(s) 692
BtsCI GGATG 1 cut(s) 670
BtsI GCAGTG 1 cut(s) 435
BtsIMutI CAGTG 3 cut(s) 435, 453, 590
BveI ACCTGC 1 cut(s) 479
CciI TCATGA 1 cut(s) 312
CfoI GCGC 2 cut(s) 504, 643
Cfr13I GGNCC 1 cut(s) 307
CviAII CATG 6 cut(s) 9, 91, 304, 313, 380, 719
CviJI RGCY 4 cut(s) 149, 221, 355, 592
CviKI_1 RGCY 4 cut(s) 149, 221, 355, 592
DdeI CTNAG 2 cut(s) 330, 593
DpnI GATC 6 cut(s) 138, 181, 203, 238, 411, 582
DpnII GATC 6 cut(s) 136, 179, 201, 236, 409, 580
Eco130I CCWWGG 1 cut(s) 8
Eco47I GGWCC 1 cut(s) 307
EcoRII CCWGG 1 cut(s) 115
EcoT14I CCWWGG 1 cut(s) 8
EcoT22I ATGCAT 1 cut(s) 65
ErhI CCWWGG 1 cut(s) 8
FaeI CATG 6 cut(s) 12, 94, 307, 316, 383, 722
FalI AAGNNNNNCTT 4 cut(s) 158, 190, 602, 634
FatI CATG 6 cut(s) 8, 90, 303, 312, 379, 718
FbaI TGATCA 1 cut(s) 136
Fnu4HI GCNGC 3 cut(s) 150, 531, 716
FokI GGATG 1 cut(s) 677
Fsp4HI GCNGC 3 cut(s) 150, 531, 716
FspBI CTAG 3 cut(s) 624, 687, 698
GlaI GCGC 2 cut(s) 503, 642
GluI GCNGC 3 cut(s) 150, 531, 716
HaeII RGCGCY 2 cut(s) 505, 644
HapII CCGG 1 cut(s) 20
HhaI GCGC 2 cut(s) 504, 643
Hin1II CATG 6 cut(s) 12, 94, 307, 316, 383, 722
Hin6I GCGC 2 cut(s) 502, 641
HinP1I GCGC 2 cut(s) 502, 641
HinfI GANTC 2 cut(s) 466, 613
HpaII CCGG 1 cut(s) 20
HphI GGTGA 2 cut(s) 106, 277
Hpy188I TCNGA 1 cut(s) 580
Hpy188III TCNNGA 3 cut(s) 313, 602, 647
Hpy99I CGWCG 1 cut(s) 301
HpyAV CCTTC 2 cut(s) 389, 550
HpyCH4III ACNGT 2 cut(s) 52, 457
HpyCH4IV ACGT 2 cut(s) 299, 691
HpyCH4V TGCA 4 cut(s) 63, 290, 511, 715
HpyF10VI GCNNNNNNNGC 1 cut(s) 508
HpyF3I CTNAG 2 cut(s) 330, 593
HpySE526I ACGT 2 cut(s) 299, 691
Hsp92II CATG 6 cut(s) 12, 94, 307, 316, 383, 722
HspAI GCGC 2 cut(s) 502, 641
Ksp22I TGATCA 1 cut(s) 136
Kzo9I GATC 6 cut(s) 136, 179, 201, 236, 409, 580
LmnI GCTCC 4 cut(s) 22, 538, 634, 688
LpnPI CCDG 8 cut(s) 33, 102, 129, 168, 190, 474, 645, 660
Lsp1109I GCAGC 2 cut(s) 136, 517
LweI GCATC 3 cut(s) 258, 670, 702
MaeI CTAG 3 cut(s) 624, 687, 698
MaeII ACGT 2 cut(s) 299, 691
MaeIII GTNAC 2 cut(s) 212, 457
MalI GATC 6 cut(s) 138, 181, 203, 238, 411, 582
MboI GATC 6 cut(s) 136, 179, 201, 236, 409, 580
MboII GAAGA 4 cut(s) 49, 109, 456, 622
MfeI CAATTG 1 cut(s) 140
MflI RGATCY 2 cut(s) 179, 409
MhlI GDGCHC 2 cut(s) 19, 631
MluCI AATT 4 cut(s) 140, 257, 436, 605
MnlI CCTC 3 cut(s) 320, 546, 655
Mph1103I ATGCAT 1 cut(s) 65
MseI TTAA 3 cut(s) 33, 434, 564
MslI CAYNNNNRTG 1 cut(s) 455
MspI CCGG 1 cut(s) 20
MspR9I CCNGG 1 cut(s) 117
MunI CAATTG 1 cut(s) 140
MvaI CCWGG 1 cut(s) 117
MwoI GCNNNNNNNGC 1 cut(s) 508
NcoI CCATGG 1 cut(s) 8
NdeII GATC 6 cut(s) 136, 179, 201, 236, 409, 580
NlaIII CATG 6 cut(s) 12, 94, 307, 316, 383, 722
NlaIV GGNNCC 2 cut(s) 49, 411
NmuCI GTSAC 2 cut(s) 212, 457
NsiI ATGCAT 1 cut(s) 65
NspV TTCGAA 1 cut(s) 570
OliI CACNNNNGTG 1 cut(s) 455
PagI TCATGA 1 cut(s) 312
PfeI GAWTC 2 cut(s) 466, 613
PflFI GACNNNGTC 1 cut(s) 693
PflMI CCANNNNNTGG 1 cut(s) 421
PkrI GCNGC 3 cut(s) 151, 532, 717
Psp6I CCWGG 1 cut(s) 115
PspGI CCWGG 1 cut(s) 115
PspN4I GGNNCC 2 cut(s) 49, 411
PspPI GGNCC 1 cut(s) 307
PsuI RGATCY 2 cut(s) 179, 409
PsyI GACNNNGTC 1 cut(s) 693
RseI CAYNNNNRTG 1 cut(s) 455
SaqAI TTAA 3 cut(s) 33, 434, 564
SatI GCNGC 3 cut(s) 150, 531, 716
Sau3AI GATC 6 cut(s) 136, 179, 201, 236, 409, 580
Sau96I GGNCC 1 cut(s) 307
ScrFI CCNGG 1 cut(s) 117
SduI GDGCHC 2 cut(s) 19, 631
SetI ASST 9 cut(s) 151, 302, 312, 323, 423, 493, 594, 694, 703
SfaNI GCATC 3 cut(s) 258, 670, 702
SfuI TTCGAA 1 cut(s) 570
SinI GGWCC 1 cut(s) 307
SmiMI CAYNNNNRTG 1 cut(s) 455
SmlI CTYRAG 1 cut(s) 175
SmoI CTYRAG 1 cut(s) 175
SpeI ACTAGT 1 cut(s) 623
Sse9I AATT 4 cut(s) 140, 257, 436, 605
SsiI CCGC 1 cut(s) 199
SspMI CTAG 3 cut(s) 624, 687, 698
StyD4I CCNGG 1 cut(s) 115
StyI CCWWGG 1 cut(s) 8
TaaI ACNGT 2 cut(s) 52, 457
TaiI ACGT 2 cut(s) 302, 694
TaqI TCGA 2 cut(s) 235, 570
TasI AATT 4 cut(s) 140, 257, 436, 605
TfiI GAWTC 2 cut(s) 466, 613
Tru1I TTAA 3 cut(s) 33, 434, 564
Tru9I TTAA 3 cut(s) 33, 434, 564
TscAI CASTG 3 cut(s) 435, 460, 590
TseFI GTSAC 2 cut(s) 212, 457
TseI GCWGC 3 cut(s) 149, 530, 715
Tsp45I GTSAC 2 cut(s) 212, 457
TspDTI ATGAA 3 cut(s) 270, 292, 329
TspGWI ACGGA 2 cut(s) 99, 476
TspRI CASTG 3 cut(s) 435, 460, 590
Tth111I GACNNNGTC 1 cut(s) 693
Van91I CCANNNNNTGG 1 cut(s) 421
VpaK11BI GGWCC 1 cut(s) 307
XapI RAATTY 1 cut(s) 257
XcmI CCANNNNNNNNNTGG 1 cut(s) 301
XspI CTAG 3 cut(s) 624, 687, 698
Zsp2I ATGCAT 1 cut(s) 65
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.