FvH4_2g02781

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000094
Physical Location & Seq
Reverse (-)
2202713 .. 2203637
925 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g02781.t1

Sequence Viewer

Length: 885 bp
ATGAACAAGTTATTCCACCCCTACCTTGATCGGTTCGTGGTCGTCTACTTGGACGACACAGTGGTGTATAGCAAGACCTTAGAGGAGCATATAGAGCACTTGAGGGAAGTGTTCAAGGTGCTACGGGAGAACGAGCTATACATCAAAAATGAGAAGTGCTCCTTTGCTAAGCCGAAGGTGCTGTTCTTGGGACACAAGATCAAGGACGGCAAGCTAATGATGGAGGATTGCAAGGTCCATGCCATCCAAGAATGGGAGCCACCCACCAAGGTACACGAGTTGAGATCTTTTCTTGGGCTAGTGAACTACTACCACTGCTTCATCGAGGGCTATTCGGCGAGGGCCACTCCATTAACCGACCTTCTCAAGAAAAACAAGACGTGGGATTGGACAACGAAGTGTCAAGAGGCCTTTGAAGACTTGAAGAAGGCTATATGGGAGGAGCCCGTAATCAGCTTACCCGACCACACCAAGCCATACGAGGTACACACCGATGCTTCTGACTTTGCTATTGGTGATGTACTCATGCAAGAGGGGCATCCGATTGCTTATGAGAGTTGGAAGCTTAACGAAACAGAGCGACGCTACACGATGCAAGAGAAGGAGATGACTGCCATCATCCATTATCTTAGAGTGTGGCGACACTACTTGCTTGGGACAAGGTTCGTTATCATGACCGACAATGTTGCAACAAGCTACTTCCAAACACAAAAAAAGCTAAGTCCGAAGCAAACTAGATGGCAAGACTTCCTGACCGAATTTGACTATGTCATGGAGTATAAACCGGGAAGGGTGAACGTGGTAGTCGACGCCTTAAGCCGAAAGGCGGAGTTTGCAAGTATCTCCCAAGTCACTAGCCCTCTATTGAGCAAGATCAAAGAATGA
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 RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

295

Amino Acids

34.84

Weight (kDa)

6.65

Isoelectric Point (pI)

32.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 1 - 67 1.4e-14 Reverse transcriptase (RNA-dependent DNA polymerase)
RT_RNaseH_2 PF17919 130 - 224 7.3e-32 RNase H-like domain found in reverse transcriptase
RT_RNaseH PF17917 155 - 254 4.4e-32 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)
AccI GTMKAC 2 cut(s) 45, 807
AciI CCGC 1 cut(s) 827
AcsI RAATTY 1 cut(s) 758
AcyI GRCGYC 1 cut(s) 810
AfaI GTAC 3 cut(s) 273, 486, 522
AfiI CCNNNNNNNGG 2 cut(s) 253, 826
AflII CTTAAG 1 cut(s) 814
AgsI TTSAA 3 cut(s) 115, 416, 424
AjiI CACGTC 1 cut(s) 381
AleI CACNNNNGTG 1 cut(s) 62
AluBI AGCT 6 cut(s) 136, 214, 456, 565, 696, 718
AluI AGCT 6 cut(s) 136, 214, 456, 565, 696, 718
Alw21I GWGCWC 2 cut(s) 99, 161
AoxI GGCC 2 cut(s) 342, 408
ApoI RAATTY 1 cut(s) 758
AspS9I GGNCC 2 cut(s) 235, 342
AsuC2I CCSGG 1 cut(s) 786
AsuHPI GGTGA 2 cut(s) 527, 805
AvaII GGWCC 1 cut(s) 235
BaeI ACNNNNGTAYC 2 cut(s) 263, 296
BanII GRGCYC 1 cut(s) 447
BauI CACGAG 1 cut(s) 275
BbsI GAAGAC 1 cut(s) 423
Bbv12I GWGCWC 2 cut(s) 99, 161
BccI CCATC 4 cut(s) 214, 251, 623, 732
BceAI ACGGC 1 cut(s) 223
BcgI CGANNNNNNTGC 2 cut(s) 668, 702
BcnI CCSGG 1 cut(s) 786
BfaI CTAG 3 cut(s) 299, 735, 855
BfrI CTTAAG 1 cut(s) 814
BglII AGATCT 1 cut(s) 284
BlpI GCTNAGC 1 cut(s) 168
Bme1390I CCNGG 1 cut(s) 786
Bme18I GGWCC 1 cut(s) 235
BmgBI CACGTC 1 cut(s) 381
BmgT120I GGNCC 2 cut(s) 235, 342
BmiI GGNNCC 2 cut(s) 258, 444
BmrFI CCNGG 1 cut(s) 786
BmsI GCATC 3 cut(s) 484, 547, 582
BpiI GAAGAC 1 cut(s) 423
BplI GAGNNNNNCTC 4 cut(s) 143, 175, 331, 363
Bpu1102I GCTNAGC 1 cut(s) 168
BpuEI CTTGAG 2 cut(s) 121, 350
BpuMI CCSGG 1 cut(s) 786
BsaHI GRCGYC 1 cut(s) 810
BsaJI CCNNGG 1 cut(s) 267
Bsc4I CCNNNNNNNGG 2 cut(s) 253, 826
BseDI CCNNGG 1 cut(s) 267
BseGI GGATG 3 cut(s) 243, 538, 618
BseLI CCNNNNNNNGG 2 cut(s) 253, 826
BseRI GAGGAG 2 cut(s) 98, 455
BshFI GGCC 2 cut(s) 344, 410
BsiHKAI GWGCWC 2 cut(s) 99, 161
BsiSI CCGG 1 cut(s) 785
BslFI GGGAC 2 cut(s) 204, 670
BslI CCNNNNNNNGG 2 cut(s) 253, 826
BsmFI GGGAC 2 cut(s) 204, 670
BsnI GGCC 2 cut(s) 344, 410
Bsp1286I GDGCHC 3 cut(s) 99, 161, 447
Bsp143I GATC 4 cut(s) 28, 198, 284, 873
Bsp1720I GCTNAGC 1 cut(s) 168
BspACI CCGC 1 cut(s) 827
BspANI GGCC 2 cut(s) 344, 410
BspHI TCATGA 1 cut(s) 672
BspLI GGNNCC 2 cut(s) 258, 444
BspTI CTTAAG 1 cut(s) 814
BssECI CCNNGG 1 cut(s) 267
BssMI GATC 4 cut(s) 28, 198, 284, 873
BssNI GRCGYC 1 cut(s) 810
BssSI CACGAG 1 cut(s) 275
BssT1I CCWWGG 1 cut(s) 267
Bst2BI CACGAG 1 cut(s) 275
Bst4CI ACNGT 1 cut(s) 61
BstACI GRCGYC 1 cut(s) 810
BstAFI CTTAAG 1 cut(s) 814
BstC8I GCNNGC 1 cut(s) 212
BstDEI CTNAG 4 cut(s) 79, 168, 629, 719
BstF5I GGATG 3 cut(s) 243, 538, 618
BstKTI GATC 4 cut(s) 31, 201, 287, 876
BstMBI GATC 4 cut(s) 28, 198, 284, 873
BstMWI GCNNNNNNNGC 4 cut(s) 94, 178, 535, 833
BstSCI CCNGG 1 cut(s) 784
BstV2I GAAGAC 1 cut(s) 423
BstX2I RGATCY 1 cut(s) 284
BstYI RGATCY 1 cut(s) 284
BsuRI GGCC 2 cut(s) 344, 410
BtrI CACGTC 1 cut(s) 381
BtsCI GGATG 3 cut(s) 243, 538, 618
BtsI GCAGTG 1 cut(s) 313
BtsIMutI CAGTG 2 cut(s) 66, 313
Cac8I GCNNGC 1 cut(s) 212
CciI TCATGA 1 cut(s) 672
Cfr13I GGNCC 2 cut(s) 235, 342
CseI GACGC 2 cut(s) 591, 818
Csp6I GTAC 3 cut(s) 272, 485, 521
CviAII CATG 4 cut(s) 239, 526, 673, 772
CviQI GTAC 3 cut(s) 272, 485, 521
DdeI CTNAG 4 cut(s) 79, 168, 629, 719
DpnI GATC 4 cut(s) 30, 200, 286, 875
DpnII GATC 4 cut(s) 28, 198, 284, 873
EciI GGCGGA 1 cut(s) 842
Eco130I CCWWGG 1 cut(s) 267
Eco147I AGGCCT 1 cut(s) 410
Eco24I GRGCYC 1 cut(s) 447
Eco47I GGWCC 1 cut(s) 235
EcoT14I CCWWGG 1 cut(s) 267
EcoT38I GRGCYC 1 cut(s) 447
ErhI CCWWGG 1 cut(s) 267
FaeI CATG 4 cut(s) 242, 529, 676, 775
FalI AAGNNNNNCTT 2 cut(s) 146, 178
FaqI GGGAC 2 cut(s) 204, 670
FatI CATG 4 cut(s) 238, 525, 672, 771
FblI GTMKAC 2 cut(s) 45, 807
FokI GGATG 3 cut(s) 230, 525, 605
FriOI GRGCYC 1 cut(s) 447
FspBI CTAG 3 cut(s) 299, 735, 855
HaeIII GGCC 2 cut(s) 344, 410
HapII CCGG 1 cut(s) 785
HgaI GACGC 2 cut(s) 591, 818
Hin1I GRCGYC 1 cut(s) 810
Hin1II CATG 4 cut(s) 242, 529, 676, 775
HincII GTYRAC 1 cut(s) 808
HindII GTYRAC 1 cut(s) 808
HindIII AAGCTT 1 cut(s) 563
HpaII CCGG 1 cut(s) 785
HphI GGTGA 2 cut(s) 527, 805
Hpy166II GTNNAC 6 cut(s) 46, 274, 304, 487, 796, 808
Hpy188I TCNGA 3 cut(s) 502, 543, 726
Hpy188III TCNNGA 4 cut(s) 367, 404, 673, 751
Hpy8I GTNNAC 6 cut(s) 46, 274, 304, 487, 796, 808
Hpy99I CGWCG 2 cut(s) 585, 812
HpyAV CCTTC 5 cut(s) 169, 371, 421, 595, 783
HpyCH4III ACNGT 1 cut(s) 61
HpyCH4IV ACGT 2 cut(s) 380, 798
HpyCH4V TGCA 5 cut(s) 231, 529, 595, 689, 836
HpyF10VI GCNNNNNNNGC 4 cut(s) 94, 178, 535, 833
HpyF3I CTNAG 4 cut(s) 79, 168, 629, 719
HpySE526I ACGT 2 cut(s) 380, 798
Hsp92I GRCGYC 1 cut(s) 810
Hsp92II CATG 4 cut(s) 242, 529, 676, 775
Kzo9I GATC 4 cut(s) 28, 198, 284, 873
LmnI GCTCC 4 cut(s) 85, 164, 256, 442
LpnPI CCDG 2 cut(s) 764, 798
LweI GCATC 3 cut(s) 484, 547, 582
MaeI CTAG 3 cut(s) 299, 735, 855
MaeII ACGT 2 cut(s) 380, 798
MaeIII GTNAC 1 cut(s) 850
MalI GATC 4 cut(s) 30, 200, 286, 875
MboI GATC 4 cut(s) 28, 198, 284, 873
MboII GAAGA 2 cut(s) 428, 436
MflI RGATCY 1 cut(s) 284
MhlI GDGCHC 3 cut(s) 99, 161, 447
MluCI AATT 1 cut(s) 758
MmeI TCCRAC 1 cut(s) 539
MseI TTAA 3 cut(s) 353, 567, 815
MslI CAYNNNNRTG 2 cut(s) 62, 492
MspCI CTTAAG 1 cut(s) 814
MspI CCGG 1 cut(s) 785
MspR9I CCNGG 1 cut(s) 786
MwoI GCNNNNNNNGC 4 cut(s) 94, 178, 535, 833
NciI CCSGG 1 cut(s) 786
NdeII GATC 4 cut(s) 28, 198, 284, 873
NlaIII CATG 4 cut(s) 242, 529, 676, 775
NlaIV GGNNCC 2 cut(s) 258, 444
NmuCI GTSAC 1 cut(s) 850
OliI CACNNNNGTG 1 cut(s) 62
PagI TCATGA 1 cut(s) 672
PceI AGGCCT 1 cut(s) 410
PcsI WCGNNNNNNNCGW 1 cut(s) 804
PflFI GACNNNGTC 1 cut(s) 767
PspN4I GGNNCC 2 cut(s) 258, 444
PspPI GGNCC 2 cut(s) 235, 342
PsrI GAACNNNNNNTAC 2 cut(s) 122, 154
PsuI RGATCY 1 cut(s) 284
PsyI GACNNNGTC 1 cut(s) 767
RsaI GTAC 3 cut(s) 273, 486, 522
RsaNI GTAC 3 cut(s) 272, 485, 521
RseI CAYNNNNRTG 2 cut(s) 62, 492
SalI GTCGAC 1 cut(s) 806
SaqAI TTAA 3 cut(s) 353, 567, 815
Sau3AI GATC 4 cut(s) 28, 198, 284, 873
Sau96I GGNCC 2 cut(s) 235, 342
ScrFI CCNGG 1 cut(s) 786
SduI GDGCHC 3 cut(s) 99, 161, 447
SfaNI GCATC 3 cut(s) 484, 547, 582
SinI GGWCC 1 cut(s) 235
SmiMI CAYNNNNRTG 2 cut(s) 62, 492
SmlI CTYRAG 3 cut(s) 100, 365, 814
SmoI CTYRAG 3 cut(s) 100, 365, 814
Sse9I AATT 1 cut(s) 758
SseBI AGGCCT 1 cut(s) 410
SsiI CCGC 1 cut(s) 827
SspMI CTAG 3 cut(s) 299, 735, 855
StuI AGGCCT 1 cut(s) 410
StyD4I CCNGG 1 cut(s) 784
StyI CCWWGG 1 cut(s) 267
TaaI ACNGT 1 cut(s) 61
TaiI ACGT 2 cut(s) 383, 801
TaqI TCGA 2 cut(s) 324, 807
TaqII GACCGA 2 cut(s) 692, 770
TasI AATT 1 cut(s) 758
TatI WGTACW 1 cut(s) 520
Tru1I TTAA 3 cut(s) 353, 567, 815
Tru9I TTAA 3 cut(s) 353, 567, 815
TscAI CASTG 2 cut(s) 66, 320
TseFI GTSAC 1 cut(s) 850
Tsp45I GTSAC 1 cut(s) 850
TspDTI ATGAA 2 cut(s) 17, 310
TspRI CASTG 2 cut(s) 66, 320
Tth111I GACNNNGTC 1 cut(s) 767
Vha464I CTTAAG 1 cut(s) 814
VpaK11BI GGWCC 1 cut(s) 235
XapI RAATTY 1 cut(s) 758
XmiI GTMKAC 2 cut(s) 45, 807
XspI CTAG 3 cut(s) 299, 735, 855
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.