FvH4_4g13942

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0000094
Physical Location & Seq
Reverse (-)
17492456 .. 17493374
919 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g13942.t1

Sequence Viewer

Length: 819 bp
ATGGAGGAAGCTCATAGCTCTGCATATGCTGCTCATCCGGGTAGCACAAAAATGTATCGGATTTTGAAGGATTATTATTGGTGGCCAAACATGAAGAGGGAAATTGCAGCTTACGTGAGTAGATGTCTGATTTGTCAGCAAGTCAAGGCTGAAAGGCAGAAGCCTTCTGGTTTGCTTGAGCCGTTGCCTATTCCAGTGTGGAAGTGGGACCACATCACCATGGATTTTGTTTTTAGCTTACCTCGTACCCGTGATGGGCATGACGGTATTTGGGTGATTGTGGATAGACTCACCAAGTCTGCACATTTCTTGCCAGTGGGAAAGAAGTATAAATTGGATAAATTGGCGGAGCTTTATGTGAATGAAATTACTGATGGGCAGTCCGAGAGGACTATTCAGACTTTGGAGGATATGTTGAGGGCTTGTGTCATGCAGTTCAAAGGGAGTTGGGATAAGAACCTATCTTTGATGGAATTTGCCTATAATAATAGCTATCATTCTAGCATTGGTATGGCTCCCTTTGAGGCTCTTTATGGGAGGCAGTGTCACACGCCTTTGTGTTGGAATGAAGTGGGGGAAAAAGAGCTTTGTGGCCCAAAGTTAATCCATGTTACGAATGAGAAGATTAAAGTGGTTAGAGATAGACTCAAGACTGCTCAAAGTAGGCAGAAGAGTTATGCAGATGTCCGTAGGAGAGATCTTGAATTTCAAGTGGGTGATTGGGTGTTCCTGAAATTATCTCCTTGGAAAGGGGTTGTGCGCTTCGGGAAGCGTGGGAAGCTTAGCCCGAGGTATATTGGCCCGTATGAGATAATATAG
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

273

Amino Acids

31.73

Weight (kDa)

9.3

Isoelectric Point (pI)

35.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Integrase_H2C2 PF17921 1 - 50 2.2e-18 Integrase zinc binding domain
SH3_Tf2-1 PF24626 239 - 272 1e-08 Tf2-1-like, SH3 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: 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)
AciI CCGC 1 cut(s) 347
AcoI YGGCCR 1 cut(s) 83
AcsI RAATTY 2 cut(s) 473, 704
AfaI GTAC 1 cut(s) 247
AfiI CCNNNNNNNGG 2 cut(s) 255, 749
AgsI TTSAA 4 cut(s) 67, 439, 704, 710
AjuI GAANNNNNNNTTGG 2 cut(s) 317, 349
AluBI AGCT 8 cut(s) 11, 18, 110, 237, 352, 492, 586, 781
AluI AGCT 8 cut(s) 11, 18, 110, 237, 352, 492, 586, 781
Ama87I CYCGRG 1 cut(s) 787
AoxI GGCC 3 cut(s) 83, 592, 799
ApeKI GCWGC 2 cut(s) 29, 107
ApoI RAATTY 2 cut(s) 473, 704
AspLEI GCGC 1 cut(s) 762
AspS9I GGNCC 3 cut(s) 208, 593, 800
AsuC2I CCSGG 1 cut(s) 39
AsuHPI GGTGA 4 cut(s) 208, 283, 286, 728
AvaI CYCGRG 1 cut(s) 787
AvaII GGWCC 1 cut(s) 208
BalI TGGCCA 1 cut(s) 85
BbvI GCAGC 2 cut(s) 16, 119
BccI CCATC 3 cut(s) 248, 368, 463
BceAI ACGGC 1 cut(s) 166
BcnI CCSGG 1 cut(s) 39
BfaI CTAG 1 cut(s) 501
BglII AGATCT 1 cut(s) 697
BisI GCNGC 2 cut(s) 30, 108
BlpI GCTNAGC 1 cut(s) 782
BlsI GCNGC 2 cut(s) 31, 109
Bme1390I CCNGG 1 cut(s) 39
Bme18I GGWCC 1 cut(s) 208
BmeT110I CYCGRG 1 cut(s) 787
BmgT120I GGNCC 3 cut(s) 208, 593, 800
BmiI GGNNCC 2 cut(s) 209, 516
BmrFI CCNGG 1 cut(s) 39
BplI GAGNNNNNCTC 2 cut(s) 630, 662
Bpu1102I GCTNAGC 1 cut(s) 782
BpuEI CTTGAG 2 cut(s) 197, 632
BpuMI CCSGG 1 cut(s) 39
BsaAI YACGTR 1 cut(s) 115
BsaJI CCNNGG 3 cut(s) 219, 743, 788
BsaXI ACNNNNNCTCC 4 cut(s) 398, 428, 529, 559
Bsc4I CCNNNNNNNGG 2 cut(s) 255, 749
Bse1I ACTGG 2 cut(s) 194, 314
BseDI CCNNGG 3 cut(s) 219, 743, 788
BseGI GGATG 1 cut(s) 34
BseLI CCNNNNNNNGG 2 cut(s) 255, 749
BseNI ACTGG 2 cut(s) 194, 314
BseXI GCAGC 2 cut(s) 16, 119
BsgI GTGCAG 1 cut(s) 285
BshFI GGCC 3 cut(s) 85, 594, 801
BsiHKCI CYCGRG 1 cut(s) 787
BsiSI CCGG 1 cut(s) 38
BslFI GGGAC 1 cut(s) 221
BslI CCNNNNNNNGG 2 cut(s) 255, 749
BsmFI GGGAC 1 cut(s) 221
BsnI GGCC 3 cut(s) 85, 594, 801
BsoBI CYCGRG 1 cut(s) 787
Bsp143I GATC 1 cut(s) 697
Bsp1720I GCTNAGC 1 cut(s) 782
Bsp19I CCATGG 1 cut(s) 219
BspACI CCGC 1 cut(s) 347
BspANI GGCC 3 cut(s) 85, 594, 801
BspLI GGNNCC 2 cut(s) 209, 516
BsrI ACTGG 2 cut(s) 194, 314
BssECI CCNNGG 3 cut(s) 219, 743, 788
BssMI GATC 1 cut(s) 697
BssT1I CCWWGG 2 cut(s) 219, 743
Bst4CI ACNGT 1 cut(s) 266
Bst6I CTCTTC 2 cut(s) 89, 665
BstAPI GCANNNNNTGC 1 cut(s) 29
BstBAI YACGTR 1 cut(s) 115
BstDEI CTNAG 1 cut(s) 782
BstDSI CCRYGG 1 cut(s) 219
BstENI CCTNNNNNAGG 1 cut(s) 747
BstF5I GGATG 1 cut(s) 34
BstHHI GCGC 1 cut(s) 762
BstKTI GATC 1 cut(s) 700
BstMBI GATC 1 cut(s) 697
BstMWI GCNNNNNNNGC 2 cut(s) 29, 778
BstSCI CCNGG 1 cut(s) 37
BstV1I GCAGC 2 cut(s) 16, 119
BstX2I RGATCY 1 cut(s) 697
BstYI RGATCY 1 cut(s) 697
BsuRI GGCC 3 cut(s) 85, 594, 801
BtgI CCRYGG 1 cut(s) 219
BtsCI GGATG 1 cut(s) 34
BtsI GCAGTG 1 cut(s) 548
BtsIMutI CAGTG 3 cut(s) 201, 321, 548
CfoI GCGC 1 cut(s) 762
Cfr13I GGNCC 3 cut(s) 208, 593, 800
Csp6I GTAC 1 cut(s) 246
CviAII CATG 5 cut(s) 91, 220, 260, 430, 608
CviQI GTAC 1 cut(s) 246
DdeI CTNAG 1 cut(s) 782
DpnI GATC 1 cut(s) 699
DpnII GATC 1 cut(s) 697
EaeI YGGCCR 1 cut(s) 83
Eam1104I CTCTTC 2 cut(s) 89, 665
EarI CTCTTC 2 cut(s) 89, 665
EciI GGCGGA 1 cut(s) 362
Eco130I CCWWGG 2 cut(s) 219, 743
Eco47I GGWCC 1 cut(s) 208
Eco88I CYCGRG 1 cut(s) 787
EcoNI CCTNNNNNAGG 1 cut(s) 747
EcoT14I CCWWGG 2 cut(s) 219, 743
ErhI CCWWGG 2 cut(s) 219, 743
FaeI CATG 5 cut(s) 94, 223, 263, 433, 611
FaqI GGGAC 1 cut(s) 221
FatI CATG 5 cut(s) 90, 219, 259, 429, 607
FauNDI CATATG 1 cut(s) 25
Fnu4HI GCNGC 2 cut(s) 30, 108
FokI GGATG 1 cut(s) 21
Fsp4HI GCNGC 2 cut(s) 30, 108
FspBI CTAG 1 cut(s) 501
GlaI GCGC 1 cut(s) 761
GluI GCNGC 2 cut(s) 30, 108
HaeIII GGCC 3 cut(s) 85, 594, 801
HapII CCGG 1 cut(s) 38
HhaI GCGC 1 cut(s) 762
Hin1II CATG 5 cut(s) 94, 223, 263, 433, 611
Hin6I GCGC 1 cut(s) 760
HinP1I GCGC 1 cut(s) 760
HindIII AAGCTT 1 cut(s) 779
HinfI GANTC 2 cut(s) 288, 645
HpaII CCGG 1 cut(s) 38
HphI GGTGA 4 cut(s) 208, 283, 286, 728
Hpy188I TCNGA 4 cut(s) 60, 129, 385, 399
Hpy188III TCNNGA 4 cut(s) 649, 701, 730, 766
HpyAV CCTTC 2 cut(s) 61, 174
HpyCH4III ACNGT 1 cut(s) 266
HpyCH4IV ACGT 1 cut(s) 114
HpyCH4V TGCA 5 cut(s) 23, 107, 302, 433, 680
HpyF10VI GCNNNNNNNGC 2 cut(s) 29, 778
HpyF3I CTNAG 1 cut(s) 782
HpySE526I ACGT 1 cut(s) 114
Hsp92II CATG 5 cut(s) 94, 223, 263, 433, 611
HspAI GCGC 1 cut(s) 760
Kzo9I GATC 1 cut(s) 697
LmnI GCTCC 2 cut(s) 349, 520
LpnPI CCDG 5 cut(s) 51, 153, 207, 327, 743
Lsp1109I GCAGC 2 cut(s) 16, 119
MaeI CTAG 1 cut(s) 501
MaeII ACGT 1 cut(s) 114
MaeIII GTNAC 2 cut(s) 545, 610
MalI GATC 1 cut(s) 699
MboI GATC 1 cut(s) 697
MboII GAAGA 3 cut(s) 106, 634, 682
MflI RGATCY 1 cut(s) 697
MlsI TGGCCA 1 cut(s) 85
MluCI AATT 7 cut(s) 102, 332, 341, 366, 473, 704, 734
MluNI TGGCCA 1 cut(s) 85
MlyI GAGTC 2 cut(s) 282, 639
MmeI TCCRAC 1 cut(s) 542
MnlI CCTC 8 cut(s) 90, 252, 381, 400, 411, 517, 531, 783
Mox20I TGGCCA 1 cut(s) 85
MscI TGGCCA 1 cut(s) 85
MseI TTAA 2 cut(s) 602, 627
MslI CAYNNNNRTG 3 cut(s) 50, 218, 509
Msp20I TGGCCA 1 cut(s) 85
MspI CCGG 1 cut(s) 38
MspR9I CCNGG 1 cut(s) 39
MwoI GCNNNNNNNGC 2 cut(s) 29, 778
NciI CCSGG 1 cut(s) 39
NcoI CCATGG 1 cut(s) 219
NdeI CATATG 1 cut(s) 25
NdeII GATC 1 cut(s) 697
NlaIII CATG 5 cut(s) 94, 223, 263, 433, 611
NlaIV GGNNCC 2 cut(s) 209, 516
NmuCI GTSAC 1 cut(s) 545
PkrI GCNGC 2 cut(s) 31, 109
PleI GAGTC 2 cut(s) 282, 639
PpsI GAGTC 2 cut(s) 282, 639
Ppu21I YACGTR 1 cut(s) 115
PspN4I GGNNCC 2 cut(s) 209, 516
PspPI GGNCC 3 cut(s) 208, 593, 800
PsuI RGATCY 1 cut(s) 697
RsaI GTAC 1 cut(s) 247
RsaNI GTAC 1 cut(s) 246
RseI CAYNNNNRTG 3 cut(s) 50, 218, 509
SaqAI TTAA 2 cut(s) 602, 627
SatI GCNGC 2 cut(s) 30, 108
Sau3AI GATC 1 cut(s) 697
Sau96I GGNCC 3 cut(s) 208, 593, 800
SchI GAGTC 2 cut(s) 282, 639
ScrFI CCNGG 1 cut(s) 39
SinI GGWCC 1 cut(s) 208
SmiMI CAYNNNNRTG 3 cut(s) 50, 218, 509
SmlI CTYRAG 2 cut(s) 176, 647
SmoI CTYRAG 2 cut(s) 176, 647
Sse9I AATT 7 cut(s) 102, 332, 341, 366, 473, 704, 734
SsiI CCGC 1 cut(s) 347
SspMI CTAG 1 cut(s) 501
StyD4I CCNGG 1 cut(s) 37
StyI CCWWGG 2 cut(s) 219, 743
TaaI ACNGT 1 cut(s) 266
TaiI ACGT 1 cut(s) 117
TasI AATT 7 cut(s) 102, 332, 341, 366, 473, 704, 734
Tru1I TTAA 2 cut(s) 602, 627
Tru9I TTAA 2 cut(s) 602, 627
TscAI CASTG 3 cut(s) 201, 321, 548
TseFI GTSAC 1 cut(s) 545
TseI GCWGC 2 cut(s) 29, 107
Tsp45I GTSAC 1 cut(s) 545
TspDTI ATGAA 3 cut(s) 107, 378, 582
TspGWI ACGGA 1 cut(s) 677
TspRI CASTG 3 cut(s) 201, 321, 548
VpaK11BI GGWCC 1 cut(s) 208
XagI CCTNNNNNAGG 1 cut(s) 747
XapI RAATTY 2 cut(s) 473, 704
XcmI CCANNNNNNNNNTGG 1 cut(s) 201
XspI CTAG 1 cut(s) 501
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.