FvH4_2g13112

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000106
Physical Location & Seq
Forward (+)
11502463 .. 11503212
750 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g13112.t1

Sequence Viewer

Length: 750 bp
ATGTTTCCAACACCAATTGTTGCTGAAGATGCAGCAGACATCCCTCTTGCACAACAAGCTCCAATTCAACCAAATGTAAATGAAGAAATAGTTCATGAAGTGGAGAAAGAACCACATGAGGAAGTACCACATCCTCCATCTCCTCGAAGAAACCCTCCAAGGGTTAGACAACCACCACCAAGGCTCCAAGAGTATGTAACTTACTCTTCACGTTACCCTCTTGAGCTAGGACTTCATGGTGCCACCTCTACACATTGTGCTTTTTTAAGCAAAATTCTTATTGAGACTGAACCAAGGAGCTTTGATGAAGCCAATCAATCTCCCATATGGAGACAAGCTATGCATGACAAACTCCAAGCTCTTGATGATAACAAAACTTGGAGCATTGTCCCTCTTCCAAAAGGTCAAAAGCTAGTTGGAGCAAGATGGATCTACAAACTCAAGTATAACTTAGATGGTTCCCTTGAGCGTCATAAAGCAAGGTTAGTTGCTCGTGGCTTCACTCAAACATTTGGTGTTGATTATAAGGAGACCTTTGCTCCAGTTGCCAAAATGAATACAGTTCGAGTCTTATTGTCCATTGCTGTAAATGCTGGCTGGTCTCTTTATCAAATCGATGTCAAGAATGCTTTCTTGCATGGAGATCTAGAAGAAGATGTGTATATGAGATTGCCTCCTGGTCATCCTCGTGAAAAAGAAGTTGGCACGGTGTGTAAACTTCACAAGTTCACAAGGCACTATATGGATTGA
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
Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve

Protein Analysis

250

Amino Acids

28.5

Weight (kDa)

7.19

Isoelectric Point (pI)

56.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 124 - 242 5.4e-37 Reverse transcriptase (RNA-dependent DNA polymerase)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Orthologous Genes (Group: OG0000106)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G20980 AT3G21000
fragaria_vesca FvH4_1g15931 FvH4_1g15931 FvH4_1g18381 FvH4_1g18382 FvH4_1g22571 FvH4_1g24950 FvH4_1g29372 FvH4_2g03582 FvH4_2g09851 FvH4_2g13112 FvH4_2g20843 FvH4_2g22701 FvH4_2g22702 FvH4_2g23403 FvH4_2g40201 FvH4_3g03542 FvH4_3g03543 FvH4_3g04761 FvH4_3g10464 FvH4_3g12741 FvH4_3g15781 FvH4_3g30981 FvH4_4g00985 FvH4_4g07035 FvH4_4g08192 FvH4_4g08211 FvH4_4g08553 FvH4_4g14242 FvH4_4g14243 FvH4_4g14641 FvH4_4g14843 FvH4_4g14844 FvH4_4g15061 FvH4_4g16281 FvH4_4g19152 FvH4_4g26451 FvH4_5g06442 FvH4_5g22521 FvH4_5g24301 FvH4_5g38641 FvH4_6g02393 FvH4_6g12782 FvH4_6g13871 FvH4_6g19391 FvH4_6g20105 FvH4_6g21292 FvH4_6g23581 FvH4_6g29153 FvH4_6g29691 FvH4_6g30871 FvH4_6g33351 FvH4_6g37042 FvH4_6g38781 FvH4_6g40340 FvH4_7g11221 FvH4_7g23352 FvH4_7g23352 FvH4_7g31212 FvH4_7g32172 FvH4_7g32173 FvH4_7g33701
malus_domestica MD03G1006900.v1.1 MD04G1039100.v1.1 MD04G1239100.v1.1 MD05G1048700.v1.1 MD08G1001800.v1.1 MD09G1165800.v1.1 MD11G1065200.v1.1 MD11G1138200.v1.1 MD14G1033300.v1.1 MD14G1173900.v1.1 MD15G1218200.v1.1 MD16G1034000.v1.1
prunus_persica Prupe.1G219500_v2.0.a1 Prupe.2G169400_v2.0.a1 Prupe.4G109700_v2.0.a1 Prupe.7G022000_v2.0.a1
pyrus_communis pycom01g02000 pycom02g13350 pycom03g01010 pycom04g05000 pycom04g06100 pycom05g05580 pycom05g09950 pycom05g13280 pycom05g26610 pycom06g05940 pycom06g07760 pycom07g06120 pycom07g24780 pycom08g08820 pycom09g03600 pycom09g07200 pycom10g01280 pycom10g06730 pycom10g08410 pycom10g25520 pycom11g00470 pycom11g05250 pycom11g25180 pycom12g08050 pycom13g14760 pycom13g28170 pycom15g14310 pycom15g19880 pycom15g24230 pycom15g33640 pycom16g02150 pycom16g16240 pycom16g20050 pycom16g21090 pycom17g06100
rosa_chinensis RchiOBHm_Chr1g0322161 RchiOBHm_Chr1g0326341 RchiOBHm_Chr1g0357701 RchiOBHm_Chr1g0379861 RchiOBHm_Chr1g0383421 RchiOBHm_Chr2g0093981 RchiOBHm_Chr2g0139051 RchiOBHm_Chr2g0145501 RchiOBHm_Chr3g0450971 RchiOBHm_Chr3g0451441 RchiOBHm_Chr3g0457411 RchiOBHm_Chr4g0436261 RchiOBHm_Chr5g0051431 RchiOBHm_Chr5g0064031 RchiOBHm_Chr5g0073141 RchiOBHm_Chr5g0080061 RchiOBHm_Chr7g0200561 RchiOBHm_Chr7g0235911
rosa_laevigata RLG00000000145 RLG00000000429 RLG00000020339 RLG00000035212
rosa_multiflora Rmu_co7977988.1_g000001 Rmu_co8037866.1_g000001 Rmu_co8243895.1_g000001 Rmu_co8363787.1_g000001 Rmu_co8381003.1_g000001 Rmu_sc0000263.1_g000006 Rmu_sc0000349.1_g000002 Rmu_sc0000455.1_g000031 Rmu_sc0000936.1_g000022 Rmu_sc0001035.1_g000023 Rmu_sc0001169.1_g000019 Rmu_sc0001250.1_g000026 Rmu_sc0002200.1_g000051 Rmu_sc0002230.1_g000027 Rmu_sc0002591.1_g000039 Rmu_sc0003182.1_g000003 Rmu_sc0003441.1_g000068 Rmu_sc0003722.1_g000018 Rmu_sc0003764.1_g000007 Rmu_sc0006014.1_g000016 Rmu_sc0012582.1_g000002 Rmu_sc0013519.1_g000002 Rmu_sc0014550.1_g000005 Rmu_sc0014857.1_g000007 Rmu_sc0019855.1_g000001 Rmu_sc0030839.1_g000001 Rmu_sc0031308.1_g000001
rosa_roxburghii Rroxscaffold_1G00011290 Rroxscaffold_1G00041340 Rroxscaffold_1G00053780 Rroxscaffold_1G00059130 Rroxscaffold_1G00061580 Rroxscaffold_2G00080940 Rroxscaffold_2G00109540 Rroxscaffold_3G00228400 Rroxscaffold_3G00237710 Rroxscaffold_4G00285210 Rroxscaffold_4G00299600 Rroxscaffold_4G00324940 Rroxscaffold_4G00330580 Rroxscaffold_5G00333000 Rroxscaffold_5G00347920 Rroxscaffold_5G00375310 Rroxscaffold_6G00394760 Rroxscaffold_6G00406260 Rroxscaffold_7G00165690 Rroxscaffold_7G00187680
rosa_rugosa Rorug01G0050200 Rorug02G0273800 Rorug06G0490600 Rorug06G0490600 Rorug06G0490700
rosa_samantha Rh1AG348400 Rh5AG222600 Rh6DG000500 Rh6DG194500 Rh7BG452700
rosa_wichuraiana Rw0G003060 Rw0G010530 Rw0G012970 Rw0G022560 Rw0G023390 Rw1G001270 Rw1G001530 Rw1G006070 Rw1G008210 Rw1G022090 Rw1G023320 Rw2G003790 Rw2G004140 Rw2G005280 Rw2G006460 Rw2G019620 Rw2G019840 Rw2G022530 Rw2G023280 Rw2G024990 Rw2G042380 Rw2G051390 Rw3G001640 Rw3G016720 Rw3G017100 Rw3G020890 Rw3G020900 Rw3G021100 Rw4G004820 Rw4G014950 Rw4G030920 Rw4G031400 Rw5G008500 Rw5G017950 Rw5G020170 Rw5G030160 Rw5G033050 Rw5G034640 Rw5G043920 Rw6G005060 Rw6G005540 Rw6G006720 Rw6G008460 Rw6G008670 Rw6G014780 Rw6G019100 Rw6G019350 Rw6G026310 Rw7G016810 Rw7G019180 Rw7G022890 Rw7G025880 Rw7G026390 Rw7G028340 Rw7G034850 Rw7G035170 Rw7G035420 Rw7G037990 Rw7G041560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 525
AccB1I GGYRCC 1 cut(s) 239
AclWI GGATC 1 cut(s) 437
AcsI RAATTY 1 cut(s) 273
AcuI CTGAAG 1 cut(s) 45
AdeI CACNNNGTG 2 cut(s) 257, 711
AfaI GTAC 1 cut(s) 126
AfiI CCNNNNNNNGG 1 cut(s) 160
AgsI TTSAA 1 cut(s) 68
AjnI CCWGG 1 cut(s) 676
AjuI GAANNNNNNNTTGG 2 cut(s) 684, 716
AluBI AGCT 6 cut(s) 59, 226, 300, 338, 359, 412
AluI AGCT 6 cut(s) 59, 226, 300, 338, 359, 412
Alw26I GTCTC 4 cut(s) 278, 325, 524, 606
AlwI GGATC 1 cut(s) 437
ApeKI GCWGC 1 cut(s) 32
ApoI RAATTY 1 cut(s) 273
Asp700I GAANNNNTTC 2 cut(s) 90, 629
BanI GGYRCC 1 cut(s) 239
BauI CACGAG 2 cut(s) 492, 687
BbvI GCAGC 1 cut(s) 44
BccI CCATC 3 cut(s) 145, 420, 449
BciT130I CCWGG 1 cut(s) 678
BcoDI GTCTC 4 cut(s) 278, 325, 524, 606
BfaI CTAG 3 cut(s) 227, 413, 647
BglII AGATCT 1 cut(s) 643
BisI GCNGC 1 cut(s) 33
BlsI GCNGC 1 cut(s) 34
Bme1390I CCNGG 1 cut(s) 678
BmiI GGNNCC 3 cut(s) 185, 241, 460
BmrFI CCNGG 1 cut(s) 678
BmsI GCATC 1 cut(s) 19
BplI GAGNNNNNCTC 2 cut(s) 658, 690
BpmI CTGGAG 1 cut(s) 525
BpuEI CTTGAG 3 cut(s) 242, 425, 485
Bsa29I ATCGAT 1 cut(s) 615
BsaI GGTCTC 2 cut(s) 524, 606
BsaJI CCNNGG 3 cut(s) 158, 179, 293
BsaXI ACNNNNNCTCC 4 cut(s) 168, 198, 523, 553
Bsc4I CCNNNNNNNGG 1 cut(s) 160
Bse1I ACTGG 1 cut(s) 542
Bse3DI GCAATG 1 cut(s) 579
BseBI CCWGG 1 cut(s) 678
BseCI ATCGAT 1 cut(s) 615
BseDI CCNNGG 3 cut(s) 158, 179, 293
BseGI GGATG 3 cut(s) 39, 130, 682
BseLI CCNNNNNNNGG 1 cut(s) 160
BseMI GCAATG 1 cut(s) 579
BseNI ACTGG 1 cut(s) 542
BseRI GAGGAG 1 cut(s) 132
BseXI GCAGC 1 cut(s) 44
BshNI GGYRCC 1 cut(s) 239
BshVI ATCGAT 1 cut(s) 615
BslFI GGGAC 1 cut(s) 374
BslI CCNNNNNNNGG 1 cut(s) 160
BsmAI GTCTC 4 cut(s) 278, 325, 524, 606
BsmFI GGGAC 1 cut(s) 374
BsmI GAATGC 1 cut(s) 631
Bso31I GGTCTC 2 cut(s) 524, 606
Bsp143I GATC 2 cut(s) 429, 643
BspDI ATCGAT 1 cut(s) 615
BspHI TCATGA 1 cut(s) 94
BspLI GGNNCC 3 cut(s) 185, 241, 460
BspPI GGATC 1 cut(s) 437
BspT107I GGYRCC 1 cut(s) 239
BspTNI GGTCTC 2 cut(s) 524, 606
BsrDI GCAATG 1 cut(s) 579
BsrI ACTGG 1 cut(s) 542
BssECI CCNNGG 3 cut(s) 158, 179, 293
BssMI GATC 2 cut(s) 429, 643
BssSI CACGAG 2 cut(s) 492, 687
BssT1I CCWWGG 3 cut(s) 158, 179, 293
Bst2BI CACGAG 2 cut(s) 492, 687
Bst2UI CCWGG 1 cut(s) 678
Bst4CI ACNGT 2 cut(s) 562, 709
Bst6I CTCTTC 2 cut(s) 211, 399
BstC8I GCNNGC 1 cut(s) 595
BstDEI CTNAG 1 cut(s) 451
BstF5I GGATG 3 cut(s) 39, 130, 682
BstKTI GATC 2 cut(s) 432, 646
BstMAI GTCTC 4 cut(s) 278, 325, 524, 606
BstMBI GATC 2 cut(s) 429, 643
BstMWI GCNNNNNNNGC 4 cut(s) 29, 56, 545, 590
BstNI CCWGG 1 cut(s) 678
BstSCI CCNGG 1 cut(s) 676
BstV1I GCAGC 1 cut(s) 44
BstX2I RGATCY 2 cut(s) 429, 643
BstYI RGATCY 2 cut(s) 429, 643
Bsu15I ATCGAT 1 cut(s) 615
BsuTUI ATCGAT 1 cut(s) 615
BtsCI GGATG 3 cut(s) 39, 130, 682
Cac8I GCNNGC 1 cut(s) 595
CciI TCATGA 1 cut(s) 94
ClaI ATCGAT 1 cut(s) 615
CseI GACGC 1 cut(s) 458
Csp6I GTAC 1 cut(s) 125
CviAII CATG 5 cut(s) 95, 116, 236, 344, 638
CviQI GTAC 1 cut(s) 125
DdeI CTNAG 1 cut(s) 451
DpnI GATC 2 cut(s) 431, 645
DpnII GATC 2 cut(s) 429, 643
DraIII CACNNNGTG 2 cut(s) 257, 711
Eam1104I CTCTTC 2 cut(s) 211, 399
EarI CTCTTC 2 cut(s) 211, 399
Eco130I CCWWGG 3 cut(s) 158, 179, 293
Eco31I GGTCTC 2 cut(s) 524, 606
Eco57I CTGAAG 1 cut(s) 45
EcoRII CCWGG 1 cut(s) 676
EcoT14I CCWWGG 3 cut(s) 158, 179, 293
EcoT22I ATGCAT 1 cut(s) 345
ErhI CCWWGG 3 cut(s) 158, 179, 293
FaeI CATG 5 cut(s) 98, 119, 239, 347, 641
FalI AAGNNNNNCTT 4 cut(s) 434, 466, 518, 550
FaqI GGGAC 1 cut(s) 374
FatI CATG 5 cut(s) 94, 115, 235, 343, 637
FauNDI CATATG 1 cut(s) 326
Fnu4HI GCNGC 1 cut(s) 33
FokI GGATG 3 cut(s) 26, 117, 669
Fsp4HI GCNGC 1 cut(s) 33
FspBI CTAG 3 cut(s) 227, 413, 647
GluI GCNGC 1 cut(s) 33
GsuI CTGGAG 1 cut(s) 525
HgaI GACGC 1 cut(s) 458
Hin1II CATG 5 cut(s) 98, 119, 239, 347, 641
HinfI GANTC 1 cut(s) 567
Hpy166II GTNNAC 2 cut(s) 716, 729
Hpy188III TCNNGA 6 cut(s) 95, 221, 362, 622, 647, 689
Hpy8I GTNNAC 2 cut(s) 716, 729
HpyCH4III ACNGT 2 cut(s) 562, 709
HpyCH4IV ACGT 1 cut(s) 211
HpyCH4V TGCA 4 cut(s) 32, 50, 343, 637
HpyF10VI GCNNNNNNNGC 4 cut(s) 29, 56, 545, 590
HpyF3I CTNAG 1 cut(s) 451
HpySE526I ACGT 1 cut(s) 211
Hsp92II CATG 5 cut(s) 98, 119, 239, 347, 641
Kzo9I GATC 2 cut(s) 429, 643
LmnI GCTCC 6 cut(s) 64, 189, 297, 381, 419, 544
LpnPI CCDG 5 cut(s) 555, 579, 583, 663, 690
Lsp1109I GCAGC 1 cut(s) 44
LweI GCATC 1 cut(s) 19
MaeI CTAG 3 cut(s) 227, 413, 647
MaeII ACGT 1 cut(s) 211
MaeIII GTNAC 2 cut(s) 196, 212
MalI GATC 2 cut(s) 431, 645
MboI GATC 2 cut(s) 429, 643
MboII GAAGA 7 cut(s) 38, 95, 159, 198, 386, 662, 665
MfeI CAATTG 1 cut(s) 15
MflI RGATCY 2 cut(s) 429, 643
MluCI AATT 3 cut(s) 15, 63, 273
MlyI GAGTC 1 cut(s) 576
MmeI TCCRAC 2 cut(s) 32, 397
Mph1103I ATGCAT 1 cut(s) 345
MroXI GAANNNNTTC 2 cut(s) 90, 629
MseI TTAA 1 cut(s) 266
MslI CAYNNNNRTG 1 cut(s) 687
MspR9I CCNGG 1 cut(s) 678
MunI CAATTG 1 cut(s) 15
Mva1269I GAATGC 1 cut(s) 631
MvaI CCWGG 1 cut(s) 678
MwoI GCNNNNNNNGC 4 cut(s) 29, 56, 545, 590
NdeI CATATG 1 cut(s) 326
NdeII GATC 2 cut(s) 429, 643
NlaIII CATG 5 cut(s) 98, 119, 239, 347, 641
NlaIV GGNNCC 3 cut(s) 185, 241, 460
NsiI ATGCAT 1 cut(s) 345
PagI TCATGA 1 cut(s) 94
PctI GAATGC 1 cut(s) 631
PdmI GAANNNNTTC 2 cut(s) 90, 629
PkrI GCNGC 1 cut(s) 34
PleI GAGTC 1 cut(s) 575
PpsI GAGTC 1 cut(s) 575
PsiI TTATAA 1 cut(s) 525
Psp6I CCWGG 1 cut(s) 676
PspGI CCWGG 1 cut(s) 676
PspN4I GGNNCC 3 cut(s) 185, 241, 460
PsuI RGATCY 2 cut(s) 429, 643
RsaI GTAC 1 cut(s) 126
RsaNI GTAC 1 cut(s) 125
RseI CAYNNNNRTG 1 cut(s) 687
SaqAI TTAA 1 cut(s) 266
SatI GCNGC 1 cut(s) 33
Sau3AI GATC 2 cut(s) 429, 643
SchI GAGTC 1 cut(s) 576
ScrFI CCNGG 1 cut(s) 678
SfaNI GCATC 1 cut(s) 19
SmiMI CAYNNNNRTG 1 cut(s) 687
SmlI CTYRAG 3 cut(s) 221, 440, 464
SmoI CTYRAG 3 cut(s) 221, 440, 464
Sse9I AATT 3 cut(s) 15, 63, 273
SspMI CTAG 3 cut(s) 227, 413, 647
StyD4I CCNGG 1 cut(s) 676
StyI CCWWGG 3 cut(s) 158, 179, 293
TaaI ACNGT 2 cut(s) 562, 709
TaiI ACGT 1 cut(s) 214
TaqI TCGA 3 cut(s) 145, 565, 615
TasI AATT 3 cut(s) 15, 63, 273
Tru1I TTAA 1 cut(s) 266
Tru9I TTAA 1 cut(s) 266
TseI GCWGC 1 cut(s) 32
TspDTI ATGAA 6 cut(s) 83, 96, 111, 224, 321, 569
XapI RAATTY 1 cut(s) 273
XbaI TCTAGA 1 cut(s) 646
XmnI GAANNNNTTC 2 cut(s) 90, 629
XspI CTAG 3 cut(s) 227, 413, 647
Zsp2I ATGCAT 1 cut(s) 345
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.