Rmu_sc0003629.1_g000050

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003629.1
OG0000181
Physical Location & Seq
Reverse (-)
224843 .. 228816
3974 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003629.1_g000050.1.cds

Sequence Viewer

Length: 855 bp
atgtctcttggaaaagcagcgaagatcgacaatgtggagcgaatatcgaccagtcacaaagatcgtcggtttaaattggaaaaagcagctaaagagcgggttctctctaagaattttcctgatgtgtctttgtcggatgaggtaaaaaacagtttggtggaaaagttaggaaactctttttgggcattcgtagaagatgattcgttggaagatgaagtagaggatttgttggtatgtgaagaaaaggctttgttggaacatgaagaaaaggctgtgttggacgagctagccaaggcaaatttggaagaggaagaaaaggcttctggtaccaattcagtaggagacaagaaaccttctttcacaggtatagactatgaaagtgcatatccagacgacactgactctgatcaagaatttcttaaagatcttgattgcgcacctatcggagatgaaatggattggggagtttgtagagtttgtttgaaggaaaatgagcaccatttttcacattgcccgtaccttttctttggtgtcccggacggcgcaactattggacctgggtatgcattagcctgcaaggaatgttatgaggtggatggccaccctgacagaccctgggaagcgatcgctgttagaagggtgtgcgacttttgcatatggcgtgcacattggactgaagactgcccatatcaggtaattagatcattcaaatttgcgttcaaattcaagatcttcatattctttgctgaagggaagactgcggattttgagctcaggagtggactattgcataggctctctgtgtttcatggccttagtgaggtggacgctaacaagcatctacgagaattctag
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 RVT_1 Retrotrans_gag rve

Protein Analysis

284

Amino Acids

32.41

Weight (kDa)

4.85

Isoelectric Point (pI)

28.23

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000181)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02310 FvH4_1g02340 FvH4_1g02340 FvH4_1g02340 FvH4_3g13110 FvH4_4g04530 FvH4_5g26960 FvH4_5g26990 FvH4_6g01091 FvH4_6g08071 FvH4_6g19630 FvH4_6g38111 FvH4_6g38112 FvH4_6g48801 FvH4_6g48810 FvH4_6g48861 FvH4_6g49020 FvH4_6g49040 FvH4_6g49040 FvH4_6g49060 FvH4_6g49070 FvH4_6g49070 FvH4_6g49870 FvH4_6g49880
malus_domestica MD05G1007300.v1.1 MD05G1007600.v1.1 MD08G1121900.v1.1 MD08G1122000.v1.1 MD08G1122200.v1.1 MD08G1122700.v1.1
prunus_persica Prupe.1G019700_v2.0.a1 Prupe.1G019700_v2.0.a1 Prupe.1G019700_v2.0.a1 Prupe.1G019700_v2.0.a1 Prupe.1G019700_v2.0.a1 Prupe.1G187100_v2.0.a1 Prupe.2G227700_v2.0.a1 Prupe.2G227800_v2.0.a1 Prupe.2G227900_v2.0.a1 Prupe.4G043000_v2.0.a1 Prupe.4G046400_v2.0.a1 Prupe.4G077400_v2.0.a1 Prupe.4G077500_v2.0.a1 Prupe.4G159200_v2.0.a1 Prupe.4G159300_v2.0.a1 Prupe.4G159500_v2.0.a1 Prupe.6G311400_v2.0.a1 Prupe.6G311400_v2.0.a1
pyrus_communis pycom05g00390 pycom07g27750 pycom08g10150 pycom08g10170
rosa_chinensis RchiOBHm_Chr1g0328161 RchiOBHm_Chr1g0372961 RchiOBHm_Chr2g0131001 RchiOBHm_Chr2g0151211 RchiOBHm_Chr2g0151231 RchiOBHm_Chr2g0151281 RchiOBHm_Chr2g0151321 RchiOBHm_Chr2g0170041 RchiOBHm_Chr3g0457761 RchiOBHm_Chr3g0457871 RchiOBHm_Chr5g0014841 RchiOBHm_Chr5g0021371 RchiOBHm_Chr5g0038581 RchiOBHm_Chr5g0038691 RchiOBHm_Chr5g0038761 RchiOBHm_Chr6g0246131 RchiOBHm_Chr6g0246181
rosa_laevigata RLG00000015270 RLG00000020541 RLG00000021919 RLG00000025188 RLG00000032146 RLG00000032147 RLG00000032607 RLG00000033860
rosa_multiflora Rmu_sc0001102.1_g000003 Rmu_sc0002298.1_g000007 Rmu_sc0002516.1_g000005 Rmu_sc0002516.1_g000013 Rmu_sc0003629.1_g000050 Rmu_sc0023055.1_g000001
rosa_roxburghii Rroxscaffold_1G00042380 Rroxscaffold_1G00042450 Rroxscaffold_1G00042460 Rroxscaffold_1G00042550 Rroxscaffold_1G00061700 Rroxscaffold_1G00061730 Rroxscaffold_1G00063310 Rroxscaffold_1G00065700 Rroxscaffold_2G00096530 Rroxscaffold_2G00096560 Rroxscaffold_2G00096590 Rroxscaffold_2G00096660 Rroxscaffold_2G00101110 Rroxscaffold_2G00113390 Rroxscaffold_5G00339030 Rroxscaffold_5G00351680 Rroxscaffold_6G00421510 Rroxscaffold_7G00168250 Rroxscaffold_7G00214760 Rroxscaffold_7G00214840
rosa_rugosa Rorug02G0294400 Rorug02G0545100 Rorug05G0008000 Rorug05G0066600 Rorug05G0173700 Rorug05G0173800 Rorug05G0290700 Rorug05G0290800 Rorug05G0290800 Rorug05G0519600 Rorug05G0519700
rosa_samantha Rh1CG087500 Rh1DG094400 Rh2AG570900 Rh2AG612800 Rh2BG354000 Rh2BG498100 Rh2BG498500 Rh2BG498600 Rh2BG628900 Rh2DG372100 Rh2DG509000 Rh2DG509300 Rh2DG509400 Rh2DG509600 Rh2DG640700 Rh3AG083900 Rh3BG086400 Rh3CG086700 Rh5AG102700 Rh5AG259700 Rh5AG261200 Rh5BG098700 Rh5BG098800 Rh5BG099500 Rh5BG113500 Rh5BG113900 Rh5BG155300 Rh5BG264600 Rh5CG111100 Rh5CG125200 Rh5CG169000 Rh5CG297600 Rh5DG098300 Rh5DG272900 Rh6AG033700 Rh6BG028900 Rh6CG029100 Rh6CG029200 Rh6DG028200 Rh6DG028300 Rh7CG429700
rosa_wichuraiana Rw0G009330 Rw0G012230 Rw0G018980 Rw1G008830 Rw2G035660 Rw2G039830 Rw2G040230 Rw2G040240 Rw5G013700 Rw5G024330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 436
Acc65I GGTACC 1 cut(s) 326
AccB1I GGYRCC 1 cut(s) 326
AccBSI CCGCTC 1 cut(s) 97
AciI CCGC 2 cut(s) 97, 761
AcoI YGGCCR 1 cut(s) 598
AcsI RAATTY 6 cut(s) 112, 298, 413, 710, 722, 848
AcuI CTGAAG 2 cut(s) 696, 768
AfaI GTAC 2 cut(s) 328, 518
AfiI CCNNNNNNNGG 2 cut(s) 691, 820
AgsI TTSAA 4 cut(s) 484, 709, 721, 727
AjnI CCWGG 2 cut(s) 556, 614
AjuI GAANNNNNNNTTGG 2 cut(s) 163, 195
AluBI AGCT 3 cut(s) 89, 286, 772
AluI AGCT 3 cut(s) 89, 286, 772
Alw21I GWGCWC 3 cut(s) 498, 667, 774
Alw26I GTCTC 2 cut(s) 9, 336
Alw44I GTGCAC 1 cut(s) 663
AlwNI CAGNNNCTG 1 cut(s) 615
AoxI GGCC 2 cut(s) 598, 811
ApaLI GTGCAC 1 cut(s) 663
ApeKI GCWGC 2 cut(s) 17, 86
ApoI RAATTY 6 cut(s) 112, 298, 413, 710, 722, 848
AsiSI GCGATCGC 1 cut(s) 627
Asp718I GGTACC 1 cut(s) 326
AspLEI GCGC 2 cut(s) 437, 545
AspS9I GGNCC 1 cut(s) 554
AsuC2I CCSGG 1 cut(s) 536
AsuNHI GCTAGC 1 cut(s) 286
AvaII GGWCC 1 cut(s) 554
BaeGI GKGCMC 1 cut(s) 667
BalI TGGCCA 1 cut(s) 600
BanI GGYRCC 1 cut(s) 326
BanII GRGCYC 1 cut(s) 774
BbsI GAAGAC 2 cut(s) 684, 761
Bbv12I GWGCWC 3 cut(s) 498, 667, 774
BbvI GCAGC 2 cut(s) 29, 98
BccI CCATC 1 cut(s) 590
BceAI ACGGC 1 cut(s) 556
BciT130I CCWGG 2 cut(s) 558, 616
BclI TGATCA 1 cut(s) 406
BcnI CCSGG 1 cut(s) 536
BcoDI GTCTC 2 cut(s) 9, 336
BfaI CTAG 2 cut(s) 287, 853
BglII AGATCT 2 cut(s) 424, 729
BisI GCNGC 2 cut(s) 18, 87
BlsI GCNGC 2 cut(s) 19, 88
Bme1390I CCNGG 3 cut(s) 536, 558, 616
Bme18I GGWCC 1 cut(s) 554
BmgT120I GGNCC 1 cut(s) 554
BmiI GGNNCC 1 cut(s) 328
BmrFI CCNGG 3 cut(s) 536, 558, 616
BmsI GCATC 1 cut(s) 847
BmtI GCTAGC 1 cut(s) 290
BpiI GAAGAC 2 cut(s) 684, 761
Bpu10I CCTNAGC 1 cut(s) 773
BpuMI CCSGG 1 cut(s) 536
BsaJI CCNNGG 4 cut(s) 291, 557, 614, 615
Bsc4I CCNNNNNNNGG 2 cut(s) 691, 820
Bse1I ACTGG 1 cut(s) 51
Bse3DI GCAATG 1 cut(s) 508
BseBI CCWGG 2 cut(s) 558, 616
BseDI CCNNGG 4 cut(s) 291, 557, 614, 615
BseGI GGATG 2 cut(s) 142, 601
BseLI CCNNNNNNNGG 2 cut(s) 691, 820
BseMI GCAATG 1 cut(s) 508
BseMII CTCAG 1 cut(s) 787
BseNI ACTGG 1 cut(s) 51
BseSI GKGCMC 1 cut(s) 667
BseXI GCAGC 2 cut(s) 29, 98
Bsh1285I CGRYCG 1 cut(s) 627
BshFI GGCC 2 cut(s) 600, 813
BshNI GGYRCC 1 cut(s) 326
BsiEI CGRYCG 1 cut(s) 627
BsiHKAI GWGCWC 3 cut(s) 498, 667, 774
BsiSI CCGG 1 cut(s) 536
BslFI GGGAC 1 cut(s) 518
BslI CCNNNNNNNGG 2 cut(s) 691, 820
BsmAI GTCTC 2 cut(s) 9, 336
BsmFI GGGAC 1 cut(s) 518
BsmI GAATGC 1 cut(s) 185
BsnI GGCC 2 cut(s) 600, 813
Bsp1286I GDGCHC 3 cut(s) 498, 667, 774
Bsp143I GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
BspACI CCGC 2 cut(s) 97, 761
BspANI GGCC 2 cut(s) 600, 813
BspCNI CTCAG 1 cut(s) 786
BspLI GGNNCC 1 cut(s) 328
BspOI GCTAGC 1 cut(s) 290
BspT107I GGYRCC 1 cut(s) 326
BsrBI CCGCTC 1 cut(s) 97
BsrDI GCAATG 1 cut(s) 508
BsrI ACTGG 1 cut(s) 51
BssECI CCNNGG 4 cut(s) 291, 557, 614, 615
BssMI GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
BssT1I CCWWGG 1 cut(s) 291
Bst2UI CCWGG 2 cut(s) 558, 616
Bst4CI ACNGT 1 cut(s) 152
Bst6I CTCTTC 1 cut(s) 300
BstC8I GCNNGC 3 cut(s) 288, 574, 663
BstDEI CTNAG 3 cut(s) 108, 773, 815
BstENI CCTNNNNNAGG 1 cut(s) 818
BstF5I GGATG 2 cut(s) 142, 601
BstHHI GCGC 2 cut(s) 437, 545
BstKTI GATC 7 cut(s) 27, 64, 409, 427, 627, 704, 732
BstMAI GTCTC 2 cut(s) 9, 336
BstMBI GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
BstMCI CGRYCG 1 cut(s) 627
BstMWI GCNNNNNNNGC 1 cut(s) 651
BstNI CCWGG 2 cut(s) 558, 616
BstSCI CCNGG 3 cut(s) 534, 556, 614
BstSLI GKGCMC 1 cut(s) 667
BstV1I GCAGC 2 cut(s) 29, 98
BstV2I GAAGAC 2 cut(s) 684, 761
BstX2I RGATCY 2 cut(s) 424, 729
BstYI RGATCY 2 cut(s) 424, 729
BsuRI GGCC 2 cut(s) 600, 813
BtsCI GGATG 2 cut(s) 142, 601
BtsIMutI CAGTG 1 cut(s) 396
Cac8I GCNNGC 3 cut(s) 288, 574, 663
CaiI CAGNNNCTG 1 cut(s) 615
CfoI GCGC 2 cut(s) 437, 545
Cfr13I GGNCC 1 cut(s) 554
CseI GACGC 1 cut(s) 836
Csp6I GTAC 2 cut(s) 327, 517
CviAII CATG 2 cut(s) 260, 809
CviQI GTAC 2 cut(s) 327, 517
DdeI CTNAG 3 cut(s) 108, 773, 815
DpnI GATC 7 cut(s) 26, 63, 408, 426, 626, 703, 731
DpnII GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
DraI TTTAAA 1 cut(s) 73
EaeI YGGCCR 1 cut(s) 598
Eam1104I CTCTTC 1 cut(s) 300
EarI CTCTTC 1 cut(s) 300
Ecl136II GAGCTC 1 cut(s) 772
Eco130I CCWWGG 1 cut(s) 291
Eco24I GRGCYC 1 cut(s) 774
Eco47I GGWCC 1 cut(s) 554
Eco53kI GAGCTC 1 cut(s) 772
Eco57I CTGAAG 2 cut(s) 696, 768
EcoICRI GAGCTC 1 cut(s) 772
EcoNI CCTNNNNNAGG 1 cut(s) 818
EcoRI GAATTC 1 cut(s) 848
EcoRII CCWGG 2 cut(s) 556, 614
EcoT14I CCWWGG 1 cut(s) 291
EcoT22I ATGCAT 1 cut(s) 568
EcoT38I GRGCYC 1 cut(s) 774
ErhI CCWWGG 1 cut(s) 291
FaeI CATG 2 cut(s) 263, 812
FalI AAGNNNNNCTT 2 cut(s) 402, 434
FaqI GGGAC 1 cut(s) 518
FatI CATG 2 cut(s) 259, 808
FauI CCCGC 1 cut(s) 90
FauNDI CATATG 1 cut(s) 656
FbaI TGATCA 1 cut(s) 406
Fnu4HI GCNGC 2 cut(s) 18, 87
FokI GGATG 2 cut(s) 149, 608
FriOI GRGCYC 1 cut(s) 774
Fsp4HI GCNGC 2 cut(s) 18, 87
FspBI CTAG 2 cut(s) 287, 853
FspI TGCGCA 1 cut(s) 436
GlaI GCGC 2 cut(s) 436, 544
GluI GCNGC 2 cut(s) 18, 87
HaeIII GGCC 2 cut(s) 600, 813
HapII CCGG 1 cut(s) 536
HgaI GACGC 1 cut(s) 836
HhaI GCGC 2 cut(s) 437, 545
Hin1II CATG 2 cut(s) 263, 812
Hin6I GCGC 2 cut(s) 435, 543
HinP1I GCGC 2 cut(s) 435, 543
HinfI GANTC 2 cut(s) 200, 401
HpaII CCGG 1 cut(s) 536
Hpy166II GTNNAC 3 cut(s) 665, 782, 826
Hpy188I TCNGA 3 cut(s) 136, 406, 446
Hpy188III TCNNGA 6 cut(s) 119, 389, 410, 428, 727, 775
Hpy8I GTNNAC 3 cut(s) 665, 782, 826
Hpy99I CGWCG 1 cut(s) 69
HpyAV CCTTC 4 cut(s) 363, 478, 630, 743
HpyCH4III ACNGT 1 cut(s) 152
HpyCH4V TGCA 6 cut(s) 383, 566, 576, 654, 665, 790
HpyF10VI GCNNNNNNNGC 1 cut(s) 651
HpyF3I CTNAG 3 cut(s) 108, 773, 815
Hsp92II CATG 2 cut(s) 263, 812
HspAI GCGC 2 cut(s) 435, 543
KpnI GGTACC 1 cut(s) 330
Ksp22I TGATCA 1 cut(s) 406
Kzo9I GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
LmnI GCTCC 1 cut(s) 37
Lsp1109I GCAGC 2 cut(s) 29, 98
LweI GCATC 1 cut(s) 847
MaeI CTAG 2 cut(s) 287, 853
MaeIII GTNAC 1 cut(s) 53
MalI GATC 7 cut(s) 26, 63, 408, 426, 626, 703, 731
MbiI CCGCTC 1 cut(s) 97
MboI GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
MflI RGATCY 2 cut(s) 424, 729
MhlI GDGCHC 3 cut(s) 498, 667, 774
MlsI TGGCCA 1 cut(s) 600
MluCI AATT 9 cut(s) 74, 112, 298, 331, 413, 696, 710, 722, 848
MluNI TGGCCA 1 cut(s) 600
MlyI GAGTC 1 cut(s) 395
MmeI TCCRAC 4 cut(s) 114, 186, 234, 258
MnlI CCTC 5 cut(s) 133, 214, 301, 583, 814
Mox20I TGGCCA 1 cut(s) 600
Mph1103I ATGCAT 1 cut(s) 568
MscI TGGCCA 1 cut(s) 600
MseI TTAA 2 cut(s) 72, 420
Msp20I TGGCCA 1 cut(s) 600
MspI CCGG 1 cut(s) 536
MspR9I CCNGG 3 cut(s) 536, 558, 616
Mva1269I GAATGC 1 cut(s) 185
MvaI CCWGG 2 cut(s) 558, 616
MwoI GCNNNNNNNGC 1 cut(s) 651
NciI CCSGG 1 cut(s) 536
NdeI CATATG 1 cut(s) 656
NdeII GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
NheI GCTAGC 1 cut(s) 286
NlaIII CATG 2 cut(s) 263, 812
NlaIV GGNNCC 1 cut(s) 328
NmuCI GTSAC 1 cut(s) 53
NsbI TGCGCA 1 cut(s) 436
NsiI ATGCAT 1 cut(s) 568
PasI CCCWGGG 1 cut(s) 615
PctI GAATGC 1 cut(s) 185
PfeI GAWTC 1 cut(s) 200
PfoI TCCNGGA 1 cut(s) 534
PkrI GCNGC 2 cut(s) 19, 88
Ple19I CGATCG 1 cut(s) 627
PleI GAGTC 1 cut(s) 395
PpsI GAGTC 1 cut(s) 395
Psp124BI GAGCTC 1 cut(s) 774
Psp6I CCWGG 2 cut(s) 556, 614
PspGI CCWGG 2 cut(s) 556, 614
PspN4I GGNNCC 1 cut(s) 328
PspPI GGNCC 1 cut(s) 554
PstNI CAGNNNCTG 1 cut(s) 615
PsuI RGATCY 2 cut(s) 424, 729
PvuI CGATCG 1 cut(s) 627
RgaI GCGATCGC 1 cut(s) 627
RsaI GTAC 2 cut(s) 328, 518
RsaNI GTAC 2 cut(s) 327, 517
SacI GAGCTC 1 cut(s) 774
SaqAI TTAA 2 cut(s) 72, 420
SatI GCNGC 2 cut(s) 18, 87
Sau3AI GATC 7 cut(s) 24, 61, 406, 424, 624, 701, 729
Sau96I GGNCC 1 cut(s) 554
SchI GAGTC 1 cut(s) 395
ScrFI CCNGG 3 cut(s) 536, 558, 616
SduI GDGCHC 3 cut(s) 498, 667, 774
SfaAI GCGATCGC 1 cut(s) 627
SfaNI GCATC 1 cut(s) 847
SgfI GCGATCGC 1 cut(s) 627
SinI GGWCC 1 cut(s) 554
Sse9I AATT 9 cut(s) 74, 112, 298, 331, 413, 696, 710, 722, 848
SsiI CCGC 2 cut(s) 97, 761
SspMI CTAG 2 cut(s) 287, 853
SstI GAGCTC 1 cut(s) 774
StyD4I CCNGG 3 cut(s) 534, 556, 614
StyI CCWWGG 1 cut(s) 291
TaaI ACNGT 1 cut(s) 152
TaqI TCGA 2 cut(s) 27, 47
TasI AATT 9 cut(s) 74, 112, 298, 331, 413, 696, 710, 722, 848
TfiI GAWTC 1 cut(s) 200
Tru1I TTAA 2 cut(s) 72, 420
Tru9I TTAA 2 cut(s) 72, 420
TscAI CASTG 1 cut(s) 403
TseFI GTSAC 1 cut(s) 53
TseI GCWGC 2 cut(s) 17, 86
Tsp45I GTSAC 1 cut(s) 53
TspDTI ATGAA 6 cut(s) 228, 276, 390, 465, 724, 797
TspRI CASTG 1 cut(s) 403
VneI GTGCAC 1 cut(s) 663
VpaK11BI GGWCC 1 cut(s) 554
XagI CCTNNNNNAGG 1 cut(s) 818
XapI RAATTY 6 cut(s) 112, 298, 413, 710, 722, 848
XcmI CCANNNNNNNNNTGG 1 cut(s) 298
XspI CTAG 2 cut(s) 287, 853
Zsp2I ATGCAT 1 cut(s) 568
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.