Rmu_sc0009268.1_g000016

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0009268.1
OG0000146
Physical Location & Seq
Forward (+)
56178 .. 59739
3562 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0009268.1_g000016.1.cds

Sequence Viewer

Length: 867 bp
atgggacacgcctctgaatcctctgccatggctatccaacgcaaacaagggtcctcctcaggtttctcaactcccttacaacatcacccttcgagtaaaacaaatccatatgcgaatacaaagtttctgatttgtggagagttaggtcatagcaagcaacggtgttatgaagtgattggctatcctgattggtgggatttcaccaagaaacagcgaaagaacattggaaaagccgtcgcagctactacagaggaagagcaaccaactaatgcctctgctaatgtagcacgtacagtcagcctcttaaaaatgttgaaagcttcctctcaaaatattgtttctactgctgatggtactccaactccggttaccggagaaggctctattgtcctttctgacacattaacccttgattctatgttagacattctgactcggcagattcttggttatggtgttagaagggggaaactctactacttggatctgacagaaagtggagagcaacaccgacgccatcctcttccttcctcgccatcttcaagaagaagaccagccacccaaatcgatctctaccacccattccgcagctacatcgctttcaattgctctgagcgcagggcgcagaactttgaagacaacctccaaatcctcacgataatgcagcgaattcttttaagctctaagaagaccgggattcatgataatgtgcttcagattatttacttgcacatgataattgccacagaaagtgcagacacccggcaagcagagaatcgtaactcaccagggagatggagggagatcgggtctgtgtcttttgctttgtacaaagagatcgtctcggtggttagttctttctgctga
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

Protein Analysis

288

Amino Acids

32.17

Weight (kDa)

9.33

Isoelectric Point (pI)

58.49

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
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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: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 586
AclWI GGATC 1 cut(s) 492
AcsI RAATTY 1 cut(s) 669
AcuI CTGAAG 1 cut(s) 698
AcyI GRCGYC 1 cut(s) 514
AfaI GTAC 3 cut(s) 292, 355, 830
AfiI CCNNNNNNNGG 1 cut(s) 371
AgsI TTSAA 4 cut(s) 316, 543, 604, 635
AjnI CCWGG 1 cut(s) 787
AluBI AGCT 4 cut(s) 242, 320, 591, 681
AluI AGCT 4 cut(s) 242, 320, 591, 681
Alw26I GTCTC 1 cut(s) 847
AlwI GGATC 1 cut(s) 492
ApeKI GCWGC 3 cut(s) 239, 588, 664
ApoI RAATTY 1 cut(s) 669
ArsI GACNNNNNNTTYG 2 cut(s) 825, 857
AspLEI GCGC 2 cut(s) 618, 625
AspS9I GGNCC 1 cut(s) 51
AsuC2I CCSGG 2 cut(s) 694, 763
AsuHPI GGTGA 3 cut(s) 77, 193, 777
AvaII GGWCC 1 cut(s) 51
AxyI CCTNAGG 1 cut(s) 58
BbsI GAAGAC 3 cut(s) 556, 642, 695
BbvI GCAGC 3 cut(s) 251, 600, 676
BccI CCATC 4 cut(s) 344, 525, 544, 789
BceAI ACGGC 1 cut(s) 218
BcgI CGANNNNNNTGC 2 cut(s) 577, 611
BciT130I CCWGG 1 cut(s) 789
BcnI CCSGG 2 cut(s) 694, 763
BcoDI GTCTC 1 cut(s) 847
BfmI CTRYAG 1 cut(s) 246
BisI GCNGC 3 cut(s) 240, 589, 665
BlsI GCNGC 3 cut(s) 241, 590, 666
Bme1390I CCNGG 3 cut(s) 694, 763, 789
Bme18I GGWCC 1 cut(s) 51
BmgT120I GGNCC 1 cut(s) 51
BmiI GGNNCC 1 cut(s) 52
BmrFI CCNGG 3 cut(s) 694, 763, 789
BpiI GAAGAC 3 cut(s) 556, 642, 695
BplI GAGNNNNNCTC 2 cut(s) 827, 859
BpuMI CCSGG 2 cut(s) 694, 763
Bsa29I ATCGAT 1 cut(s) 567
BsaAI YACGTR 1 cut(s) 290
BsaHI GRCGYC 1 cut(s) 514
BsaJI CCNNGG 2 cut(s) 27, 788
BsaWI WCCGGW 2 cut(s) 364, 371
BsaXI ACNNNNNCTCC 4 cut(s) 346, 376, 794, 824
Bsc4I CCNNNNNNNGG 1 cut(s) 371
Bse21I CCTNAGG 1 cut(s) 58
BseBI CCWGG 1 cut(s) 789
BseCI ATCGAT 1 cut(s) 567
BseDI CCNNGG 2 cut(s) 27, 788
BseGI GGATG 1 cut(s) 517
BseLI CCNNNNNNNGG 1 cut(s) 371
BseMII CTCAG 2 cut(s) 72, 603
BseRI GAGGAG 1 cut(s) 46
BseXI GCAGC 3 cut(s) 251, 600, 676
BsgI GTGCAG 1 cut(s) 774
BshVI ATCGAT 1 cut(s) 567
BsiSI CCGG 4 cut(s) 365, 372, 693, 763
BslFI GGGAC 1 cut(s) 18
BslI CCNNNNNNNGG 1 cut(s) 371
BsmAI GTCTC 1 cut(s) 847
BsmBI CGTCTC 1 cut(s) 847
BsmFI GGGAC 1 cut(s) 18
Bsp1407I TGTACA 1 cut(s) 828
Bsp143I GATC 4 cut(s) 484, 568, 804, 837
Bsp19I CCATGG 1 cut(s) 27
BspACI CCGC 1 cut(s) 586
BspCNI CTCAG 2 cut(s) 71, 604
BspDI ATCGAT 1 cut(s) 567
BspHI TCATGA 1 cut(s) 700
BspLI GGNNCC 1 cut(s) 52
BspPI GGATC 1 cut(s) 492
BspQI GCTCTTC 1 cut(s) 249
BsrGI TGTACA 1 cut(s) 828
BssECI CCNNGG 2 cut(s) 27, 788
BssMI GATC 4 cut(s) 484, 568, 804, 837
BssNI GRCGYC 1 cut(s) 514
BssT1I CCWWGG 1 cut(s) 27
Bst2UI CCWGG 1 cut(s) 789
Bst4CI ACNGT 2 cut(s) 162, 295
Bst6I CTCTTC 2 cut(s) 249, 528
BstACI GRCGYC 1 cut(s) 514
BstAUI TGTACA 1 cut(s) 828
BstBAI YACGTR 1 cut(s) 290
BstC8I GCNNGC 2 cut(s) 155, 768
BstDEI CTNAG 3 cut(s) 58, 612, 684
BstDSI CCRYGG 1 cut(s) 27
BstEII GGTNACC 1 cut(s) 367
BstF5I GGATG 1 cut(s) 517
BstHHI GCGC 2 cut(s) 618, 625
BstKTI GATC 4 cut(s) 487, 571, 807, 840
BstMAI GTCTC 1 cut(s) 847
BstMBI GATC 4 cut(s) 484, 568, 804, 837
BstMWI GCNNNNNNNGC 4 cut(s) 239, 284, 615, 622
BstNI CCWGG 1 cut(s) 789
BstPI GGTNACC 1 cut(s) 367
BstSCI CCNGG 3 cut(s) 692, 761, 787
BstSFI CTRYAG 1 cut(s) 246
BstV1I GCAGC 3 cut(s) 251, 600, 676
BstV2I GAAGAC 3 cut(s) 556, 642, 695
BstX2I RGATCY 1 cut(s) 484
BstXI CCANNNNNNTGG 1 cut(s) 795
BstYI RGATCY 1 cut(s) 484
Bsu15I ATCGAT 1 cut(s) 567
Bsu36I CCTNAGG 1 cut(s) 58
BsuTUI ATCGAT 1 cut(s) 567
BtgI CCRYGG 1 cut(s) 27
BtgZI GCGATG 1 cut(s) 580
BtsCI GGATG 1 cut(s) 517
Cac8I GCNNGC 2 cut(s) 155, 768
CciI TCATGA 1 cut(s) 700
CfoI GCGC 2 cut(s) 618, 625
Cfr13I GGNCC 1 cut(s) 51
ClaI ATCGAT 1 cut(s) 567
CseI GACGC 1 cut(s) 522
Csp6I GTAC 3 cut(s) 291, 354, 829
CviAII CATG 3 cut(s) 28, 701, 733
CviQI GTAC 3 cut(s) 291, 354, 829
DdeI CTNAG 3 cut(s) 58, 612, 684
DpnI GATC 4 cut(s) 486, 570, 806, 839
DpnII GATC 4 cut(s) 484, 568, 804, 837
Eam1104I CTCTTC 2 cut(s) 249, 528
EarI CTCTTC 2 cut(s) 249, 528
Eco130I CCWWGG 1 cut(s) 27
Eco47I GGWCC 1 cut(s) 51
Eco57I CTGAAG 1 cut(s) 698
Eco81I CCTNAGG 1 cut(s) 58
Eco91I GGTNACC 1 cut(s) 367
EcoO109I RGGNCCY 1 cut(s) 51
EcoO65I GGTNACC 1 cut(s) 367
EcoRI GAATTC 1 cut(s) 669
EcoRII CCWGG 1 cut(s) 787
EcoT14I CCWWGG 1 cut(s) 27
ErhI CCWWGG 1 cut(s) 27
Esp3I CGTCTC 1 cut(s) 847
FaeI CATG 3 cut(s) 31, 704, 736
FaiI YATR 9 cut(s) 29, 109, 111, 150, 168, 419, 453, 702, 734
FaqI GGGAC 1 cut(s) 18
FatI CATG 3 cut(s) 27, 700, 732
FauNDI CATATG 1 cut(s) 109
Fnu4HI GCNGC 3 cut(s) 240, 589, 665
FokI GGATG 1 cut(s) 504
Fsp4HI GCNGC 3 cut(s) 240, 589, 665
GlaI GCGC 2 cut(s) 617, 624
GluI GCNGC 3 cut(s) 240, 589, 665
HapII CCGG 4 cut(s) 365, 372, 693, 763
HgaI GACGC 1 cut(s) 522
HhaI GCGC 2 cut(s) 618, 625
Hin1I GRCGYC 1 cut(s) 514
Hin1II CATG 3 cut(s) 31, 704, 736
Hin6I GCGC 2 cut(s) 616, 623
HinP1I GCGC 2 cut(s) 616, 623
HindIII AAGCTT 1 cut(s) 318
HinfI GANTC 6 cut(s) 17, 413, 433, 442, 697, 775
HpaII CCGG 4 cut(s) 365, 372, 693, 763
HphI GGTGA 3 cut(s) 77, 193, 777
Hpy188I TCNGA 7 cut(s) 16, 129, 397, 432, 489, 613, 717
Hpy188III TCNNGA 4 cut(s) 185, 543, 655, 701
Hpy99I CGWCG 2 cut(s) 239, 516
HpyAV CCTTC 4 cut(s) 99, 371, 456, 537
HpyCH4III ACNGT 2 cut(s) 162, 295
HpyCH4IV ACGT 1 cut(s) 289
HpyCH4V TGCA 3 cut(s) 664, 730, 755
HpyF10VI GCNNNNNNNGC 4 cut(s) 239, 284, 615, 622
HpyF3I CTNAG 3 cut(s) 58, 612, 684
HpySE526I ACGT 1 cut(s) 289
Hsp92I GRCGYC 1 cut(s) 514
Hsp92II CATG 3 cut(s) 31, 704, 736
HspAI GCGC 2 cut(s) 616, 623
Kzo9I GATC 4 cut(s) 484, 568, 804, 837
LguI GCTCTTC 1 cut(s) 249
Lsp1109I GCAGC 3 cut(s) 251, 600, 676
MaeII ACGT 1 cut(s) 289
MaeIII GTNAC 2 cut(s) 367, 779
MalI GATC 4 cut(s) 486, 570, 806, 839
MboI GATC 4 cut(s) 484, 568, 804, 837
MboII GAAGA 7 cut(s) 266, 515, 531, 558, 561, 647, 700
MfeI CAATTG 1 cut(s) 604
MflI RGATCY 1 cut(s) 484
MluCI AATT 3 cut(s) 604, 669, 738
MlyI GAGTC 1 cut(s) 427
MmeI TCCRAC 2 cut(s) 61, 383
MseI TTAA 3 cut(s) 305, 404, 677
MslI CAYNNNNRTG 2 cut(s) 659, 705
MspI CCGG 4 cut(s) 365, 372, 693, 763
MspR9I CCNGG 3 cut(s) 694, 763, 789
MunI CAATTG 1 cut(s) 604
MvaI CCWGG 1 cut(s) 789
MwoI GCNNNNNNNGC 4 cut(s) 239, 284, 615, 622
NciI CCSGG 2 cut(s) 694, 763
NcoI CCATGG 1 cut(s) 27
NdeI CATATG 1 cut(s) 109
NdeII GATC 4 cut(s) 484, 568, 804, 837
NlaIII CATG 3 cut(s) 31, 704, 736
NlaIV GGNNCC 1 cut(s) 52
NmeAIII GCCGAG 1 cut(s) 415
PagI TCATGA 1 cut(s) 700
PciSI GCTCTTC 1 cut(s) 249
PfeI GAWTC 5 cut(s) 17, 413, 442, 697, 775
PkrI GCNGC 3 cut(s) 241, 590, 666
PleI GAGTC 1 cut(s) 427
PpsI GAGTC 1 cut(s) 427
Ppu21I YACGTR 1 cut(s) 290
PpuMI RGGWCCY 1 cut(s) 51
Psp5II RGGWCCY 1 cut(s) 51
Psp6I CCWGG 1 cut(s) 787
PspEI GGTNACC 1 cut(s) 367
PspGI CCWGG 1 cut(s) 787
PspN4I GGNNCC 1 cut(s) 52
PspPI GGNCC 1 cut(s) 51
PspPPI RGGWCCY 1 cut(s) 51
PsuI RGATCY 1 cut(s) 484
RsaI GTAC 3 cut(s) 292, 355, 830
RsaNI GTAC 3 cut(s) 291, 354, 829
RseI CAYNNNNRTG 2 cut(s) 659, 705
SapI GCTCTTC 1 cut(s) 249
SaqAI TTAA 3 cut(s) 305, 404, 677
SatI GCNGC 3 cut(s) 240, 589, 665
Sau3AI GATC 4 cut(s) 484, 568, 804, 837
Sau96I GGNCC 1 cut(s) 51
SchI GAGTC 1 cut(s) 427
ScrFI CCNGG 3 cut(s) 694, 763, 789
SetI ASST 8 cut(s) 64, 148, 244, 292, 322, 593, 645, 683
SfcI CTRYAG 1 cut(s) 246
SinI GGWCC 1 cut(s) 51
SmiMI CAYNNNNRTG 2 cut(s) 659, 705
Sse9I AATT 3 cut(s) 604, 669, 738
SsiI CCGC 1 cut(s) 586
SspI AATATT 1 cut(s) 334
StyD4I CCNGG 3 cut(s) 692, 761, 787
StyI CCWWGG 1 cut(s) 27
TaaI ACNGT 2 cut(s) 162, 295
TaiI ACGT 1 cut(s) 292
TaqI TCGA 2 cut(s) 92, 567
TasI AATT 3 cut(s) 604, 669, 738
TatI WGTACW 1 cut(s) 828
TfiI GAWTC 5 cut(s) 17, 413, 442, 697, 775
Tru1I TTAA 3 cut(s) 305, 404, 677
Tru9I TTAA 3 cut(s) 305, 404, 677
TseI GCWGC 3 cut(s) 239, 588, 664
TspDTI ATGAA 2 cut(s) 183, 689
VpaK11BI GGWCC 1 cut(s) 51
XapI RAATTY 1 cut(s) 669
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.