Rmu_sc0000349.1_g000003

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000349.1
OG0000146
Physical Location & Seq
Reverse (-)
3803 .. 6616
2814 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000349.1_g000003.1.cds

Sequence Viewer

Length: 783 bp
atggaatcctctcttatgaaccggtatattagtcttcctactacaaaagatatttgggaagctgtagagaaaactttttatgatgattatgatgaaacccgaatctttgagttgaacaaaaagtgttttgaagcaaagcagaatggacggcccattccgacctactacaatgagttagtggcaatgttccaggagattgatcaaagggtggcctctcagaatgataatgttgcagctataattcaagaaacttcagcgatgtcccggatgcgtgttcacatgtttttgagtgcacttgacctagagtatgataaggtgcttggagaaatcctgcacaaggagcctaaattctccttggagcagagttatgcttacattcgcaaggtgcaatcagagaaacaagctatggggcgttcggtacctaccgaatcttctgttatggttgttcaacgtaaaccgggtcctcctccaggcttctcaggtctttctccacaccgtcctcaaggtaaaccaaacccatatgcaaacaaaaaatgcgtaatctatggggaattaggtcatagcaaggagcggtgctatgaagtgattggttaccctgatttatgggacttcaccaagaaactgcgaaaaaatctgggcaaggtggccattgctactacagaggaagagcatctagacaatgcctccgctaatgtagcgcagtcagaatggctactgctgtgtttcaccaatccattggaactcaccagtcccatggtcatctttataactctggcacggtga
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

260

Amino Acids

29.78

Weight (kDa)

6.25

Isoelectric Point (pI)

47.5

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)
AanI TTATAA 1 cut(s) 767
Acc65I GGTACC 1 cut(s) 418
AccB1I GGYRCC 1 cut(s) 418
AccBSI CCGCTC 1 cut(s) 571
AciI CCGC 2 cut(s) 571, 687
AcoI YGGCCR 1 cut(s) 645
AcsI RAATTY 1 cut(s) 347
AcuI CTGAAG 1 cut(s) 237
AfaI GTAC 1 cut(s) 420
AfiI CCNNNNNNNGG 2 cut(s) 337, 470
AflIII ACRYGT 1 cut(s) 279
AgeI ACCGGT 1 cut(s) 21
AgsI TTSAA 4 cut(s) 115, 131, 245, 449
AjnI CCWGG 2 cut(s) 189, 469
AluBI AGCT 3 cut(s) 62, 236, 404
AluI AGCT 3 cut(s) 62, 236, 404
Alw21I GWGCWC 1 cut(s) 295
Alw44I GTGCAC 1 cut(s) 291
AoxI GGCC 3 cut(s) 149, 210, 645
ApaLI GTGCAC 1 cut(s) 291
ApeKI GCWGC 1 cut(s) 233
ApoI RAATTY 1 cut(s) 347
AsiGI ACCGGT 1 cut(s) 21
Asp718I GGTACC 1 cut(s) 418
AspLEI GCGC 1 cut(s) 700
AspS9I GGNCC 2 cut(s) 150, 461
AsuC2I CCSGG 2 cut(s) 265, 459
AsuHPI GGTGA 3 cut(s) 604, 718, 736
AvaII GGWCC 1 cut(s) 461
BaeGI GKGCMC 1 cut(s) 295
BalI TGGCCA 1 cut(s) 647
BanI GGYRCC 1 cut(s) 418
BbsI GAAGAC 1 cut(s) 26
Bbv12I GWGCWC 1 cut(s) 295
BbvI GCAGC 1 cut(s) 245
BceAI ACGGC 1 cut(s) 164
BciT130I CCWGG 2 cut(s) 191, 471
BclI TGATCA 1 cut(s) 199
BcnI CCSGG 2 cut(s) 265, 459
BfaI CTAG 2 cut(s) 302, 674
BfmI CTRYAG 2 cut(s) 63, 657
BisI GCNGC 1 cut(s) 234
BlsI GCNGC 1 cut(s) 235
Bme1390I CCNGG 4 cut(s) 191, 265, 459, 471
Bme18I GGWCC 1 cut(s) 461
BmgT120I GGNCC 2 cut(s) 150, 461
BmiI GGNNCC 3 cut(s) 342, 420, 462
BmrFI CCNGG 4 cut(s) 191, 265, 459, 471
BmsI GCATC 2 cut(s) 258, 679
BpiI GAAGAC 1 cut(s) 26
BpmI CTGGAG 1 cut(s) 453
BpuEI CTTGAG 1 cut(s) 486
BpuMI CCSGG 2 cut(s) 265, 459
BsaJI CCNNGG 2 cut(s) 354, 753
BsaWI WCCGGW 1 cut(s) 21
BsaXI ACNNNNNCTCC 2 cut(s) 668, 698
Bsc4I CCNNNNNNNGG 2 cut(s) 337, 470
Bse118I RCCGGY 1 cut(s) 21
Bse1I ACTGG 1 cut(s) 747
Bse3DI GCAATG 2 cut(s) 189, 648
BseBI CCWGG 2 cut(s) 191, 471
BseDI CCNNGG 2 cut(s) 354, 753
BseGI GGATG 1 cut(s) 273
BseLI CCNNNNNNNGG 2 cut(s) 337, 470
BseMI GCAATG 2 cut(s) 189, 648
BseMII CTCAG 2 cut(s) 230, 492
BseNI ACTGG 1 cut(s) 747
BseRI GAGGAG 1 cut(s) 456
BseSI GKGCMC 1 cut(s) 295
BseXI GCAGC 1 cut(s) 245
BsgI GTGCAG 1 cut(s) 317
BshFI GGCC 3 cut(s) 151, 212, 647
BshNI GGYRCC 1 cut(s) 418
BshTI ACCGGT 1 cut(s) 21
BsiHKAI GWGCWC 1 cut(s) 295
BsiSI CCGG 3 cut(s) 22, 265, 458
BslFI GGGAC 3 cut(s) 247, 620, 735
BslI CCNNNNNNNGG 2 cut(s) 337, 470
BsmFI GGGAC 3 cut(s) 247, 620, 735
BsnI GGCC 3 cut(s) 151, 212, 647
Bsp1286I GDGCHC 1 cut(s) 295
Bsp143I GATC 1 cut(s) 199
Bsp19I CCATGG 1 cut(s) 753
BspACI CCGC 2 cut(s) 571, 687
BspANI GGCC 3 cut(s) 151, 212, 647
BspCNI CTCAG 2 cut(s) 229, 491
BspLI GGNNCC 3 cut(s) 342, 420, 462
BspQI GCTCTTC 1 cut(s) 660
BspT107I GGYRCC 1 cut(s) 418
BsrBI CCGCTC 1 cut(s) 571
BsrDI GCAATG 2 cut(s) 189, 648
BsrFI RCCGGY 1 cut(s) 21
BsrI ACTGG 1 cut(s) 747
BssAI RCCGGY 1 cut(s) 21
BssECI CCNNGG 2 cut(s) 354, 753
BssMI GATC 1 cut(s) 199
BssT1I CCWWGG 2 cut(s) 354, 753
Bst2UI CCWGG 2 cut(s) 191, 471
Bst4CI ACNGT 2 cut(s) 497, 780
Bst6I CTCTTC 1 cut(s) 660
BstDEI CTNAG 2 cut(s) 216, 478
BstDSI CCRYGG 1 cut(s) 753
BstEII GGTNACC 1 cut(s) 590
BstENI CCTNNNNNAGG 2 cut(s) 335, 468
BstF5I GGATG 1 cut(s) 273
BstHHI GCGC 1 cut(s) 700
BstKTI GATC 1 cut(s) 202
BstMBI GATC 1 cut(s) 199
BstMWI GCNNNNNNNGC 2 cut(s) 340, 695
BstNI CCWGG 2 cut(s) 191, 471
BstNSI RCATGY 1 cut(s) 283
BstPI GGTNACC 1 cut(s) 590
BstSCI CCNGG 4 cut(s) 189, 263, 457, 469
BstSFI CTRYAG 2 cut(s) 63, 657
BstSLI GKGCMC 1 cut(s) 295
BstV1I GCAGC 1 cut(s) 245
BstV2I GAAGAC 1 cut(s) 26
BstXI CCANNNNNNTGG 2 cut(s) 736, 754
BsuRI GGCC 3 cut(s) 151, 212, 647
BtgI CCRYGG 1 cut(s) 753
BtgZI GCGATG 1 cut(s) 272
BtsCI GGATG 1 cut(s) 273
CfoI GCGC 1 cut(s) 700
Cfr10I RCCGGY 1 cut(s) 21
Cfr13I GGNCC 2 cut(s) 150, 461
Csp6I GTAC 1 cut(s) 419
CspAI ACCGGT 1 cut(s) 21
CviAII CATG 2 cut(s) 280, 754
CviJI RGCY 9 cut(s) 62, 151, 212, 236, 343, 404, 474, 647, 712
CviKI_1 RGCY 9 cut(s) 62, 151, 212, 236, 343, 404, 474, 647, 712
CviQI GTAC 1 cut(s) 419
DdeI CTNAG 2 cut(s) 216, 478
DpnI GATC 1 cut(s) 201
DpnII GATC 1 cut(s) 199
EaeI YGGCCR 1 cut(s) 645
Eam1104I CTCTTC 1 cut(s) 660
EarI CTCTTC 1 cut(s) 660
Eco130I CCWWGG 2 cut(s) 354, 753
Eco47I GGWCC 1 cut(s) 461
Eco57I CTGAAG 1 cut(s) 237
Eco91I GGTNACC 1 cut(s) 590
EcoNI CCTNNNNNAGG 2 cut(s) 335, 468
EcoO109I RGGNCCY 1 cut(s) 461
EcoO65I GGTNACC 1 cut(s) 590
EcoRII CCWGG 2 cut(s) 189, 469
EcoT14I CCWWGG 2 cut(s) 354, 753
ErhI CCWWGG 2 cut(s) 354, 753
FaeI CATG 2 cut(s) 283, 757
FaqI GGGAC 3 cut(s) 247, 620, 735
FatI CATG 2 cut(s) 279, 753
FauNDI CATATG 1 cut(s) 520
FbaI TGATCA 1 cut(s) 199
Fnu4HI GCNGC 1 cut(s) 234
FokI GGATG 1 cut(s) 280
Fsp4HI GCNGC 1 cut(s) 234
FspBI CTAG 2 cut(s) 302, 674
GlaI GCGC 1 cut(s) 699
GluI GCNGC 1 cut(s) 234
GsuI CTGGAG 1 cut(s) 453
HaeIII GGCC 3 cut(s) 151, 212, 647
HapII CCGG 3 cut(s) 22, 265, 458
HhaI GCGC 1 cut(s) 700
Hin1II CATG 2 cut(s) 283, 757
Hin6I GCGC 1 cut(s) 698
HinP1I GCGC 1 cut(s) 698
HinfI GANTC 3 cut(s) 5, 102, 428
HpaII CCGG 3 cut(s) 22, 265, 458
HphI GGTGA 3 cut(s) 604, 718, 736
Hpy166II GTNNAC 4 cut(s) 277, 293, 455, 509
Hpy188I TCNGA 4 cut(s) 159, 219, 394, 706
Hpy188III TCNNGA 2 cut(s) 245, 674
Hpy8I GTNNAC 4 cut(s) 277, 293, 455, 509
HpyCH4III ACNGT 2 cut(s) 497, 780
HpyCH4IV ACGT 1 cut(s) 451
HpyCH4V TGCA 5 cut(s) 233, 293, 334, 388, 524
HpyF10VI GCNNNNNNNGC 2 cut(s) 340, 695
HpyF3I CTNAG 2 cut(s) 216, 478
HpySE526I ACGT 1 cut(s) 451
Hsp92II CATG 2 cut(s) 283, 757
HspAI GCGC 1 cut(s) 698
KpnI GGTACC 1 cut(s) 422
Ksp22I TGATCA 1 cut(s) 199
Kzo9I GATC 1 cut(s) 199
LguI GCTCTTC 1 cut(s) 660
LmnI GCTCC 3 cut(s) 340, 358, 568
Lsp1109I GCAGC 1 cut(s) 245
LweI GCATC 2 cut(s) 258, 679
MaeI CTAG 2 cut(s) 302, 674
MaeII ACGT 1 cut(s) 451
MaeIII GTNAC 1 cut(s) 590
MalI GATC 1 cut(s) 201
MbiI CCGCTC 1 cut(s) 571
MboI GATC 1 cut(s) 199
MboII GAAGA 3 cut(s) 26, 423, 677
MhlI GDGCHC 1 cut(s) 295
MlsI TGGCCA 1 cut(s) 647
MluCI AATT 3 cut(s) 240, 347, 551
MluNI TGGCCA 1 cut(s) 647
MmeI TCCRAC 1 cut(s) 182
MnlI CCTC 7 cut(s) 19, 223, 474, 477, 510, 655, 694
Mox20I TGGCCA 1 cut(s) 647
MscI TGGCCA 1 cut(s) 647
Msp20I TGGCCA 1 cut(s) 647
MspI CCGG 3 cut(s) 22, 265, 458
MspR9I CCNGG 4 cut(s) 191, 265, 459, 471
MvaI CCWGG 2 cut(s) 191, 471
MwoI GCNNNNNNNGC 2 cut(s) 340, 695
NciI CCSGG 2 cut(s) 265, 459
NcoI CCATGG 1 cut(s) 753
NdeI CATATG 1 cut(s) 520
NdeII GATC 1 cut(s) 199
NlaIII CATG 2 cut(s) 283, 757
NlaIV GGNNCC 3 cut(s) 342, 420, 462
NspI RCATGY 1 cut(s) 283
PciI ACATGT 1 cut(s) 279
PciSI GCTCTTC 1 cut(s) 660
PfeI GAWTC 3 cut(s) 5, 102, 428
PfoI TCCNGGA 2 cut(s) 189, 263
PinAI ACCGGT 1 cut(s) 21
PkrI GCNGC 1 cut(s) 235
PpuMI RGGWCCY 1 cut(s) 461
PscI ACATGT 1 cut(s) 279
PsiI TTATAA 1 cut(s) 767
Psp5II RGGWCCY 1 cut(s) 461
Psp6I CCWGG 2 cut(s) 189, 469
PspEI GGTNACC 1 cut(s) 590
PspGI CCWGG 2 cut(s) 189, 469
PspN4I GGNNCC 3 cut(s) 342, 420, 462
PspPI GGNCC 2 cut(s) 150, 461
PspPPI RGGWCCY 1 cut(s) 461
RsaI GTAC 1 cut(s) 420
RsaNI GTAC 1 cut(s) 419
SapI GCTCTTC 1 cut(s) 660
SatI GCNGC 1 cut(s) 234
Sau3AI GATC 1 cut(s) 199
Sau96I GGNCC 2 cut(s) 150, 461
ScrFI CCNGG 4 cut(s) 191, 265, 459, 471
SduI GDGCHC 1 cut(s) 295
SfaNI GCATC 2 cut(s) 258, 679
SfcI CTRYAG 2 cut(s) 63, 657
SinI GGWCC 1 cut(s) 461
SmlI CTYRAG 1 cut(s) 501
SmoI CTYRAG 1 cut(s) 501
Sse9I AATT 3 cut(s) 240, 347, 551
SsiI CCGC 2 cut(s) 571, 687
SspMI CTAG 2 cut(s) 302, 674
StyD4I CCNGG 4 cut(s) 189, 263, 457, 469
StyI CCWWGG 2 cut(s) 354, 753
TaaI ACNGT 2 cut(s) 497, 780
TaiI ACGT 1 cut(s) 454
TasI AATT 3 cut(s) 240, 347, 551
TfiI GAWTC 3 cut(s) 5, 102, 428
TseI GCWGC 1 cut(s) 233
TspDTI ATGAA 3 cut(s) 32, 108, 594
VneI GTGCAC 1 cut(s) 291
VpaK11BI GGWCC 1 cut(s) 461
XagI CCTNNNNNAGG 2 cut(s) 335, 468
XapI RAATTY 1 cut(s) 347
XbaI TCTAGA 1 cut(s) 673
XceI RCATGY 1 cut(s) 283
XspI CTAG 2 cut(s) 302, 674
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.