Rmu_sc0025106.1_g000013

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0025106.1
OG0000146
Physical Location & Seq
Forward (+)
17590 .. 18614
1025 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0025106.1_g000013.1.cds

Sequence Viewer

Length: 900 bp
atggccagacctgtaattgaaggcgaacagtcaaatcccgagcaggcaatggtgccatcctcacaagtcatccatcaccactacaccacccaacaagacaactctgcgttcccaacaagtattgtcttgaatgaatccaactacaccatatgggctcctctcatgcggatgggcattggagcacgagggaaggttggttatctgaccagagtgaaggctgaacccgccataaattctgcacagtataaagcttgggccatggacaatgaaaagatctttgaattgaacaagaagtgttttgaagcaaagaaaaatcgatggcctattcctacctactataatgagttagtggcgatgttccaggaaattgatcaaatggtggcctctcagaatgataatgttgcagctgtagttcaagagacctcaacgatgtcccgaatgcgtgttcacatgtttttgagtggacttgacctagagtatgatcaggtgagtggagaaatcttgcgcaaggaacctaaattctctttggagcagagctatgcttacattcgcaaggtgcaatcagagaaacaggttatggggcattcgatacctagcgaatcttctgttatggttgtccaacgcaaaccaggtcctcttccaggcttctcacaccgtcctctaggtaaaccagatccatatgcaaatagaaagtgcattgtgtgtggggaactaggttatagcaaagagcagtgctatgaagtgattggttaccctgattggttggacttcaccaagaaatcacgaaagaatctgggcaaggccgccattgctactacaaaggaagagcgtctagacaatgcctccactaatgtagcgcaatcaggtatgaagggtaaggttactttgaataatacatag
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

299

Amino Acids

33.74

Weight (kDa)

8.85

Isoelectric Point (pI)

39.34

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
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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)
Acc16I TGCGCA 1 cut(s) 506
AccB1I GGYRCC 1 cut(s) 52
AciI CCGC 3 cut(s) 166, 225, 804
AclWI GGATC 1 cut(s) 668
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 2 cut(s) 232, 518
AfiI CCNNNNNNNGG 1 cut(s) 641
AflIII ACRYGT 1 cut(s) 450
AgsI TTSAA 7 cut(s) 20, 130, 281, 286, 302, 416, 889
AjnI CCWGG 3 cut(s) 360, 628, 640
AluBI AGCT 3 cut(s) 251, 407, 537
AluI AGCT 3 cut(s) 251, 407, 537
Alw21I GWGCWC 1 cut(s) 184
Alw26I GTCTC 1 cut(s) 413
AlwI GGATC 1 cut(s) 668
Ama87I CYCGRG 1 cut(s) 38
AoxI GGCC 5 cut(s) 3, 255, 320, 381, 801
ApeKI GCWGC 1 cut(s) 404
ApoI RAATTY 2 cut(s) 232, 518
AspLEI GCGC 2 cut(s) 507, 859
AspS9I GGNCC 2 cut(s) 255, 632
AsuHPI GGTGA 3 cut(s) 68, 499, 763
AvaI CYCGRG 1 cut(s) 38
AvaII GGWCC 1 cut(s) 632
BalI TGGCCA 1 cut(s) 5
BanI GGYRCC 1 cut(s) 52
BanII GRGCYC 1 cut(s) 157
BauI CACGAG 1 cut(s) 183
Bbv12I GWGCWC 1 cut(s) 184
BbvI GCAGC 1 cut(s) 416
BccI CCATC 4 cut(s) 64, 81, 163, 312
BciT130I CCWGG 3 cut(s) 362, 630, 642
BclI TGATCA 2 cut(s) 370, 481
BcoDI GTCTC 1 cut(s) 413
BfaI CTAG 5 cut(s) 473, 594, 662, 713, 833
BfmI CTRYAG 1 cut(s) 408
BglII AGATCT 1 cut(s) 273
BisI GCNGC 2 cut(s) 405, 804
BlsI GCNGC 2 cut(s) 406, 805
Bme1390I CCNGG 3 cut(s) 362, 630, 642
Bme18I GGWCC 1 cut(s) 632
BmeT110I CYCGRG 1 cut(s) 38
BmgT120I GGNCC 2 cut(s) 255, 632
BmiI GGNNCC 3 cut(s) 54, 156, 513
BmrFI CCNGG 3 cut(s) 362, 630, 642
Bsa29I ATCGAT 1 cut(s) 316
BsaI GGTCTC 1 cut(s) 413
BsaJI CCNNGG 1 cut(s) 258
BsaXI ACNNNNNCTCC 2 cut(s) 827, 857
Bsc4I CCNNNNNNNGG 1 cut(s) 641
Bse3DI GCAATG 2 cut(s) 54, 807
BseBI CCWGG 3 cut(s) 362, 630, 642
BseCI ATCGAT 1 cut(s) 316
BseDI CCNNGG 1 cut(s) 258
BseGI GGATG 3 cut(s) 56, 69, 174
BseLI CCNNNNNNNGG 1 cut(s) 641
BseMI GCAATG 2 cut(s) 54, 807
BseMII CTCAG 1 cut(s) 401
BseRI GAGGAG 1 cut(s) 147
BseXI GCAGC 1 cut(s) 416
BsgI GTGCAG 1 cut(s) 222
BshFI GGCC 5 cut(s) 5, 257, 322, 383, 803
BshNI GGYRCC 1 cut(s) 52
BshVI ATCGAT 1 cut(s) 316
BsiHKAI GWGCWC 1 cut(s) 184
BsiHKCI CYCGRG 1 cut(s) 38
BslFI GGGAC 1 cut(s) 418
BslI CCNNNNNNNGG 1 cut(s) 641
BsmAI GTCTC 1 cut(s) 413
BsmFI GGGAC 1 cut(s) 418
BsmI GAATGC 2 cut(s) 444, 583
BsnI GGCC 5 cut(s) 5, 257, 322, 383, 803
Bso31I GGTCTC 1 cut(s) 413
BsoBI CYCGRG 1 cut(s) 38
Bsp1286I GDGCHC 2 cut(s) 157, 184
Bsp143I GATC 4 cut(s) 273, 370, 481, 673
Bsp19I CCATGG 1 cut(s) 258
BspACI CCGC 3 cut(s) 166, 225, 804
BspANI GGCC 5 cut(s) 5, 257, 322, 383, 803
BspCNI CTCAG 1 cut(s) 400
BspDI ATCGAT 1 cut(s) 316
BspLI GGNNCC 3 cut(s) 54, 156, 513
BspPI GGATC 1 cut(s) 668
BspQI GCTCTTC 1 cut(s) 819
BspT107I GGYRCC 1 cut(s) 52
BspTNI GGTCTC 1 cut(s) 413
BsrDI GCAATG 2 cut(s) 54, 807
BssECI CCNNGG 1 cut(s) 258
BssMI GATC 4 cut(s) 273, 370, 481, 673
BssSI CACGAG 1 cut(s) 183
BssT1I CCWWGG 1 cut(s) 258
Bst2BI CACGAG 1 cut(s) 183
Bst2UI CCWGG 3 cut(s) 362, 630, 642
Bst4CI ACNGT 3 cut(s) 30, 243, 656
Bst6I CTCTTC 2 cut(s) 642, 819
BstC8I GCNNGC 1 cut(s) 45
BstDEI CTNAG 1 cut(s) 387
BstDSI CCRYGG 1 cut(s) 258
BstEII GGTNACC 1 cut(s) 749
BstENI CCTNNNNNAGG 1 cut(s) 639
BstF5I GGATG 3 cut(s) 56, 69, 174
BstHHI GCGC 2 cut(s) 507, 859
BstKTI GATC 4 cut(s) 276, 373, 484, 676
BstMAI GTCTC 1 cut(s) 413
BstMBI GATC 4 cut(s) 273, 370, 481, 673
BstMWI GCNNNNNNNGC 2 cut(s) 224, 809
BstNI CCWGG 3 cut(s) 362, 630, 642
BstNSI RCATGY 1 cut(s) 454
BstPI GGTNACC 1 cut(s) 749
BstSCI CCNGG 3 cut(s) 360, 628, 640
BstSFI CTRYAG 1 cut(s) 408
BstV1I GCAGC 1 cut(s) 416
BstX2I RGATCY 2 cut(s) 273, 673
BstYI RGATCY 2 cut(s) 273, 673
Bsu15I ATCGAT 1 cut(s) 316
BsuRI GGCC 5 cut(s) 5, 257, 322, 383, 803
BsuTUI ATCGAT 1 cut(s) 316
BtgI CCRYGG 1 cut(s) 258
BtgZI GCGATG 1 cut(s) 368
BtsCI GGATG 3 cut(s) 56, 69, 174
BtsI GCAGTG 1 cut(s) 737
BtsIMutI CAGTG 1 cut(s) 737
Cac8I GCNNGC 1 cut(s) 45
CfoI GCGC 2 cut(s) 507, 859
Cfr13I GGNCC 2 cut(s) 255, 632
ClaI ATCGAT 1 cut(s) 316
CseI GACGC 1 cut(s) 818
CsiI ACCWGGT 1 cut(s) 628
CviAII CATG 3 cut(s) 163, 259, 451
DdeI CTNAG 1 cut(s) 387
DpnI GATC 4 cut(s) 275, 372, 483, 675
DpnII GATC 4 cut(s) 273, 370, 481, 673
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 2 cut(s) 642, 819
EarI CTCTTC 2 cut(s) 642, 819
Eco130I CCWWGG 1 cut(s) 258
Eco24I GRGCYC 1 cut(s) 157
Eco31I GGTCTC 1 cut(s) 413
Eco47I GGWCC 1 cut(s) 632
Eco88I CYCGRG 1 cut(s) 38
Eco91I GGTNACC 1 cut(s) 749
EcoNI CCTNNNNNAGG 1 cut(s) 639
EcoO109I RGGNCCY 1 cut(s) 632
EcoO65I GGTNACC 1 cut(s) 749
EcoRII CCWGG 3 cut(s) 360, 628, 640
EcoT14I CCWWGG 1 cut(s) 258
EcoT38I GRGCYC 1 cut(s) 157
ErhI CCWWGG 1 cut(s) 258
FaeI CATG 3 cut(s) 166, 262, 454
FaqI GGGAC 1 cut(s) 418
FatI CATG 3 cut(s) 162, 258, 450
FauI CCCGC 1 cut(s) 232
FauNDI CATATG 2 cut(s) 149, 679
FbaI TGATCA 2 cut(s) 370, 481
Fnu4HI GCNGC 2 cut(s) 405, 804
FokI GGATG 3 cut(s) 43, 56, 181
FriOI GRGCYC 1 cut(s) 157
Fsp4HI GCNGC 2 cut(s) 405, 804
FspBI CTAG 5 cut(s) 473, 594, 662, 713, 833
FspI TGCGCA 1 cut(s) 506
GlaI GCGC 2 cut(s) 506, 858
GluI GCNGC 2 cut(s) 405, 804
HaeIII GGCC 5 cut(s) 5, 257, 322, 383, 803
HgaI GACGC 1 cut(s) 818
HhaI GCGC 2 cut(s) 507, 859
Hin1II CATG 3 cut(s) 166, 262, 454
Hin6I GCGC 2 cut(s) 505, 857
HinP1I GCGC 2 cut(s) 505, 857
HindIII AAGCTT 1 cut(s) 249
HinfI GANTC 3 cut(s) 134, 599, 790
HphI GGTGA 3 cut(s) 68, 499, 763
Hpy166II GTNNAC 3 cut(s) 448, 464, 668
Hpy188I TCNGA 3 cut(s) 204, 390, 565
Hpy188III TCNNGA 6 cut(s) 38, 127, 416, 435, 783, 833
Hpy8I GTNNAC 3 cut(s) 448, 464, 668
HpyAV CCTTC 4 cut(s) 14, 184, 208, 865
HpyCH4III ACNGT 3 cut(s) 30, 243, 656
HpyCH4V TGCA 5 cut(s) 239, 404, 559, 683, 696
HpyF10VI GCNNNNNNNGC 2 cut(s) 224, 809
HpyF3I CTNAG 1 cut(s) 387
Hsp92II CATG 3 cut(s) 166, 262, 454
HspAI GCGC 2 cut(s) 505, 857
Ksp22I TGATCA 2 cut(s) 370, 481
Kzo9I GATC 4 cut(s) 273, 370, 481, 673
LguI GCTCTTC 1 cut(s) 819
LmnI GCTCC 3 cut(s) 160, 179, 529
Lsp1109I GCAGC 1 cut(s) 416
MabI ACCWGGT 1 cut(s) 628
MaeI CTAG 5 cut(s) 473, 594, 662, 713, 833
MaeIII GTNAC 2 cut(s) 749, 880
MalI GATC 4 cut(s) 275, 372, 483, 675
MboI GATC 4 cut(s) 273, 370, 481, 673
MboII GAAGA 3 cut(s) 594, 629, 836
MflI RGATCY 2 cut(s) 273, 673
MhlI GDGCHC 2 cut(s) 157, 184
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 5 cut(s) 15, 232, 281, 366, 518
MluNI TGGCCA 1 cut(s) 5
MmeI TCCRAC 3 cut(s) 162, 643, 744
MnlI CCTC 8 cut(s) 70, 168, 179, 394, 433, 645, 669, 853
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MslI CAYNNNNRTG 1 cut(s) 167
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 1 cut(s) 407
MspR9I CCNGG 3 cut(s) 362, 630, 642
Mva1269I GAATGC 2 cut(s) 444, 583
MvaI CCWGG 3 cut(s) 362, 630, 642
MwoI GCNNNNNNNGC 2 cut(s) 224, 809
NcoI CCATGG 1 cut(s) 258
NdeI CATATG 2 cut(s) 149, 679
NdeII GATC 4 cut(s) 273, 370, 481, 673
NlaIII CATG 3 cut(s) 166, 262, 454
NlaIV GGNNCC 3 cut(s) 54, 156, 513
NsbI TGCGCA 1 cut(s) 506
NspI RCATGY 1 cut(s) 454
PciI ACATGT 1 cut(s) 450
PciSI GCTCTTC 1 cut(s) 819
PctI GAATGC 2 cut(s) 444, 583
PfeI GAWTC 3 cut(s) 134, 599, 790
PfoI TCCNGGA 1 cut(s) 360
PkrI GCNGC 2 cut(s) 406, 805
PpuMI RGGWCCY 1 cut(s) 632
PscI ACATGT 1 cut(s) 450
Psp5II RGGWCCY 1 cut(s) 632
Psp6I CCWGG 3 cut(s) 360, 628, 640
PspEI GGTNACC 1 cut(s) 749
PspGI CCWGG 3 cut(s) 360, 628, 640
PspN4I GGNNCC 3 cut(s) 54, 156, 513
PspPI GGNCC 2 cut(s) 255, 632
PspPPI RGGWCCY 1 cut(s) 632
PsuI RGATCY 2 cut(s) 273, 673
PvuII CAGCTG 1 cut(s) 407
RseI CAYNNNNRTG 1 cut(s) 167
SapI GCTCTTC 1 cut(s) 819
SatI GCNGC 2 cut(s) 405, 804
Sau3AI GATC 4 cut(s) 273, 370, 481, 673
Sau96I GGNCC 2 cut(s) 255, 632
ScrFI CCNGG 3 cut(s) 362, 630, 642
SduI GDGCHC 2 cut(s) 157, 184
SexAI ACCWGGT 1 cut(s) 628
SfcI CTRYAG 1 cut(s) 408
SinI GGWCC 1 cut(s) 632
SmiMI CAYNNNNRTG 1 cut(s) 167
Sse9I AATT 5 cut(s) 15, 232, 281, 366, 518
SsiI CCGC 3 cut(s) 166, 225, 804
SspMI CTAG 5 cut(s) 473, 594, 662, 713, 833
StyD4I CCNGG 3 cut(s) 360, 628, 640
StyI CCWWGG 1 cut(s) 258
TaaI ACNGT 3 cut(s) 30, 243, 656
TaqI TCGA 2 cut(s) 316, 587
TasI AATT 5 cut(s) 15, 232, 281, 366, 518
TauI GCSGC 1 cut(s) 806
TfiI GAWTC 3 cut(s) 134, 599, 790
TscAI CASTG 1 cut(s) 737
TseI GCWGC 1 cut(s) 404
TspDTI ATGAA 4 cut(s) 147, 282, 753, 884
TspRI CASTG 1 cut(s) 737
VpaK11BI GGWCC 1 cut(s) 632
XagI CCTNNNNNAGG 1 cut(s) 639
XapI RAATTY 2 cut(s) 232, 518
XbaI TCTAGA 1 cut(s) 832
XceI RCATGY 1 cut(s) 454
XspI CTAG 5 cut(s) 473, 594, 662, 713, 833
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.