Rw0G005250

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00204
OG0000128
Physical Location & Seq
Forward (+)
123862 .. 124716
855 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G005250.1

Sequence Viewer

Length: 774 bp
ATGCCATATGGGTACCAACCGCCCAAGTTTCAACAATTCGAGGGGAAGGGTAATCCAAAACAACAAATTGCCCATTTTGTCGAGACTTGCAACAATGGAGGAACGGAGGGAGATCATTTTGTTAAGCAGTTTGTACGTTCATTAAAAGGCAACGCCTTCGAATGGTACACTGATCTGGAACCGGAGTCAATCGACAGTTGGGATCAGATGGAGTGTGAGCTCCTGAATCGTTTCTATAGCACGAGATGCACAGTGAGCATGATGGAACTTACTAGCACTAAGCAATGGAAGGATGAACGCGCAATTGATTACATCAATAGGTGGCGTTCATTGAGTCTCGATTGGATCAAGCCCCGTACGTTTGAAGAGCTGGCTACGCGAGCACACGACATGGAGTTGAGTATAGCTAGCCACAAAGGGAAGAAGGAGTCAATTGTTGACCAAAGGAAATACAAGGTCTTCGGAAGCAAGATTGATAGGGCACCAAAGAAATCTGCAAAAGAATCGATGACCGTCAACATTGCCCCAGTCAAAATCTGGACACGAGATAAGAAGGTTAAGAAAGCTGAGCCAACTCGCACCTTCGACAGAACAAAGCGTTCGTTGAAGGAATGGAAACAAAAGACATATCCTTTCCCAGATTCTGACGTGGCAGGCATGTTGGAAGAACTACTTGAGAAGAAGGTGATAGAGCTCCCAGAATGCAAGCGGCTCGAGGAAATGCATCATGTTAAGGATCCGAAATACTGCAAGTACCATCGGCTTTGGTACTAG
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 Retrotrans_gag

Protein Analysis

257

Amino Acids

30.56

Weight (kDa)

9.14

Isoelectric Point (pI)

46.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 44 - 113 1.1e-07 Retrotransposon gag 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: OG0000128)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28082 FvH4_2g15191 FvH4_2g31621 FvH4_3g07261 FvH4_3g22806 FvH4_3g26703 FvH4_3g26704 FvH4_3g31360 FvH4_4g01161 FvH4_4g22271 FvH4_4g25732 FvH4_5g00242 FvH4_5g28911 FvH4_5g32461 FvH4_6g13112 FvH4_6g53790 FvH4_6g53791 FvH4_7g03661 FvH4_7g04125 FvH4_7g04126
pyrus_communis pycom01g01950 pycom01g01960 pycom01g03260 pycom01g07760 pycom01g11430 pycom01g23980 pycom02g15030 pycom02g18630 pycom03g12320 pycom03g18810 pycom03g19250 pycom04g05010 pycom04g06520 pycom04g06680 pycom04g09630 pycom04g09640 pycom05g06850 pycom05g07540 pycom05g08940 pycom06g04300 pycom06g05750 pycom06g06960 pycom06g19690 pycom07g08750 pycom07g10700 pycom07g10910 pycom07g27480 pycom07g27790 pycom07g27800 pycom08g13620 pycom09g03540 pycom09g03550 pycom09g09870 pycom09g13480 pycom09g14360 pycom09g14890 pycom09g14930 pycom09g15760 pycom10g02190 pycom10g05270 pycom10g06810 pycom10g06830 pycom10g08060 pycom10g08520 pycom11g02350 pycom11g14170 pycom11g15050 pycom11g19270 pycom11g20160 pycom11g22420 pycom12g08620 pycom12g08630 pycom12g10440 pycom12g16590 pycom133g00190 pycom13g20730 pycom13g22230 pycom13g22670 pycom13g23230 pycom13g23250 pycom13g24880 pycom13g25300 pycom13g28040 pycom13g29010 pycom14g07570 pycom14g18650 pycom15g04500 pycom15g09310 pycom15g27210 pycom15g30810 pycom15g34920 pycom16g16040 pycom16g17260 pycom16g17940 pycom16g20990 pycom16g23470 pycom16g24160 pycom16g24720 pycom16g25910 pycom16g25920 pycom16g26370 pycom17g03310 pycom17g12670 pycom17g17530 pycom17g25090 pycom17g27300 pycom17g27310 pycom420g00140 pycom420g00160 pycom420g00320 pycom505g00220 pycom520g00740 pycom520g01010 pycom520g01020 pycom576g00060 pycom675g00040
rosa_laevigata RLG00000022630
rosa_multiflora Rmu_co7993280.1_g000001 Rmu_co8054704.1_g000001 Rmu_co8148394.1_g000001 Rmu_co8243015.1_g000001 Rmu_co8272095.1_g000001 Rmu_co8282359.1_g000001 Rmu_co8334783.1_g000001 Rmu_co8404405.1_g000001 Rmu_sc0000161.1_g000030 Rmu_sc0000418.1_g000026 Rmu_sc0000488.1_g000015 Rmu_sc0000706.1_g000041 Rmu_sc0000720.1_g000013 Rmu_sc0000776.1_g000022 Rmu_sc0000948.1_g000017 Rmu_sc0001167.1_g000045 Rmu_sc0001167.1_g000047 Rmu_sc0001211.1_g000054 Rmu_sc0001241.1_g000019 Rmu_sc0001307.1_g000021 Rmu_sc0001438.1_g000043 Rmu_sc0001468.1_g000032 Rmu_sc0001851.1_g000020 Rmu_sc0002026.1_g000023 Rmu_sc0002811.1_g000016 Rmu_sc0002958.1_g000002 Rmu_sc0002958.1_g000003 Rmu_sc0003745.1_g000010 Rmu_sc0004234.1_g000006 Rmu_sc0004234.1_g000008 Rmu_sc0005035.1_g000001 Rmu_sc0005320.1_g000010 Rmu_sc0005866.1_g000006 Rmu_sc0006139.1_g000009 Rmu_sc0006504.1_g000008 Rmu_sc0006695.1_g000049 Rmu_sc0006695.1_g000050 Rmu_sc0006981.1_g000001 Rmu_sc0007108.1_g000012 Rmu_sc0007355.1_g000001 Rmu_sc0007873.1_g000015 Rmu_sc0007961.1_g000003 Rmu_sc0008991.1_g000005 Rmu_sc0009528.1_g000009 Rmu_sc0013299.1_g000003 Rmu_sc0013532.1_g000015 Rmu_sc0015524.1_g000001 Rmu_sc0015793.1_g000001 Rmu_sc0015817.1_g000006 Rmu_sc0015930.1_g000003 Rmu_sc0015930.1_g000006 Rmu_sc0016952.1_g000002 Rmu_sc0016952.1_g000003 Rmu_sc0018715.1_g000003 Rmu_sc0018715.1_g000005 Rmu_sc0023934.1_g000003 Rmu_sc0023989.1_g000002 Rmu_sc0023989.1_g000003 Rmu_sc0028612.1_g000001 Rmu_sc0029049.1_g000001 Rmu_sc0029639.1_g000001 Rmu_sc0035263.1_g000001 Rmu_sc0037892.1_g000001 Rmu_ssc0000170.1_g000024 Rmu_ssc0000233.1_g000057 Rmu_ssc0000259.1_g000055 Rmu_ssc0000259.1_g000057
rosa_roxburghii Rroxscaffold_4G00287780 Rroxscaffold_4G00325290 Rroxscaffold_5G00333910 Rroxscaffold_7G00211350
rosa_rugosa Rorug01G0056300 Rorug04G0149000 Rorug07G0222000
rosa_samantha Rh1AG072900 Rh1CG072000
rosa_wichuraiana Rw0G003630 Rw0G005250 Rw0G020770 Rw0G023770 Rw1G005460 Rw1G005980 Rw1G007190 Rw1G011350 Rw1G022520 Rw1G028660 Rw2G018620 Rw2G019490 Rw4G006910 Rw4G013020 Rw4G023970 Rw5G044650 Rw6G006590 Rw6G012210 Rw6G023750 Rw7G027370 Rw7G027460 Rw7G035570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 12
AccB1I GGYRCC 2 cut(s) 12, 481
AccII CGCG 2 cut(s) 300, 379
AciI CCGC 2 cut(s) 20, 709
AclWI GGATC 4 cut(s) 210, 353, 731, 744
AfaI GTAC 6 cut(s) 14, 135, 167, 358, 755, 770
AfiI CCNNNNNNNGG 1 cut(s) 162
AgsI TTSAA 3 cut(s) 32, 365, 607
AjiI CACGTC 1 cut(s) 649
AluBI AGCT 5 cut(s) 220, 370, 407, 566, 694
AluI AGCT 5 cut(s) 220, 370, 407, 566, 694
Alw21I GWGCWC 3 cut(s) 222, 385, 696
Alw26I GTCTC 2 cut(s) 77, 341
AlwI GGATC 4 cut(s) 210, 353, 731, 744
AlwNI CAGNNNCTG 1 cut(s) 644
Ama87I CYCGRG 1 cut(s) 713
Asp700I GAANNNNTTC 1 cut(s) 230
Asp718I GGTACC 1 cut(s) 12
AspLEI GCGC 1 cut(s) 302
AsuHPI GGTGA 1 cut(s) 697
AsuII TTCGAA 1 cut(s) 159
AsuNHI GCTAGC 1 cut(s) 407
AvaI CYCGRG 1 cut(s) 713
BaeGI GKGCMC 1 cut(s) 484
BamHI GGATCC 1 cut(s) 736
BanI GGYRCC 2 cut(s) 12, 481
BanII GRGCYC 2 cut(s) 222, 696
BauI CACGAG 2 cut(s) 241, 543
BbsI GAAGAC 1 cut(s) 451
Bbv12I GWGCWC 3 cut(s) 222, 385, 696
BccI CCATC 3 cut(s) 202, 256, 765
BcgI CGANNNNNNTGC 6 cut(s) 139, 173, 486, 520, 694, 728
BcoDI GTCTC 2 cut(s) 77, 341
BfaI CTAG 3 cut(s) 273, 408, 772
BfmI CTRYAG 1 cut(s) 235
BisI GCNGC 1 cut(s) 710
BlpI GCTNAGC 1 cut(s) 567
BlsI GCNGC 1 cut(s) 711
BmeT110I CYCGRG 1 cut(s) 713
BmgBI CACGTC 1 cut(s) 649
BmiI GGNNCC 4 cut(s) 14, 180, 483, 738
BmrI ACTGGG 1 cut(s) 521
BmsI GCATC 2 cut(s) 236, 733
BmtI GCTAGC 1 cut(s) 411
BmuI ACTGGG 1 cut(s) 521
BpiI GAAGAC 1 cut(s) 451
Bpu1102I GCTNAGC 1 cut(s) 567
Bpu14I TTCGAA 1 cut(s) 159
BpuEI CTTGAG 1 cut(s) 695
Bsa29I ATCGAT 1 cut(s) 506
BsaWI WCCGGW 1 cut(s) 181
Bsc4I CCNNNNNNNGG 1 cut(s) 162
Bse1I ACTGG 1 cut(s) 527
Bse3DI GCAATG 2 cut(s) 290, 519
BseCI ATCGAT 1 cut(s) 506
BseGI GGATG 1 cut(s) 298
BseLI CCNNNNNNNGG 1 cut(s) 162
BseMI GCAATG 2 cut(s) 290, 519
BseMII CTCAG 1 cut(s) 558
BseNI ACTGG 1 cut(s) 527
BseSI GKGCMC 1 cut(s) 484
Bsh1236I CGCG 2 cut(s) 300, 379
BshNI GGYRCC 2 cut(s) 12, 481
BshVI ATCGAT 1 cut(s) 506
BsiHKAI GWGCWC 3 cut(s) 222, 385, 696
BsiHKCI CYCGRG 1 cut(s) 713
BsiSI CCGG 1 cut(s) 182
BsiWI CGTACG 1 cut(s) 356
BslI CCNNNNNNNGG 1 cut(s) 162
BsmAI GTCTC 2 cut(s) 77, 341
BsmI GAATGC 1 cut(s) 707
BsoBI CYCGRG 1 cut(s) 713
Bsp119I TTCGAA 1 cut(s) 159
Bsp1286I GDGCHC 4 cut(s) 222, 385, 484, 696
Bsp143I GATC 5 cut(s) 112, 172, 202, 345, 736
Bsp1720I GCTNAGC 1 cut(s) 567
BspACI CCGC 2 cut(s) 20, 709
BspCNI CTCAG 1 cut(s) 559
BspDI ATCGAT 1 cut(s) 506
BspFNI CGCG 2 cut(s) 300, 379
BspLI GGNNCC 4 cut(s) 14, 180, 483, 738
BspOI GCTAGC 1 cut(s) 411
BspPI GGATC 4 cut(s) 210, 353, 731, 744
BspQI GCTCTTC 1 cut(s) 360
BspT104I TTCGAA 1 cut(s) 159
BspT107I GGYRCC 2 cut(s) 12, 481
BsrDI GCAATG 2 cut(s) 290, 519
BsrI ACTGG 1 cut(s) 527
BssMI GATC 5 cut(s) 112, 172, 202, 345, 736
BssSI CACGAG 2 cut(s) 241, 543
Bst2BI CACGAG 2 cut(s) 241, 543
Bst4CI ACNGT 3 cut(s) 197, 253, 514
Bst6I CTCTTC 1 cut(s) 360
BstAPI GCANNNNNTGC 1 cut(s) 246
BstBI TTCGAA 1 cut(s) 159
BstC8I GCNNGC 5 cut(s) 372, 381, 409, 655, 707
BstDEI CTNAG 2 cut(s) 279, 567
BstF5I GGATG 1 cut(s) 298
BstFNI CGCG 2 cut(s) 300, 379
BstHHI GCGC 1 cut(s) 302
BstKTI GATC 5 cut(s) 115, 175, 205, 348, 739
BstMAI GTCTC 2 cut(s) 77, 341
BstMBI GATC 5 cut(s) 112, 172, 202, 345, 736
BstMWI GCNNNNNNNGC 4 cut(s) 246, 255, 376, 380
BstNSI RCATGY 1 cut(s) 661
BstSFI CTRYAG 1 cut(s) 235
BstSLI GKGCMC 1 cut(s) 484
BstUI CGCG 2 cut(s) 300, 379
BstV2I GAAGAC 1 cut(s) 451
BstX2I RGATCY 1 cut(s) 736
BstYI RGATCY 1 cut(s) 736
Bsu15I ATCGAT 1 cut(s) 506
BsuTUI ATCGAT 1 cut(s) 506
BtrI CACGTC 1 cut(s) 649
BtsCI GGATG 1 cut(s) 298
BtsIMutI CAGTG 2 cut(s) 168, 258
Cac8I GCNNGC 5 cut(s) 372, 381, 409, 655, 707
CaiI CAGNNNCTG 1 cut(s) 644
CfoI GCGC 1 cut(s) 302
ClaI ATCGAT 1 cut(s) 506
Csp6I GTAC 6 cut(s) 13, 134, 166, 357, 754, 769
CviAII CATG 4 cut(s) 259, 391, 658, 728
CviQI GTAC 6 cut(s) 13, 134, 166, 357, 754, 769
DdeI CTNAG 2 cut(s) 279, 567
DpnI GATC 5 cut(s) 114, 174, 204, 347, 738
DpnII GATC 5 cut(s) 112, 172, 202, 345, 736
Eam1104I CTCTTC 1 cut(s) 360
EarI CTCTTC 1 cut(s) 360
Ecl136II GAGCTC 2 cut(s) 220, 694
Eco24I GRGCYC 2 cut(s) 222, 696
Eco53kI GAGCTC 2 cut(s) 220, 694
Eco88I CYCGRG 1 cut(s) 713
EcoICRI GAGCTC 2 cut(s) 220, 694
EcoT22I ATGCAT 1 cut(s) 726
EcoT38I GRGCYC 2 cut(s) 222, 696
FaeI CATG 4 cut(s) 262, 394, 661, 731
FaiI YATR 9 cut(s) 7, 9, 237, 260, 392, 404, 628, 659, 729
FalI AAGNNNNNCTT 2 cut(s) 657, 689
FatI CATG 4 cut(s) 258, 390, 657, 727
FauNDI CATATG 1 cut(s) 7
Fnu4HI GCNGC 1 cut(s) 710
FokI GGATG 1 cut(s) 305
FriOI GRGCYC 2 cut(s) 222, 696
Fsp4HI GCNGC 1 cut(s) 710
FspBI CTAG 3 cut(s) 273, 408, 772
GlaI GCGC 1 cut(s) 301
GluI GCNGC 1 cut(s) 710
HapII CCGG 1 cut(s) 182
HhaI GCGC 1 cut(s) 302
Hin1II CATG 4 cut(s) 262, 394, 661, 731
Hin6I GCGC 1 cut(s) 300
HinP1I GCGC 1 cut(s) 300
HincII GTYRAC 2 cut(s) 439, 517
HindII GTYRAC 2 cut(s) 439, 517
HinfI GANTC 6 cut(s) 185, 226, 334, 428, 503, 641
HpaII CCGG 1 cut(s) 182
HphI GGTGA 1 cut(s) 697
Hpy166II GTNNAC 3 cut(s) 168, 439, 517
Hpy188I TCNGA 4 cut(s) 207, 464, 646, 741
Hpy188III TCNNGA 5 cut(s) 82, 176, 223, 338, 538
Hpy8I GTNNAC 3 cut(s) 168, 439, 517
HpyAV CCTTC 8 cut(s) 40, 166, 283, 418, 547, 592, 601, 676
HpyCH4III ACNGT 3 cut(s) 197, 253, 514
HpyCH4IV ACGT 3 cut(s) 136, 359, 648
HpyCH4V TGCA 6 cut(s) 90, 249, 497, 705, 724, 750
HpyF10VI GCNNNNNNNGC 4 cut(s) 246, 255, 376, 380
HpyF3I CTNAG 2 cut(s) 279, 567
HpySE526I ACGT 3 cut(s) 136, 359, 648
Hsp92II CATG 4 cut(s) 262, 394, 661, 731
HspAI GCGC 1 cut(s) 300
KpnI GGTACC 1 cut(s) 16
Kzo9I GATC 5 cut(s) 112, 172, 202, 345, 736
LguI GCTCTTC 1 cut(s) 360
LmnI GCTCC 2 cut(s) 225, 699
LpnPI CCDG 9 cut(s) 161, 195, 236, 356, 523, 540, 639, 651, 711
LweI GCATC 2 cut(s) 236, 733
MaeI CTAG 3 cut(s) 273, 408, 772
MaeII ACGT 3 cut(s) 136, 359, 648
MalI GATC 5 cut(s) 114, 174, 204, 347, 738
MboI GATC 5 cut(s) 112, 172, 202, 345, 736
MboII GAAGA 5 cut(s) 377, 433, 451, 677, 691
MfeI CAATTG 2 cut(s) 303, 432
MflI RGATCY 1 cut(s) 736
MhlI GDGCHC 4 cut(s) 222, 385, 484, 696
MluCI AATT 4 cut(s) 35, 66, 303, 432
MlyI GAGTC 3 cut(s) 194, 343, 437
MmeI TCCRAC 1 cut(s) 642
MnlI CCTC 4 cut(s) 34, 92, 100, 709
Mph1103I ATGCAT 1 cut(s) 726
MroXI GAANNNNTTC 1 cut(s) 230
MseI TTAA 4 cut(s) 123, 143, 558, 732
MspI CCGG 1 cut(s) 182
MunI CAATTG 2 cut(s) 303, 432
Mva1269I GAATGC 1 cut(s) 707
MvnI CGCG 2 cut(s) 300, 379
MwoI GCNNNNNNNGC 4 cut(s) 246, 255, 376, 380
NdeI CATATG 1 cut(s) 7
NdeII GATC 5 cut(s) 112, 172, 202, 345, 736
NheI GCTAGC 1 cut(s) 407
NlaIII CATG 4 cut(s) 262, 394, 661, 731
NlaIV GGNNCC 4 cut(s) 14, 180, 483, 738
NsiI ATGCAT 1 cut(s) 726
NspI RCATGY 1 cut(s) 661
NspV TTCGAA 1 cut(s) 159
PaeR7I CTCGAG 1 cut(s) 713
PciSI GCTCTTC 1 cut(s) 360
PctI GAATGC 1 cut(s) 707
PdmI GAANNNNTTC 1 cut(s) 230
PfeI GAWTC 3 cut(s) 226, 503, 641
Pfl23II CGTACG 1 cut(s) 356
PkrI GCNGC 1 cut(s) 711
PleI GAGTC 3 cut(s) 193, 342, 436
PpsI GAGTC 3 cut(s) 193, 342, 436
Psp124BI GAGCTC 2 cut(s) 222, 696
PspLI CGTACG 1 cut(s) 356
PspN4I GGNNCC 4 cut(s) 14, 180, 483, 738
PspXI VCTCGAGB 1 cut(s) 713
PstNI CAGNNNCTG 1 cut(s) 644
PsuI RGATCY 1 cut(s) 736
RsaI GTAC 6 cut(s) 14, 135, 167, 358, 755, 770
RsaNI GTAC 6 cut(s) 13, 134, 166, 357, 754, 769
SacI GAGCTC 2 cut(s) 222, 696
SapI GCTCTTC 1 cut(s) 360
SaqAI TTAA 4 cut(s) 123, 143, 558, 732
SatI GCNGC 1 cut(s) 710
Sau3AI GATC 5 cut(s) 112, 172, 202, 345, 736
SchI GAGTC 3 cut(s) 194, 343, 437
SduI GDGCHC 4 cut(s) 222, 385, 484, 696
SfaNI GCATC 2 cut(s) 236, 733
SfcI CTRYAG 1 cut(s) 235
Sfr274I CTCGAG 1 cut(s) 713
SfuI TTCGAA 1 cut(s) 159
SlaI CTCGAG 1 cut(s) 713
SmlI CTYRAG 2 cut(s) 674, 713
SmoI CTYRAG 2 cut(s) 674, 713
Sse9I AATT 4 cut(s) 35, 66, 303, 432
SsiI CCGC 2 cut(s) 20, 709
SspMI CTAG 3 cut(s) 273, 408, 772
SstI GAGCTC 2 cut(s) 222, 696
TaaI ACNGT 3 cut(s) 197, 253, 514
TaiI ACGT 3 cut(s) 139, 362, 651
TaqI TCGA 8 cut(s) 39, 81, 159, 192, 339, 506, 585, 714
TasI AATT 4 cut(s) 35, 66, 303, 432
TauI GCSGC 1 cut(s) 712
TfiI GAWTC 3 cut(s) 226, 503, 641
Tru1I TTAA 4 cut(s) 123, 143, 558, 732
Tru9I TTAA 4 cut(s) 123, 143, 558, 732
TscAI CASTG 2 cut(s) 175, 258
TspDTI ATGAA 3 cut(s) 129, 309, 318
TspGWI ACGGA 1 cut(s) 119
TspRI CASTG 2 cut(s) 175, 258
XceI RCATGY 1 cut(s) 661
XcmI CCANNNNNNNNNTGG 1 cut(s) 534
XhoI CTCGAG 1 cut(s) 713
XmnI GAANNNNTTC 1 cut(s) 230
XspI CTAG 3 cut(s) 273, 408, 772
Zsp2I ATGCAT 1 cut(s) 726
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.