Rmu_sc0002958.1_g000003

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002958.1
OG0000128
Physical Location & Seq
Reverse (-)
1942 .. 2524
583 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002958.1_g000003.1.cds

Sequence Viewer

Length: 480 bp
atggagcgtgagttcctgaatcgcttctatagcaggagacgcacagtgagcatgatggaacttactagcgccaagcaatggaaggacgaacgtacagttgattacatcaacaggtggcgttcattgagtctcgatagcaaagatcgactgtcagaagtatctgcggtggaaatgtgcatccaaggtatgcactttgatttgctatatattttacagggaatcaagccccgtacgtttgaagagctggctacgcgagcacacgacatggagttggaatcgatggccgtcaacattgccccagtcaaaatctcgacacgagataaggaggttaagaaagctgagccaactcgcacctacgacagaacaaagggttcgttgaaggaatggcaacaaaagacatatcctttcccagattctgacgtggcaggcatgttggaagatctacttgagaagaaggtgatagagctcccaaaatgctag
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

159

Amino Acids

18.77

Weight (kDa)

7.73

Isoelectric Point (pI)

52.1

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: 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)
AccB7I CCANNNNNTGG 1 cut(s) 78
AccII CGCG 1 cut(s) 253
AciI CCGC 1 cut(s) 164
AcoI YGGCCR 1 cut(s) 282
AfaI GTAC 2 cut(s) 94, 232
AfiI CCNNNNNNNGG 1 cut(s) 78
AgsI TTSAA 2 cut(s) 239, 379
AjiI CACGTC 1 cut(s) 421
AloI GAACNNNNNNTCC 1 cut(s) 28
AluBI AGCT 3 cut(s) 244, 338, 466
AluI AGCT 3 cut(s) 244, 338, 466
Alw21I GWGCWC 2 cut(s) 259, 468
Alw26I GTCTC 2 cut(s) 31, 134
AlwNI CAGNNNCTG 1 cut(s) 416
AoxI GGCC 1 cut(s) 282
Asp700I GAANNNNTTC 1 cut(s) 23
AspLEI GCGC 1 cut(s) 71
AsuHPI GGTGA 1 cut(s) 469
BanII GRGCYC 1 cut(s) 468
BauI CACGAG 1 cut(s) 315
Bbv12I GWGCWC 2 cut(s) 259, 468
BccI CCATC 2 cut(s) 49, 274
BceAI ACGGC 1 cut(s) 269
BcoDI GTCTC 2 cut(s) 31, 134
BfaI CTAG 2 cut(s) 66, 478
BfmI CTRYAG 1 cut(s) 28
BfoI RGCGCY 1 cut(s) 72
BglII AGATCT 1 cut(s) 439
BlpI GCTNAGC 1 cut(s) 339
BmgBI CACGTC 1 cut(s) 421
BmrI ACTGGG 1 cut(s) 293
BmsI GCATC 1 cut(s) 186
BmuI ACTGGG 1 cut(s) 293
Bpu1102I GCTNAGC 1 cut(s) 339
BpuEI CTTGAG 1 cut(s) 467
Bsa29I ATCGAT 1 cut(s) 278
BsaJI CCNNGG 1 cut(s) 181
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bsc4I CCNNNNNNNGG 1 cut(s) 78
Bse1I ACTGG 1 cut(s) 299
Bse3DI GCAATG 2 cut(s) 83, 291
BseCI ATCGAT 1 cut(s) 278
BseDI CCNNGG 1 cut(s) 181
BseGI GGATG 1 cut(s) 177
BseLI CCNNNNNNNGG 1 cut(s) 78
BseMI GCAATG 2 cut(s) 83, 291
BseMII CTCAG 1 cut(s) 330
BseNI ACTGG 1 cut(s) 299
Bsh1236I CGCG 1 cut(s) 253
BshFI GGCC 1 cut(s) 284
BshVI ATCGAT 1 cut(s) 278
BsiHKAI GWGCWC 2 cut(s) 259, 468
BsiWI CGTACG 1 cut(s) 230
BslI CCNNNNNNNGG 1 cut(s) 78
BsmAI GTCTC 2 cut(s) 31, 134
BsmBI CGTCTC 1 cut(s) 31
BsnI GGCC 1 cut(s) 284
Bsp1286I GDGCHC 2 cut(s) 259, 468
Bsp143I GATC 2 cut(s) 142, 439
Bsp1720I GCTNAGC 1 cut(s) 339
BspACI CCGC 1 cut(s) 164
BspANI GGCC 1 cut(s) 284
BspCNI CTCAG 1 cut(s) 331
BspDI ATCGAT 1 cut(s) 278
BspFNI CGCG 1 cut(s) 253
BspQI GCTCTTC 1 cut(s) 234
BsrDI GCAATG 2 cut(s) 83, 291
BsrI ACTGG 1 cut(s) 299
BssECI CCNNGG 1 cut(s) 181
BssMI GATC 2 cut(s) 142, 439
BssSI CACGAG 1 cut(s) 315
BssT1I CCWWGG 1 cut(s) 181
Bst2BI CACGAG 1 cut(s) 315
Bst4CI ACNGT 3 cut(s) 46, 97, 150
Bst6I CTCTTC 1 cut(s) 234
BstC8I GCNNGC 3 cut(s) 246, 255, 427
BstDEI CTNAG 1 cut(s) 339
BstF5I GGATG 1 cut(s) 177
BstFNI CGCG 1 cut(s) 253
BstH2I RGCGCY 1 cut(s) 72
BstHHI GCGC 1 cut(s) 71
BstKTI GATC 2 cut(s) 145, 442
BstMAI GTCTC 2 cut(s) 31, 134
BstMBI GATC 2 cut(s) 142, 439
BstMWI GCNNNNNNNGC 5 cut(s) 30, 39, 48, 250, 254
BstNSI RCATGY 1 cut(s) 433
BstSFI CTRYAG 1 cut(s) 28
BstUI CGCG 1 cut(s) 253
BstX2I RGATCY 1 cut(s) 439
BstYI RGATCY 1 cut(s) 439
Bsu15I ATCGAT 1 cut(s) 278
BsuRI GGCC 1 cut(s) 284
BsuTUI ATCGAT 1 cut(s) 278
BtrI CACGTC 1 cut(s) 421
BtsCI GGATG 1 cut(s) 177
BtsIMutI CAGTG 1 cut(s) 51
Cac8I GCNNGC 3 cut(s) 246, 255, 427
CaiI CAGNNNCTG 1 cut(s) 416
CfoI GCGC 1 cut(s) 71
ClaI ATCGAT 1 cut(s) 278
CseI GACGC 1 cut(s) 48
Csp6I GTAC 2 cut(s) 93, 231
CviAII CATG 3 cut(s) 52, 265, 430
CviJI RGCY 7 cut(s) 226, 244, 248, 284, 338, 343, 466
CviKI_1 RGCY 7 cut(s) 226, 244, 248, 284, 338, 343, 466
CviQI GTAC 2 cut(s) 93, 231
DdeI CTNAG 1 cut(s) 339
DpnI GATC 2 cut(s) 144, 441
DpnII GATC 2 cut(s) 142, 439
EaeI YGGCCR 1 cut(s) 282
Eam1104I CTCTTC 1 cut(s) 234
EarI CTCTTC 1 cut(s) 234
Ecl136II GAGCTC 1 cut(s) 466
Eco130I CCWWGG 1 cut(s) 181
Eco24I GRGCYC 1 cut(s) 468
Eco53kI GAGCTC 1 cut(s) 466
EcoICRI GAGCTC 1 cut(s) 466
EcoT14I CCWWGG 1 cut(s) 181
EcoT38I GRGCYC 1 cut(s) 468
ErhI CCWWGG 1 cut(s) 181
Esp3I CGTCTC 1 cut(s) 31
FaeI CATG 3 cut(s) 55, 268, 433
FaiI YATR 8 cut(s) 30, 53, 188, 205, 207, 266, 400, 431
FalI AAGNNNNNCTT 2 cut(s) 429, 461
FatI CATG 3 cut(s) 51, 264, 429
FokI GGATG 1 cut(s) 164
FriOI GRGCYC 1 cut(s) 468
FspBI CTAG 2 cut(s) 66, 478
GlaI GCGC 1 cut(s) 70
HaeII RGCGCY 1 cut(s) 72
HaeIII GGCC 1 cut(s) 284
HgaI GACGC 1 cut(s) 48
HhaI GCGC 1 cut(s) 71
Hin1II CATG 3 cut(s) 55, 268, 433
Hin6I GCGC 1 cut(s) 69
HinP1I GCGC 1 cut(s) 69
HincII GTYRAC 1 cut(s) 289
HindII GTYRAC 1 cut(s) 289
HinfI GANTC 5 cut(s) 19, 127, 219, 275, 413
HphI GGTGA 1 cut(s) 469
Hpy166II GTNNAC 1 cut(s) 289
Hpy188I TCNGA 2 cut(s) 154, 418
Hpy188III TCNNGA 3 cut(s) 16, 131, 310
Hpy8I GTNNAC 1 cut(s) 289
HpyAV CCTTC 3 cut(s) 76, 373, 448
HpyCH4III ACNGT 3 cut(s) 46, 97, 150
HpyCH4IV ACGT 3 cut(s) 91, 233, 420
HpyCH4V TGCA 2 cut(s) 177, 190
HpyF10VI GCNNNNNNNGC 5 cut(s) 30, 39, 48, 250, 254
HpyF3I CTNAG 1 cut(s) 339
HpySE526I ACGT 3 cut(s) 91, 233, 420
Hsp92II CATG 3 cut(s) 55, 268, 433
HspAI GCGC 1 cut(s) 69
Kzo9I GATC 2 cut(s) 142, 439
LguI GCTCTTC 1 cut(s) 234
LmnI GCTCC 2 cut(s) 4, 471
LpnPI CCDG 8 cut(s) 19, 29, 97, 200, 230, 312, 411, 423
LweI GCATC 1 cut(s) 186
MaeI CTAG 2 cut(s) 66, 478
MaeII ACGT 3 cut(s) 91, 233, 420
MalI GATC 2 cut(s) 144, 441
MboI GATC 2 cut(s) 142, 439
MboII GAAGA 3 cut(s) 251, 449, 463
MflI RGATCY 1 cut(s) 439
MhlI GDGCHC 2 cut(s) 259, 468
MlyI GAGTC 1 cut(s) 136
MmeI TCCRAC 2 cut(s) 252, 414
MnlI CCTC 1 cut(s) 319
MroXI GAANNNNTTC 1 cut(s) 23
MseI TTAA 1 cut(s) 330
MvnI CGCG 1 cut(s) 253
MwoI GCNNNNNNNGC 5 cut(s) 30, 39, 48, 250, 254
NdeII GATC 2 cut(s) 142, 439
NlaIII CATG 3 cut(s) 55, 268, 433
NspI RCATGY 1 cut(s) 433
PciSI GCTCTTC 1 cut(s) 234
PdmI GAANNNNTTC 1 cut(s) 23
PfeI GAWTC 4 cut(s) 19, 219, 275, 413
Pfl23II CGTACG 1 cut(s) 230
PflMI CCANNNNNTGG 1 cut(s) 78
PleI GAGTC 1 cut(s) 135
PpsI GAGTC 1 cut(s) 135
Psp124BI GAGCTC 1 cut(s) 468
PspLI CGTACG 1 cut(s) 230
PstNI CAGNNNCTG 1 cut(s) 416
PsuI RGATCY 1 cut(s) 439
RsaI GTAC 2 cut(s) 94, 232
RsaNI GTAC 2 cut(s) 93, 231
SacI GAGCTC 1 cut(s) 468
SapI GCTCTTC 1 cut(s) 234
SaqAI TTAA 1 cut(s) 330
Sau3AI GATC 2 cut(s) 142, 439
SchI GAGTC 1 cut(s) 136
SduI GDGCHC 2 cut(s) 259, 468
SfaNI GCATC 1 cut(s) 186
SfcI CTRYAG 1 cut(s) 28
SmlI CTYRAG 1 cut(s) 446
SmoI CTYRAG 1 cut(s) 446
SsiI CCGC 1 cut(s) 164
SspMI CTAG 2 cut(s) 66, 478
SstI GAGCTC 1 cut(s) 468
StyI CCWWGG 1 cut(s) 181
TaaI ACNGT 3 cut(s) 46, 97, 150
TaiI ACGT 3 cut(s) 94, 236, 423
TaqI TCGA 4 cut(s) 132, 145, 278, 311
TfiI GAWTC 4 cut(s) 19, 219, 275, 413
Tru1I TTAA 1 cut(s) 330
Tru9I TTAA 1 cut(s) 330
TscAI CASTG 1 cut(s) 51
TspDTI ATGAA 1 cut(s) 111
TspRI CASTG 1 cut(s) 51
Van91I CCANNNNNTGG 1 cut(s) 78
XceI RCATGY 1 cut(s) 433
XmnI GAANNNNTTC 1 cut(s) 23
XspI CTAG 2 cut(s) 66, 478
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.