Rmu_sc0003546.1_g000006

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003546.1
OG0010627
Physical Location & Seq
Reverse (-)
25169 .. 25786
618 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003546.1_g000006.1.cds

Sequence Viewer

Length: 618 bp
atggtgaagcacaagggtggaggagatcctcctgcagtttcgggtgaactttctcatgtcgaattcgacttccaagttcacaaagatgaaactacagctcggattgatgcgctgcagcaaacactgagtgtgtatcaagagtccctgtcgacatttcgcaccgagatgttcgatgagctgagggccatcagagagcgacctcctccaatggctccggatccagatctacaagccttgaagtttggttctttaccaccaacttcaggttcacccgccatggcagccaggttggagtcagcttcatccacaagaggagtagtagctgcggcggaaatggtaccaattggtggacgtacctcccaatccctcaatggttctcctttaaatttatcagattcggatgtgattctaggatatgctagtgattttgtgacagaatccataccagcttctactactattagtaggactaggtctttgggagctagtagctcaggtgctttaataactaattcttctagggtggtggtatctgctgttcatagcatgaataatgagaggggagaatcgagtttgaggagagctcaaaccagtgaacatcaggaacagactcattaa
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

205

Amino Acids

21.84

Weight (kDa)

5.5

Isoelectric Point (pI)

55.99

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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 337
AccB1I GGYRCC 1 cut(s) 337
AccB7I CCANNNNNTGG 1 cut(s) 347
AccI GTMKAC 1 cut(s) 149
AccIII TCCGGA 1 cut(s) 214
AciI CCGC 3 cut(s) 273, 326, 329
AclWI GGATC 3 cut(s) 20, 212, 225
AcsI RAATTY 2 cut(s) 62, 385
AcuI CTGAAG 1 cut(s) 246
AdeI CACNNNGTG 1 cut(s) 128
AfaI GTAC 2 cut(s) 339, 355
AfiI CCNNNNNNNGG 2 cut(s) 263, 347
AgsI TTSAA 1 cut(s) 238
AjnI CCWGG 1 cut(s) 284
AjuI GAANNNNNNNTTGG 2 cut(s) 250, 282
AleI CACNNNNGTG 1 cut(s) 15
AluBI AGCT 8 cut(s) 98, 178, 299, 323, 449, 485, 492, 584
AluI AGCT 8 cut(s) 98, 178, 299, 323, 449, 485, 492, 584
Alw21I GWGCWC 1 cut(s) 586
AlwI GGATC 3 cut(s) 20, 212, 225
Aor13HI TCCGGA 1 cut(s) 214
AoxI GGCC 1 cut(s) 183
ApeKI GCWGC 4 cut(s) 112, 115, 281, 323
ApoI RAATTY 2 cut(s) 62, 385
ArsI GACNNNNNNTTYG 2 cut(s) 460, 492
Asp718I GGTACC 1 cut(s) 337
AspLEI GCGC 1 cut(s) 112
AspS9I GGNCC 1 cut(s) 183
AsuHPI GGTGA 3 cut(s) 16, 56, 261
BamHI GGATCC 1 cut(s) 217
BanI GGYRCC 1 cut(s) 337
BanII GRGCYC 1 cut(s) 586
Bbv12I GWGCWC 1 cut(s) 586
BbvCI CCTCAGC 1 cut(s) 179
BbvI GCAGC 4 cut(s) 99, 127, 293, 310
BccI CCATC 1 cut(s) 194
BciT130I CCWGG 1 cut(s) 286
BfaI CTAG 5 cut(s) 410, 420, 471, 486, 519
BfmI CTRYAG 3 cut(s) 33, 93, 113
BglII AGATCT 1 cut(s) 223
BisI GCNGC 5 cut(s) 113, 116, 282, 324, 327
BlsI GCNGC 5 cut(s) 114, 117, 283, 325, 328
Bme1390I CCNGG 1 cut(s) 286
BmgT120I GGNCC 1 cut(s) 183
BmiI GGNNCC 3 cut(s) 213, 219, 339
BmrFI CCNGG 1 cut(s) 286
BmsI GCATC 1 cut(s) 97
BplI GAGNNNNNCTC 2 cut(s) 568, 600
Bpu10I CCTNAGC 2 cut(s) 179, 493
BsaBI GATNNNNATC 1 cut(s) 222
BsaJI CCNNGG 1 cut(s) 276
BsaWI WCCGGW 1 cut(s) 214
Bsc4I CCNNNNNNNGG 2 cut(s) 263, 347
Bse1I ACTGG 1 cut(s) 591
Bse8I GATNNNNATC 1 cut(s) 222
BseAI TCCGGA 1 cut(s) 214
BseBI CCWGG 1 cut(s) 286
BseDI CCNNGG 1 cut(s) 276
BseGI GGATG 2 cut(s) 302, 406
BseJI GATNNNNATC 1 cut(s) 222
BseLI CCNNNNNNNGG 2 cut(s) 263, 347
BseMII CTCAG 3 cut(s) 116, 170, 507
BseNI ACTGG 1 cut(s) 591
BseRI GAGGAG 4 cut(s) 36, 192, 327, 592
BseXI GCAGC 4 cut(s) 99, 127, 293, 310
BshFI GGCC 1 cut(s) 185
BshNI GGYRCC 1 cut(s) 337
BsiHKAI GWGCWC 1 cut(s) 586
BsiSI CCGG 1 cut(s) 215
BslFI GGGAC 1 cut(s) 127
BslI CCNNNNNNNGG 2 cut(s) 263, 347
BsmFI GGGAC 1 cut(s) 127
BsnI GGCC 1 cut(s) 185
Bsp1286I GDGCHC 1 cut(s) 586
Bsp13I TCCGGA 1 cut(s) 214
Bsp143I GATC 3 cut(s) 25, 217, 223
Bsp19I CCATGG 1 cut(s) 276
BspACI CCGC 3 cut(s) 273, 326, 329
BspANI GGCC 1 cut(s) 185
BspCNI CTCAG 3 cut(s) 117, 171, 506
BspEI TCCGGA 1 cut(s) 214
BspLI GGNNCC 3 cut(s) 213, 219, 339
BspMAI CTGCAG 2 cut(s) 37, 117
BspPI GGATC 3 cut(s) 20, 212, 225
BspT107I GGYRCC 1 cut(s) 337
BsrI ACTGG 1 cut(s) 591
BssECI CCNNGG 1 cut(s) 276
BssMI GATC 3 cut(s) 25, 217, 223
BssT1I CCWWGG 1 cut(s) 276
Bst2UI CCWGG 1 cut(s) 286
BstDEI CTNAG 3 cut(s) 125, 179, 493
BstDSI CCRYGG 1 cut(s) 276
BstF5I GGATG 2 cut(s) 302, 406
BstHHI GCGC 1 cut(s) 112
BstKTI GATC 3 cut(s) 28, 220, 226
BstMBI GATC 3 cut(s) 25, 217, 223
BstMWI GCNNNNNNNGC 1 cut(s) 281
BstNI CCWGG 1 cut(s) 286
BstSCI CCNGG 1 cut(s) 284
BstSFI CTRYAG 3 cut(s) 33, 93, 113
BstV1I GCAGC 4 cut(s) 99, 127, 293, 310
BstX2I RGATCY 3 cut(s) 25, 217, 223
BstYI RGATCY 3 cut(s) 25, 217, 223
BsuRI GGCC 1 cut(s) 185
BtgI CCRYGG 1 cut(s) 276
BtsCI GGATG 2 cut(s) 302, 406
BtsIMutI CAGTG 2 cut(s) 122, 598
CfoI GCGC 1 cut(s) 112
Cfr13I GGNCC 1 cut(s) 183
Csp6I GTAC 2 cut(s) 338, 354
CviAII CATG 3 cut(s) 56, 277, 547
CviQI GTAC 2 cut(s) 338, 354
DdeI CTNAG 3 cut(s) 125, 179, 493
DpnI GATC 3 cut(s) 27, 219, 225
DpnII GATC 3 cut(s) 25, 217, 223
DraI TTTAAA 1 cut(s) 384
DraIII CACNNNGTG 1 cut(s) 128
EciI GGCGGA 1 cut(s) 344
Ecl136II GAGCTC 1 cut(s) 584
Eco130I CCWWGG 1 cut(s) 276
Eco24I GRGCYC 1 cut(s) 586
Eco53kI GAGCTC 1 cut(s) 584
Eco57I CTGAAG 1 cut(s) 246
EcoICRI GAGCTC 1 cut(s) 584
EcoRI GAATTC 1 cut(s) 62
EcoRII CCWGG 1 cut(s) 284
EcoT14I CCWWGG 1 cut(s) 276
EcoT38I GRGCYC 1 cut(s) 586
ErhI CCWWGG 1 cut(s) 276
FaeI CATG 3 cut(s) 59, 280, 550
FaiI YATR 6 cut(s) 57, 278, 417, 443, 543, 548
FaqI GGGAC 1 cut(s) 127
FatI CATG 3 cut(s) 55, 276, 546
FauI CCCGC 1 cut(s) 280
FblI GTMKAC 1 cut(s) 149
Fnu4HI GCNGC 5 cut(s) 113, 116, 282, 324, 327
FokI GGATG 2 cut(s) 289, 413
FriOI GRGCYC 1 cut(s) 586
Fsp4HI GCNGC 5 cut(s) 113, 116, 282, 324, 327
FspBI CTAG 5 cut(s) 410, 420, 471, 486, 519
GlaI GCGC 1 cut(s) 111
GluI GCNGC 5 cut(s) 113, 116, 282, 324, 327
HaeIII GGCC 1 cut(s) 185
HapII CCGG 1 cut(s) 215
HhaI GCGC 1 cut(s) 112
Hin1II CATG 3 cut(s) 59, 280, 550
Hin6I GCGC 1 cut(s) 110
HinP1I GCGC 1 cut(s) 110
HincII GTYRAC 1 cut(s) 150
HindII GTYRAC 1 cut(s) 150
HinfI GANTC 7 cut(s) 140, 293, 395, 406, 437, 566, 610
HpaII CCGG 1 cut(s) 215
HphI GGTGA 3 cut(s) 16, 56, 261
Hpy166II GTNNAC 6 cut(s) 47, 79, 150, 269, 350, 596
Hpy188I TCNGA 4 cut(s) 102, 191, 394, 400
Hpy188III TCNNGA 4 cut(s) 137, 215, 221, 602
Hpy8I GTNNAC 6 cut(s) 47, 79, 150, 269, 350, 596
HpyCH4IV ACGT 1 cut(s) 352
HpyCH4V TGCA 2 cut(s) 35, 115
HpyF10VI GCNNNNNNNGC 1 cut(s) 281
HpyF3I CTNAG 3 cut(s) 125, 179, 493
HpySE526I ACGT 1 cut(s) 352
Hsp92II CATG 3 cut(s) 59, 280, 550
HspAI GCGC 1 cut(s) 110
Kpn2I TCCGGA 1 cut(s) 214
KpnI GGTACC 1 cut(s) 341
Kzo9I GATC 3 cut(s) 25, 217, 223
LmnI GCTCC 2 cut(s) 217, 482
Lsp1109I GCAGC 4 cut(s) 99, 127, 293, 310
LweI GCATC 1 cut(s) 97
MaeI CTAG 5 cut(s) 410, 420, 471, 486, 519
MaeII ACGT 1 cut(s) 352
MaeIII GTNAC 1 cut(s) 430
MalI GATC 3 cut(s) 27, 219, 225
MboI GATC 3 cut(s) 25, 217, 223
MboII GAAGA 1 cut(s) 507
MfeI CAATTG 1 cut(s) 342
MflI RGATCY 3 cut(s) 25, 217, 223
MhlI GDGCHC 1 cut(s) 586
MluCI AATT 4 cut(s) 62, 342, 385, 511
MlyI GAGTC 3 cut(s) 149, 302, 604
MmeI TCCRAC 1 cut(s) 270
MroI TCCGGA 1 cut(s) 214
MseI TTAA 3 cut(s) 383, 503, 616
MslI CAYNNNNRTG 3 cut(s) 15, 84, 164
MspI CCGG 1 cut(s) 215
MspR9I CCNGG 1 cut(s) 286
MunI CAATTG 1 cut(s) 342
MvaI CCWGG 1 cut(s) 286
MwoI GCNNNNNNNGC 1 cut(s) 281
NcoI CCATGG 1 cut(s) 276
NdeII GATC 3 cut(s) 25, 217, 223
NlaIII CATG 3 cut(s) 59, 280, 550
NlaIV GGNNCC 3 cut(s) 213, 219, 339
NmuCI GTSAC 1 cut(s) 430
OliI CACNNNNGTG 1 cut(s) 15
PfeI GAWTC 4 cut(s) 395, 406, 437, 566
PflFI GACNNNGTC 1 cut(s) 472
PflMI CCANNNNNTGG 1 cut(s) 347
PkrI GCNGC 5 cut(s) 114, 117, 283, 325, 328
PleI GAGTC 3 cut(s) 148, 301, 604
PpsI GAGTC 3 cut(s) 148, 301, 604
Psp124BI GAGCTC 1 cut(s) 586
Psp6I CCWGG 1 cut(s) 284
PspGI CCWGG 1 cut(s) 284
PspN4I GGNNCC 3 cut(s) 213, 219, 339
PspPI GGNCC 1 cut(s) 183
PsrI GAACNNNNNNTAC 2 cut(s) 522, 554
PstI CTGCAG 2 cut(s) 37, 117
PsuI RGATCY 3 cut(s) 25, 217, 223
PsyI GACNNNGTC 1 cut(s) 472
RsaI GTAC 2 cut(s) 339, 355
RsaNI GTAC 2 cut(s) 338, 354
RseI CAYNNNNRTG 3 cut(s) 15, 84, 164
SacI GAGCTC 1 cut(s) 586
SalI GTCGAC 1 cut(s) 148
SaqAI TTAA 3 cut(s) 383, 503, 616
SatI GCNGC 5 cut(s) 113, 116, 282, 324, 327
Sau3AI GATC 3 cut(s) 25, 217, 223
Sau96I GGNCC 1 cut(s) 183
SchI GAGTC 3 cut(s) 149, 302, 604
ScrFI CCNGG 1 cut(s) 286
SduI GDGCHC 1 cut(s) 586
SfaNI GCATC 1 cut(s) 97
SfcI CTRYAG 3 cut(s) 33, 93, 113
SmiMI CAYNNNNRTG 3 cut(s) 15, 84, 164
Sse9I AATT 4 cut(s) 62, 342, 385, 511
SsiI CCGC 3 cut(s) 273, 326, 329
SspMI CTAG 5 cut(s) 410, 420, 471, 486, 519
SstI GAGCTC 1 cut(s) 586
StyD4I CCNGG 1 cut(s) 284
StyI CCWWGG 1 cut(s) 276
TaiI ACGT 1 cut(s) 355
TaqI TCGA 5 cut(s) 60, 66, 149, 171, 569
TasI AATT 4 cut(s) 62, 342, 385, 511
TauI GCSGC 1 cut(s) 329
TfiI GAWTC 4 cut(s) 395, 406, 437, 566
Tru1I TTAA 3 cut(s) 383, 503, 616
Tru9I TTAA 3 cut(s) 383, 503, 616
TscAI CASTG 2 cut(s) 129, 598
TseFI GTSAC 1 cut(s) 430
TseI GCWGC 4 cut(s) 112, 115, 281, 323
Tsp45I GTSAC 1 cut(s) 430
TspDTI ATGAA 4 cut(s) 102, 291, 530, 563
TspRI CASTG 2 cut(s) 129, 598
Tth111I GACNNNGTC 1 cut(s) 472
Van91I CCANNNNNTGG 1 cut(s) 347
XapI RAATTY 2 cut(s) 62, 385
XcmI CCANNNNNNNNNTGG 1 cut(s) 368
XmiI GTMKAC 1 cut(s) 149
XspI CTAG 5 cut(s) 410, 420, 471, 486, 519
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.