Rroxscaffold_3G00218530

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0001407
Physical Location & Seq
Reverse (-)
817184 .. 819896
2713 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00218530.1

Sequence Viewer

Length: 342 bp
ATGGAGCCTCGTGGTAGAGGTGTGTATGATGTTTCTCATATTGATAAAGATGATGGAGTTATGAATTCCAAACTTGAGAGGCTCGAAGCAAAGATTGACAAGAAATTTGAGATGCTTCTTCAAGCGCAAAAGGGTAGTGGTTCGTCTTCTTCACATGTCAAGAGTGTTGCTTCTTCACATCTTTGCTTGATTTGTGAGTCTCCTCATCATTCTACTCATGATTGTCACTTGGCTTCACAATTTCCGGAATTTGTTGAGGAGCAAGTTAGAGCTATTAATTCTTATCAAAGGCCACCAAGAAATGATCCTTACTCTACTACATATAATGCTGGGTTGGCGTAA
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
RVT_1 Retrotrans_gag rve

Protein Analysis

113

Amino Acids

12.63

Weight (kDa)

6.36

Isoelectric Point (pI)

42.67

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)
AccIII TCCGGA 1 cut(s) 244
AclWI GGATC 1 cut(s) 299
AcsI RAATTY 3 cut(s) 64, 104, 248
AflIII ACRYGT 1 cut(s) 154
AgsI TTSAA 1 cut(s) 122
AluBI AGCT 1 cut(s) 272
AluI AGCT 1 cut(s) 272
Alw26I GTCTC 1 cut(s) 204
AlwI GGATC 1 cut(s) 299
Aor13HI TCCGGA 1 cut(s) 244
AoxI GGCC 1 cut(s) 290
ApoI RAATTY 3 cut(s) 64, 104, 248
ArsI GACNNNNNNTTYG 2 cut(s) 89, 121
AseI ATTAAT 1 cut(s) 276
AspLEI GCGC 1 cut(s) 127
BauI CACGAG 1 cut(s) 9
BbsI GAAGAC 1 cut(s) 138
BccI CCATC 1 cut(s) 47
BcoDI GTCTC 1 cut(s) 204
BmiI GGNNCC 1 cut(s) 6
BmsI GCATC 1 cut(s) 102
BpiI GAAGAC 1 cut(s) 138
BpuEI CTTGAG 1 cut(s) 95
BsaWI WCCGGW 1 cut(s) 244
BseAI TCCGGA 1 cut(s) 244
BseRI GAGGAG 2 cut(s) 192, 272
BseYI CCCAGC 1 cut(s) 329
BshFI GGCC 1 cut(s) 292
BsiSI CCGG 1 cut(s) 245
BsmAI GTCTC 1 cut(s) 204
BsnI GGCC 1 cut(s) 292
Bsp13I TCCGGA 1 cut(s) 244
Bsp143I GATC 1 cut(s) 304
BspANI GGCC 1 cut(s) 292
BspEI TCCGGA 1 cut(s) 244
BspHI TCATGA 1 cut(s) 217
BspLI GGNNCC 1 cut(s) 6
BspPI GGATC 1 cut(s) 299
BssMI GATC 1 cut(s) 304
BssSI CACGAG 1 cut(s) 9
Bst2BI CACGAG 1 cut(s) 9
BstHHI GCGC 1 cut(s) 127
BstKTI GATC 1 cut(s) 307
BstMAI GTCTC 1 cut(s) 204
BstMBI GATC 1 cut(s) 304
BstMWI GCNNNNNNNGC 1 cut(s) 335
BstNSI RCATGY 1 cut(s) 158
BstV2I GAAGAC 1 cut(s) 138
BsuRI GGCC 1 cut(s) 292
CciI TCATGA 1 cut(s) 217
CfoI GCGC 1 cut(s) 127
CviAII CATG 2 cut(s) 155, 218
CviJI RGCY 5 cut(s) 7, 82, 233, 272, 292
CviKI_1 RGCY 5 cut(s) 7, 82, 233, 272, 292
DpnI GATC 1 cut(s) 306
DpnII GATC 1 cut(s) 304
EcoRI GAATTC 1 cut(s) 64
FaeI CATG 2 cut(s) 158, 221
FaiI YATR 7 cut(s) 27, 39, 62, 156, 219, 322, 324
FatI CATG 2 cut(s) 154, 217
GlaI GCGC 1 cut(s) 126
GsaI CCCAGC 1 cut(s) 333
HaeIII GGCC 1 cut(s) 292
HapII CCGG 1 cut(s) 245
HhaI GCGC 1 cut(s) 127
Hin1II CATG 2 cut(s) 158, 221
Hin6I GCGC 1 cut(s) 125
HinP1I GCGC 1 cut(s) 125
HinfI GANTC 1 cut(s) 197
HpaII CCGG 1 cut(s) 245
Hpy188III TCNNGA 3 cut(s) 160, 218, 245
HpyF10VI GCNNNNNNNGC 1 cut(s) 335
Hsp92II CATG 2 cut(s) 158, 221
HspAI GCGC 1 cut(s) 125
Kpn2I TCCGGA 1 cut(s) 244
Kzo9I GATC 1 cut(s) 304
LmnI GCTCC 2 cut(s) 4, 259
LpnPI CCDG 2 cut(s) 258, 315
LweI GCATC 1 cut(s) 102
MaeIII GTNAC 1 cut(s) 224
MalI GATC 1 cut(s) 306
MboI GATC 1 cut(s) 304
MboII GAAGA 4 cut(s) 110, 138, 141, 165
MluCI AATT 5 cut(s) 64, 104, 239, 248, 277
MlyI GAGTC 1 cut(s) 206
MnlI CCTC 5 cut(s) 11, 18, 72, 213, 250
MroI TCCGGA 1 cut(s) 244
MseI TTAA 1 cut(s) 276
MspI CCGG 1 cut(s) 245
MwoI GCNNNNNNNGC 1 cut(s) 335
NdeII GATC 1 cut(s) 304
NlaIII CATG 2 cut(s) 158, 221
NlaIV GGNNCC 1 cut(s) 6
NmuCI GTSAC 1 cut(s) 224
NspI RCATGY 1 cut(s) 158
PagI TCATGA 1 cut(s) 217
PciI ACATGT 1 cut(s) 154
PleI GAGTC 1 cut(s) 205
PpsI GAGTC 1 cut(s) 205
PscI ACATGT 1 cut(s) 154
PshBI ATTAAT 1 cut(s) 276
PspFI CCCAGC 1 cut(s) 329
PspN4I GGNNCC 1 cut(s) 6
SaqAI TTAA 1 cut(s) 276
Sau3AI GATC 1 cut(s) 304
SchI GAGTC 1 cut(s) 206
SetI ASST 2 cut(s) 22, 274
SfaNI GCATC 1 cut(s) 102
SmlI CTYRAG 1 cut(s) 74
SmoI CTYRAG 1 cut(s) 74
Sse9I AATT 5 cut(s) 64, 104, 239, 248, 277
TaqI TCGA 1 cut(s) 84
TasI AATT 5 cut(s) 64, 104, 239, 248, 277
Tru1I TTAA 1 cut(s) 276
Tru9I TTAA 1 cut(s) 276
TseFI GTSAC 1 cut(s) 224
Tsp45I GTSAC 1 cut(s) 224
TspDTI ATGAA 1 cut(s) 77
VspI ATTAAT 1 cut(s) 276
XapI RAATTY 3 cut(s) 64, 104, 248
XceI RCATGY 1 cut(s) 158
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.