Rroxscaffold_2G00099130

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0006436
Physical Location & Seq
Forward (+)
20673582 .. 20678167
4586 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00099130.1

Sequence Viewer

Length: 456 bp
ATGCACAAGGTAGTTAATCAATGTGATGTCTGCCATTTGTCAAAATCCTCTAGATTACCATTTACTTCTTCTCTGTCTAGGGCTAGTAACCCTTTCGAAATTGTGCATTCGGACATTTGGGGTCCAGTTCTTGAGTCCTATGATGGATTTAAGTATTTTGTAACATTTGTAGATGATTTTACGAGGATTACTTGGTTGTATCTTTTGAAACTAAAAAGTGAAGTTGTGGATGTTTTTAAGGATTTTCATAAACTTATCATCACTCAATTTTCATCATTTGTTCATATTTTACGATCCGATAATGGTTCCGAGTATATGTCCAATAACATGTCACAATACTTAAGCTCACAAGGCATTCATCAAACTAGGCGTGTTGGTACTCCTCGACGAATGGGATTGCCGAGAGGAAAAATCGAGACATTCTTGAAAAAACTAGAGCTCTTATGTTTCAAATGA
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 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve

Protein Analysis

151

Amino Acids

17.59

Weight (kDa)

9.35

Isoelectric Point (pI)

53.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
rve PF00665 30 - 122 4.6e-12 Integrase core domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 288
AfaI GTAC 1 cut(s) 379
AflII CTTAAG 1 cut(s) 340
AflIII ACRYGT 1 cut(s) 327
AgsI TTSAA 3 cut(s) 208, 427, 451
AluBI AGCT 2 cut(s) 345, 439
AluI AGCT 2 cut(s) 345, 439
Alw21I GWGCWC 1 cut(s) 441
Alw26I GTCTC 1 cut(s) 410
AlwI GGATC 1 cut(s) 288
AspS9I GGNCC 1 cut(s) 122
AsuII TTCGAA 1 cut(s) 96
AvaII GGWCC 1 cut(s) 122
BanII GRGCYC 1 cut(s) 441
Bbv12I GWGCWC 1 cut(s) 441
BccI CCATC 1 cut(s) 137
BcoDI GTCTC 1 cut(s) 410
BfaI CTAG 5 cut(s) 51, 78, 84, 366, 434
BfrI CTTAAG 1 cut(s) 340
Bme18I GGWCC 1 cut(s) 122
BmgT120I GGNCC 1 cut(s) 122
BmiI GGNNCC 2 cut(s) 123, 307
Bpu14I TTCGAA 1 cut(s) 96
BpuEI CTTGAG 1 cut(s) 152
Bse1I ACTGG 1 cut(s) 125
BseGI GGATG 1 cut(s) 235
BseNI ACTGG 1 cut(s) 125
BseRI GAGGAG 1 cut(s) 372
BsiHKAI GWGCWC 1 cut(s) 441
BsmAI GTCTC 1 cut(s) 410
BsmI GAATGC 2 cut(s) 106, 354
Bsp119I TTCGAA 1 cut(s) 96
Bsp1286I GDGCHC 1 cut(s) 441
Bsp143I GATC 1 cut(s) 293
BspLI GGNNCC 2 cut(s) 123, 307
BspPI GGATC 1 cut(s) 288
BspT104I TTCGAA 1 cut(s) 96
BspTI CTTAAG 1 cut(s) 340
BsrI ACTGG 1 cut(s) 125
BssMI GATC 1 cut(s) 293
BstAFI CTTAAG 1 cut(s) 340
BstBI TTCGAA 1 cut(s) 96
BstF5I GGATG 1 cut(s) 235
BstKTI GATC 1 cut(s) 296
BstMAI GTCTC 1 cut(s) 410
BstMBI GATC 1 cut(s) 293
BstMWI GCNNNNNNNGC 1 cut(s) 351
BstNSI RCATGY 1 cut(s) 331
BtsCI GGATG 1 cut(s) 235
Cfr13I GGNCC 1 cut(s) 122
Csp6I GTAC 1 cut(s) 378
CviAII CATG 1 cut(s) 328
CviJI RGCY 3 cut(s) 83, 345, 439
CviKI_1 RGCY 3 cut(s) 83, 345, 439
CviQI GTAC 1 cut(s) 378
DpnI GATC 1 cut(s) 295
DpnII GATC 1 cut(s) 293
Ecl136II GAGCTC 1 cut(s) 439
Eco24I GRGCYC 1 cut(s) 441
Eco47I GGWCC 1 cut(s) 122
Eco53kI GAGCTC 1 cut(s) 439
EcoICRI GAGCTC 1 cut(s) 439
EcoT38I GRGCYC 1 cut(s) 441
FaeI CATG 1 cut(s) 331
FaiI YATR 7 cut(s) 141, 249, 285, 315, 317, 329, 445
FatI CATG 1 cut(s) 327
FokI GGATG 1 cut(s) 242
FriOI GRGCYC 1 cut(s) 441
FspBI CTAG 5 cut(s) 51, 78, 84, 366, 434
Hin1II CATG 1 cut(s) 331
HinfI GANTC 1 cut(s) 134
Hpy188I TCNGA 3 cut(s) 112, 298, 310
Hpy188III TCNNGA 4 cut(s) 51, 131, 415, 424
Hpy99I CGWCG 1 cut(s) 390
HpyCH4V TGCA 2 cut(s) 4, 106
HpyF10VI GCNNNNNNNGC 1 cut(s) 351
Hsp92II CATG 1 cut(s) 331
Kzo9I GATC 1 cut(s) 293
LpnPI CCDG 1 cut(s) 138
MaeI CTAG 5 cut(s) 51, 78, 84, 366, 434
MaeIII GTNAC 3 cut(s) 86, 160, 330
MalI GATC 1 cut(s) 295
MboI GATC 1 cut(s) 293
MboII GAAGA 1 cut(s) 60
MhlI GDGCHC 1 cut(s) 441
MluCI AATT 2 cut(s) 99, 266
MlyI GAGTC 1 cut(s) 143
MnlI CCTC 4 cut(s) 58, 177, 393, 398
MseI TTAA 4 cut(s) 15, 150, 237, 341
MspCI CTTAAG 1 cut(s) 340
Mva1269I GAATGC 2 cut(s) 106, 354
MwoI GCNNNNNNNGC 1 cut(s) 351
NdeII GATC 1 cut(s) 293
NlaIII CATG 1 cut(s) 331
NlaIV GGNNCC 2 cut(s) 123, 307
NmeAIII GCCGAG 1 cut(s) 426
NmuCI GTSAC 1 cut(s) 330
NspI RCATGY 1 cut(s) 331
NspV TTCGAA 1 cut(s) 96
PciI ACATGT 1 cut(s) 327
PctI GAATGC 2 cut(s) 106, 354
PleI GAGTC 1 cut(s) 142
PpsI GAGTC 1 cut(s) 142
PscI ACATGT 1 cut(s) 327
Psp124BI GAGCTC 1 cut(s) 441
PspN4I GGNNCC 2 cut(s) 123, 307
PspPI GGNCC 1 cut(s) 122
RsaI GTAC 1 cut(s) 379
RsaNI GTAC 1 cut(s) 378
SacI GAGCTC 1 cut(s) 441
SaqAI TTAA 4 cut(s) 15, 150, 237, 341
Sau3AI GATC 1 cut(s) 293
Sau96I GGNCC 1 cut(s) 122
SchI GAGTC 1 cut(s) 143
SduI GDGCHC 1 cut(s) 441
SetI ASST 3 cut(s) 12, 347, 441
SfuI TTCGAA 1 cut(s) 96
SinI GGWCC 1 cut(s) 122
SmlI CTYRAG 2 cut(s) 131, 340
SmoI CTYRAG 2 cut(s) 131, 340
Sse9I AATT 2 cut(s) 99, 266
SspMI CTAG 5 cut(s) 51, 78, 84, 366, 434
SstI GAGCTC 1 cut(s) 441
TaqI TCGA 3 cut(s) 96, 385, 414
TasI AATT 2 cut(s) 99, 266
Tru1I TTAA 4 cut(s) 15, 150, 237, 341
Tru9I TTAA 4 cut(s) 15, 150, 237, 341
TseFI GTSAC 1 cut(s) 330
Tsp45I GTSAC 1 cut(s) 330
TspDTI ATGAA 4 cut(s) 236, 261, 272, 347
Vha464I CTTAAG 1 cut(s) 340
VpaK11BI GGWCC 1 cut(s) 122
XbaI TCTAGA 1 cut(s) 50
XceI RCATGY 1 cut(s) 331
XspI CTAG 5 cut(s) 51, 78, 84, 366, 434
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.