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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Summary
Sequence
Coding Potentia
Genome Browser
Expression
Variation
Sequence

>Osa06LNT0325600.2

CGCTTACTTCCTCCGTTTCACAATATAAGTCATTCTAGCATTTTCTATATTCATATTAATATTAATGAATCTAGATAAATATATATGTCTAGATTCATTAATATCACTATGAATGTGGGGAATATTAGAATGATTTACATTGTGAAACGGAGAGAGTACATAATAGTACTGTGTATACGTACGGTATATAGTAGCTAGCTCCTAATAGGAGTAATAAGCACTTAGAGAATAAGGATAGATAAGTTAATCCACGCATGATATCTTGTTTGATTATTAGCATCCGACATTGAACCACCTCCTCCTTGCTGGCTTCCACCGCTCCTCCGCCTTCCTCTTCTCCTTCTCGCACGCACATTTCGCTTCCTTCAGATTCTTCATCGTGGATGTGTTCGGTTTGGTGCGATGAAGCTGCCGCGCGCCCTTGTACAGGAAATGCGCGCCGCTCCAGCTCCCGCCGCCGGCCGCGGCGGCGGCGCAAACCGGCGCCTGGTGTTTGCACGGCTCCGGCAGCGGCGGCTCCGACCACGCGCGGTCCTCGGCCGGCCGCGCCACCGCCGGCACGCTCGAGCCGCCGGCCGCCGCCGCGACGTCCAGCTCGCAGCTGAGCTGCCTGATGCGTGACTCGAGCAGGTTGAGGCGGTCCATCAGGCTGCCCTTCGCCTGCACATGCTGCAGCGCCGCCGCCGGCAGCGACTTGCTGTGCTGGTGGTGCGCCGCCGGCCCGCCGTCGCCGTCGCCGGCATTCGCCCGCCGCTGCTCCTCCAGCTGCCGCAACCGGAGGTCGAGCTGGTCGAGGCGGCCGAGGAGGGTCTCCGGCGGAGGGAGGGCGGAGGCGCTGATGAGGACGCGGCGCTCCGAGCCGAGGAGCACGTCGGCCATGGCGGTTGCACGCCGGAGCAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.69102
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0325600.2 6 1405435 G A
Osa06LNT0325600.2 6 1405561 T C
Osa06LNT0325600.2 6 1405451 A G
Osa06LNT0325600.2 6 1405524 A G
Osa06LNT0325600.2 6 1405528 A G
Osa06LNT0325600.2 6 1405533 A G
Osa06LNT0325600.2 6 1405545 A G
Osa06LNT0325600.2 6 1406331 C T
Osa06LNT0325600.2 6 1405461 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0325600.2 osa-miR7693-3p Translation 4.0 19.679 1 22
Osa06LNT0325600.2 osa-miR395c Cleavage 4.5 11.222 1 21
Osa06LNT0325600.2 osa-miR395u Cleavage 5.0 11.222 1 21
Osa06LNT0325600.2 osa-miR395o Cleavage 4.0 11.222 1 21
Osa06LNT0325600.2 osa-miR818a Cleavage 5.0 11.263 1 22
Osa06LNT0325600.2 osa-miR818b Cleavage 5.0 11.263 1 22
Osa06LNT0325600.2 osa-miR818c Cleavage 5.0 11.263 1 22
Osa06LNT0325600.2 osa-miR818d Cleavage 5.0 11.263 1 22
Osa06LNT0325600.2 osa-miR818e Cleavage 5.0 11.263 1 22
Osa06LNT0325600.2 osa-miR1436 Cleavage 4.5 11.263 1 21
Osa06LNT0325600.2 osa-miR1439 Cleavage 3.5 11.263 1 21
Osa06LNT0325600.2 osa-miR5518 Cleavage 4.5 8.732 1 21
Osa06LNT0325600.2 osa-miR2105 Cleavage 4.5 20.275 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0325600.2 6 qCRE-6 Physiological trait Eating quality RM170 RM190
Osa06LNT0325600.2 6 qVE-6 Physiological trait Eating quality RM170 RM190
Osa06LNT0325600.2 6 qWA-6 Physiological trait Eating quality RM170 RM190
Osa06LNT0325600.2 6 nan Resistance or Tolerance Drought tolerance RM170 RM204
Osa06LNT0325600.2 6 qHD6 Physiological trait Flowering RM8120 RM1369
Osa06LNT0325600.2 6 Hd3b Physiological trait Flowering nan nan
Osa06LNT0325600.2 6 qAC-6 Physiological trait Eating quality R2869 R1962
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus