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

>Osa11LNT0085200.1

TCCGCCTAATGCCTAATGTTAGGCAGAGGCTCCATCGCCGCCAAATACGTTCTCCAGAAAGCCATTTTCGCTGAGATGGCCGACGTCTCCACACCTCTCAAGGATCCACCGGCCGGTGACGCCGGAAATGCGGAAAATGTTCAGTGAAGTATTGGGAATTTTCCTGCGAATCGACCTGTTGGGTGGATCAGTGTGCCGGCAGAGTTCTAGTATGGCAGCACCATGGCCGACAACAATCACCCGCTCCCCGATATGATTCTGAGCAACTTTGTTCAGGTAGGAGATGCACCGCTCACTTAACTGATTAAGACTTTCTCCACCACCCGGCAATTCGTGGTTTCTGTCATCAAAGTCCAAACCATTTTTGACTTCAAAATTAGCGAAGCCTTTGAAAACGCTTGGGCTTTTATTCACAGCATCATCCCACATCAAACCTTGCAGATATCCCATGTGCCTTTCTCTTAGTGCTTCAGTCAACATTAAGTTTGATACATCACAGGCTTTCGCTATGATTTCTGCAGTCTCAGCAGCACGCTTCAGATCAGACGAGTATATAGCAGCTGGCCTAGCTTCTCTTGCCAGACGACGAGCCACCACAACAGCCTGCTGTTTTCCAATCTCGTTCAGCTCTGGATCCATTTGCCCCTATTGCTGAACGATGCGGGAGGCGTTCCACGACGTCTCGCCGTGCCGGACAACCACCAGCTCCACGAACCGATCGACCTCCTTCGCCATGGTGACAGCTGGCACCTGACCGCCGCGGCCGCAGGCGAGAGGGAACAGAGGATACCTGACAGCCGCCGTAGCCGGCGAGATTGGGCGGAGGGTGGCTGCTAACCTCAGCCACCGGCGACCAGCAGGTCCTGCGGCCTGAATTCTTGGACGAACTGTGCCTCGCAT

Coding Potentia
Explanation CPC Score
noncoding -1.01444
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0085200.1 11 1782351 T C
Osa11LNT0085200.1 11 1786139 A G
Osa11LNT0085200.1 11 1782000 A G
Osa11LNT0085200.1 11 1782457 A G
Osa11LNT0085200.1 11 1784112 A C
Osa11LNT0085200.1 11 1785323 G A
Osa11LNT0085200.1 11 1785324 A G
Osa11LNT0085200.1 11 1785929 G A
Osa11LNT0085200.1 11 1785968 T C
Osa11LNT0085200.1 11 1786106 G T
Osa11LNT0085200.1 11 1783645 T C
Osa11LNT0085200.1 11 1781823 T C
Osa11LNT0085200.1 11 1783288 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0085200.1 osa-miR319a-3p.2-3p Cleavage 4.5 15.502 1 20
Osa11LNT0085200.1 osa-miR319b Cleavage 4.5 15.502 1 20
Osa11LNT0085200.1 osa-miR166k-5p Cleavage 3.5 20.922 1 21
Osa11LNT0085200.1 osa-miR5489 Translation 3.5 16.812 1 21
Osa11LNT0085200.1 osa-miR5510 Cleavage 4.5 19.538 1 21
Osa11LNT0085200.1 osa-miR2876-3p Cleavage 4.0 17.942 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0085200.1 11 nan Morphological trait Panicle/flower RM286 RM332
Osa11LNT0085200.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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