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

>Osa11LNT0084800.2

GTCGGAATAGATTTACTTTCAGTAGCACAGAAGGAATTTATCCGTACAAATATCATGATGGAGAAAAGCAGTACAAAAAACACATTGCCATCAGCTGCTATAAGAACTTGAATATATAGATGAAAGTATGGTTATACTATTTCTGCAGCCAAAATAAAACCTTAATGACATCAACACAAAATACAATGGAATTGTGGAACAAAAATATGCGGTAACTTTAAAACAGCCATCTACTCCTGGTGACAAACAGCCATCTACATCTGGAGTATGTAGCAACAGACGAGTATGACCACGAGTTTACTTTGTCTGCAAAGCACAGATAAGTGACACCTGGTGAGCAATGCCATCAGGTGAACACAGCAGTCAGCAGCTGACTTCATTTAGATGTTAACAGTTTAGTGGTAATAAAATAAGAGCTCATTTGATTCCTGCATCCTGATTGAAGATTCAAGTTTTTGTCCATGTTCTATCGTCACTGTCCCTTGGTGAGACAATGGAAGGTTAATAATCTGGAATAGATGCAAAGGTGTATCCTGGTGCCCCTCTCGAGGAATAGTAAGCAACTCGAGTCTCATAAAAACCAGGAAGGAAGGCAAGGATGCCCAGGAACAAGAGACCATATGCCTGAGAGTTATCCCCCTCCATGTGACCTGTGAATATAAAATATGACAGGAAGAGAAGAGAACATCCTAGGAGGAGGAGGAATAGTGCCAGGGCAATTGATTTCCACGGGATTTTTCTGAGGGATTTTGGGGTGTAAGTGAACCGAAGGTCTACATCATCAGTAAGGTTGCTGTCATCCCTGTCCTCTGTAGGAAGAGGAGCATACCCCCCAACATTGCGTCTAGACGCCATAGTGCAGTGCCTTTGAAACAGTACAGGATCAGAGTTGCAGAGATCAGGTCGCAAGAACATCAACACTTAATAGTAGTATTATCTTTACCAAAAGAGCAAGTGCAGAGTGTATCGGTTTCATATAAAAACTTGATCATGTCAAAATCAAGTGTGGTTACCAAAAAAAAATGAGTACATCTGTTGATATCAAAACATGAACAAGGAACTTGATAGTATTTGCCTGACATCAATAACTCGAAAATGTAGCAAATGTGCAGAAATTTGACATCATTGAGCCTCATTTCCAGCAGGTAAATAAATGCAGAACAATGGCCTCAGATATATGAAGAATGTGAATTAGCTACTATCATTGGTATCTGTTCTTACCAGTATCTATCAAATGTAGCAAAAGAAAAGGTATAAGGAAAAGGAAAATAAGACCAAATGTAGGAAAAAAAACCACAAGAAAATGAGAACAAGTGTAGAGCAAAAATTTATTCACATGCATCACAAACAGCAGCATATATCATCATTGGCCATCTTTCCCAGCCTAACAGCAAGAAAAAAGAACAAGTGTAGAAAAATCTGTTCATGTACTCTTATAAATTCTGCTCAATTCAAGTGTAGAGGTGGCCTCAGTTCTGCTAAGATCATCTGAAGTATAAAATACTGAGAAAGATCACAGAAAGACAGAAACTTAGAAAGGGCATGTTTGGTGGCCTGACCTTATCGAATAAGGTCAAGTGCAGGCATATCTGTTCTTATGCATCACAAATAAGCACTATTAATCAAGTGTGTATCTGTCAGTATCAATTTAAAAGAACGCACTATTTCTTGCCTTATCAGTAACTTCTATTTGTAGGCAAAGATACAATGGCATAACACAAATCAACAGGAAATAGGAATAAGTGTAGGAAAAATCTATTCATAAGCATCACAAATCAGCAACATTAGTCATCATTGGCCATCTTAGAACAAAAAAGCAAGCCACTAGACATTTCATTCCATCGAAATCAACTAAGAAAGATATCAGCTTTTAGTAGATCTAGCATATTTATGAAGGGGACACGGTCTAATCCAAACAAATCGGCTGAAATCAAAGGAAGAGAGGAGAAGAAAACTGGAGGAGGTGAGAAAAGGAAGGAGATGCCCAACCTAGCCCTTACCAGAGAGCTCAACGGAGAGAGTCGACGAAAGAGAGGGGCGTAGCAGAGAGCCGGCGAAACCAAACGGCTTGACGGAGAGAGCGAACCAGTGGAAGAGAGCGATGGCGGCTAGCGAAAGAGAGGGAGGATGATCAACGGAAGAGAGGATGCTGACGGACGACCGGCCCTCCCGCCGGCGAGGACGGCGCGACGAGCAGCGCCCTCCACTCGCGAGTCGGCGAAACCCTAGCTTTCCACTGGTTTGGAACAAATGAGGAGGGATGGTGGTGACCC

Coding Potentia
Explanation CPC Score
noncoding -1.27941
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0084800.2 11 1472936 G A
Osa11LNT0084800.2 11 1473943 A G
Osa11LNT0084800.2 11 1474088 A G
Osa11LNT0084800.2 11 1475024 G A
Osa11LNT0084800.2 11 1475224 A G
Osa11LNT0084800.2 11 1475342 G A
Osa11LNT0084800.2 11 1475497 A G
Osa11LNT0084800.2 11 1475750 G A
Osa11LNT0084800.2 11 1477420 T G
Osa11LNT0084800.2 11 1477426 A G
Osa11LNT0084800.2 11 1474388 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0084800.2 osa-miR156c-3p Cleavage 4.5 18.797 1 22
Osa11LNT0084800.2 osa-miR156f-3p Cleavage 3.5 18.797 1 22
Osa11LNT0084800.2 osa-miR156g-3p Cleavage 4.5 18.797 1 22
Osa11LNT0084800.2 osa-miR156h-3p Cleavage 3.5 18.797 1 22
Osa11LNT0084800.2 osa-miR156j-3p Cleavage 4.5 18.797 1 22
Osa11LNT0084800.2 osa-miR398a Cleavage 5.0 20.859 1 21
Osa11LNT0084800.2 osa-miR156l-3p Cleavage 3.5 18.797 1 22
Osa11LNT0084800.2 osa-miR171c-5p Cleavage 4.5 18.674 1 21
Osa11LNT0084800.2 osa-miR528-3p Cleavage 4.5 9.482 1 21
Osa11LNT0084800.2 osa-miR2097-3p Cleavage 5.0 14.616 1 22
Osa11LNT0084800.2 osa-miR5151 Translation 5.0 15.543 1 22
Osa11LNT0084800.2 osa-miR5490 Cleavage 4.0 12.597 1 21
Osa11LNT0084800.2 osa-miR5790 Translation 4.0 17.969 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0084800.2 11 nan Morphological trait Panicle/flower RM286 RM332
Osa11LNT0084800.2 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