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

>Osa11LNT0086600.2

TGGAAGTAGTATCAGATACAGCAACATTAACTATACACATCTGTCCCAAGTTCATTAGACATCAGTAGTAGCATATTGACATGGATCAGTTTAGTTCGAGTCATGCGGCAAAAGAAAATCAAAATCATTCGTCAGATGCAACAGGAAAACAAAATTATTCGTCAGGTGCAGCAGCGCTGATCACAATTCACAAATGCCGCATCAGGTGCATCCAGCGAAGCAGCCAGAAGACTGAAGTTACCATTTCCTGCTAAACACAACCATTTGTACAGGATTCTTGATTACATCCTCGCGCTCCATCAATTGCTTGGTAGCACCGTTAACTATGGTGGAGCAGCATCTGTGTCTGGCACTGGAGCCCTAGAATTACTCTGATCAGATGGTTGAACTACATTGTTGGCTTGATGGCAGGCAATATCCTTCATATGATGCAAAGCAATCTGCTGAAGTTTGTCCAAGGTAATCATGATATCATCACTTGTCTGATGGTCTTTTTGCCTTAGATGCTCATACAATGAGCCTGTCTCCGCAGCTATTGCCCGGAAACCATCATAAGCCTGGTGAAGTATGACAGAGTGGTCGTTGGCAAAGTTGCTCCCCACTGTAGCAGCTTGTGGGGGGCTATCATCCCCAGGGGCCGATCTTCGGCAGGTACCAGGTACATACCATGCAACGCATGCATCATATGGCCGGACCTCCTTCGCAACCCCCTTGCTGACAGGATGAGTAGGATGGGAAGAACCATCCATATAGATAGTCTCTTGAACACTTCCTGGGACAGAGCTTTTCATGTTCGCTGAGAAATTAGCACCAACAGTTTCTTCTACAGTTGGTTCAACTCCTCCAGATGAATCGAGCGGTGGATCTCCATCTGCTCCAGCAGCTTCCTCGCTCGAGAGCATGTCATCTGCATTTTCTTGACTGACGGGTTGTGGTTCAGGCACTTTGGAATAGTAAAAATCTGAATGAGGACATTTCGGCAACGGCCTCCTCCGACATCTGCAGCATCTGTACGAAATCAATTGAGCTATCCTTCCTTCCTCAAGTTCCAGGGCATCTCCATGAAACCAATCTACTTCTGCAACTCTCGCAGCGGATATACATCAAGTCTGATCGATATGGCTTGAAGCAGAGAAAGCAGGTCGGTTTCATCGGCGAGCCTACGCCATCCCTGCTTCTAAGAATAACATCATCTGCCTTGAGCTTGCTGCTACGTAGGTCATTCTTGCTTCTCTTCCATATGAGCCCAAAGAAAGTGATCTCTTGTGTGGTTCTACGCTTGTGATTTCTCCGTGAGTACAAGGACAGGCGCTTCGCCTCCAGCTGCCTCGCCTCATCCGTGCTGCCCCCACTCGCCTTCACCTTCTTCGTGTTGCTCCTTCCACGGGTTGGCAATGTCTCCATCGGTTCAGGCAATCTCCTCACTCCATCATCAATCAGAATGCGGGAGCTGGATCTATGGGAGGAAGGGGACTCGGGTGGCTTTCTTGGCCTCGCTCGACTGCAGCAATTTCTGCCTCTCTTCTCCTTTCCTCTCAGTCTCTTGGATCCATATGCCTCTTCGATTGGTTGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAAACCTGCTACGCTCTCACTGCTGGAGTTCTTGGGTTGCTCGCGCTTCTACTCCACCCAATCGTCGGATCCAGGGACGGAGGAGGTATCCTCGGATGAGGCAGCTGTCGGTGGCGGCGGAGCGCAGCGGTTGGGGGCCATCGGCGGCGGGCGTGGGTGGGGGTGGGGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.503288
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0086600.2 11 2257458 G T
Osa11LNT0086600.2 11 2257507 G A
Osa11LNT0086600.2 11 2258526 A G
Osa11LNT0086600.2 11 2258680 A G
Osa11LNT0086600.2 11 2259530 T C
Osa11LNT0086600.2 11 2260081 A C
Osa11LNT0086600.2 11 2260151 T C
Osa11LNT0086600.2 11 2260336 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
Osa11LNT0086600.2 osa-miR5537 Cleavage 4.0 21.424 1 22
Osa11LNT0086600.2 osa-miR169n Cleavage 5.0 20.901 1 21
Osa11LNT0086600.2 osa-miR169o Cleavage 5.0 20.901 1 21
Osa11LNT0086600.2 osa-miR171b Cleavage 4.5 16.141 1 21
Osa11LNT0086600.2 osa-miR171c-3p Cleavage 4.5 16.141 1 21
Osa11LNT0086600.2 osa-miR171d-3p Cleavage 4.5 16.141 1 21
Osa11LNT0086600.2 osa-miR171e-3p Cleavage 4.5 16.141 1 21
Osa11LNT0086600.2 osa-miR171f-3p Cleavage 4.5 16.141 1 21
Osa11LNT0086600.2 osa-miR171i-3p Cleavage 4.0 16.141 1 21
Osa11LNT0086600.2 osa-miR395w Cleavage 5.0 18.886 1 22
Osa11LNT0086600.2 osa-miR2864.2 Cleavage 4.5 16.775 1 21
Osa11LNT0086600.2 osa-miR5150-3p Cleavage 3.5 14.798 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0086600.2 11 nan Morphological trait Panicle/flower RM286 RM332
Osa11LNT0086600.2 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