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

>Osa11LNT0089300.1

TGGAAGTCTGCGGTTCCATGCTTTTTCTGAGTATTCTTCCAATCAACATACTGTATACACCATGGGCATGGCCTATTATAGTAGATACATGTAGTATTTTCTCTGTAATATTCACAGATTCTTAATAGTTTGGTCTTCAAGATTTCAATCAAGCACAATCCTTGACTAAGCCTAGCTTCTTCCGTGTGCAATTAATGCTTCCTGCGCAGCCCTTGTTTTTGCTGGCATCCCCTTGACACATCTTGCAGGTAAGTTAGTAATCTTTGCATGCTCATTGAAGAAATATATCTCATAAGCTTGTGTGATGCAGTTGCAATCGGTTGTGGAGTACTGGAGGATGGTGAAGTGATTTTGGACGCAAACAAAGCAGAAGAGCAGGTAGAAATTTCTCGTTTTTATTAATGGTCTTTTGGCTTTCTTGAAGCCTTGGAGTAGAACAGTAGAAGAAACTAGGATGATATGACAGTTACTGATGTTTTATCTTGTGCATATGCAGTGCTGCTAAGCTCACTTGGAAGATTTTGGTCATGCGACATCCGGTGAAATTTTGGTTGCTGTGATTGTATTTGGAATGTGACTGGATTTGGCTGTTAACCGTGTTGTAAATTTTGTGTTGTATTGGATGTTAGTCGAGTTGTGTGGTTTGAATCTGAGATGGTATGAGAAATTAGATTGAATTTGGTGGGCTCAAATTTAATGGGTCTGTTTAGGGGGCTTTGATATGATAGTTGGTTGACAAAATAGGCCAGTTCTAAAATGGGTCTAGTTCTAAAATAGTCCTATTTTAAAATGGGCCAGTTCTAAAAAAATAATGGGCCGCTGTTAAATAATTTATGGACCAATGTAAAAAATTAATGGACCATCAAAAAAATAATGGGATGTTAAAAAAATAATGTAACACGAATTTTTTGCAAATTTTTTGAAATCACGCCCACCCTTGCCTGGGAGCGTCGGCTAGAGAAAAGCTATA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0599137
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0089300.1 11 4687626 T C
Osa11LNT0089300.1 11 4687640 T A
Osa11LNT0089300.1 11 4687544 A G
Osa11LNT0089300.1 11 4686738 T 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
Osa11LNT0089300.1 osa-miR5534b Translation 4.5 20.503 1 21
Osa11LNT0089300.1 osa-miR5535 Cleavage 4.5 10.542 1 22
Osa11LNT0089300.1 osa-miR319a-3p Translation 5.0 20.361 1 21
Osa11LNT0089300.1 osa-miR396e-3p Cleavage 5.0 17.77 1 24
Osa11LNT0089300.1 osa-miR1874-5p Translation 5.0 12.738 1 24
Osa11LNT0089300.1 osa-miR2101-5p Cleavage 4.5 17.256 1 22
Osa11LNT0089300.1 osa-miR5518 Translation 4.0 12.064 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0089300.1 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0089300.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0089300.1 11 nan Morphological trait Seed RM332 RM229
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