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

>Osa02LNT0188500.1

GGAGTAAATGCTGCTTGAAACAATGTTAAATCTAGAAAGAGTCGCTCAAAGGCATATGGTACCTGAGTTTCTGCAATCAATTCGAATTAATCGATTCCCTTCTTTTGCATTTGCACATCTGCAGCTAATAGTACAAACTGAATAATAATAAGTAAGAAAACAGAACCCCAGAGGGCTCGTAAACTGAACTACAGAACATTGCTACTACATATCTCCTGCTTCCACTAAGCTCCCCTCGATTCAGCTCACGGCTAACACTTTCTCATCGCATCTCCATTTCTCCATCCAAGCTGCTACCCACAAGTATACATCTGTTCTCCAATCTGATGAAACTCACACTGACCATTCTTGTGCAGCATCAGAATTCAGAACACACTCCTTTTCCTTCACATAAGCTGTCTCCCTTCCCTGTCAGATTCTTCGTCTTCTTCTTCTTCCTCCATACGATCATGGAGCAACGACAGCTATTGCACGGTTAGTAGATTGTGACAAGTGACAACGGCTAAAAACGATGGAATCAGCTGCTCTCCAGTTTCATCTCTTGCCGAATCTCAAGCACTTGTTGTGTTTTACTTCGGTCATGTTATTGTTCGAGGACGACGGCGCCAACTGGGGCGCTTTGGCTGTCTTATCCTTGGAGAGCTTCTCCATCGCGTTGATGAACTTCCTCAGATGCCTGATGTATTCAGGGTACGTCTCCAGGTTGCAGTGGCCGCCACCTTTCACCCATAAGGGCTCGTACTTCTCCTTCGCGAGCTCCCATAGCCGCTTGCCGTGGGAGAAATCGACGATGTCGTCTGCTGTGCCATGTATAACCAGCACTGGACAGTCAACCTGCTTTATTTTGTCGATGTTCTTGAAGATATCAAACCAAAGTGTTACTTTTACCGGATATAGAACCCGAATGCCTGAAAGTATAGCACTGTGAAGGACAACCCCTCTTAATTTTTCCAAGCGCGAGGCTAAATGCAATGTTGGTCCACTTCCAACTGATTGTCCATACAAGATTAGATCCTCTGGTTCAATCCCGTACACCTTCGTTAAACAGTCATAAACAGCCTCTATGTCACAGTATGTGTTGTATTCTGATGGTTTGCCTGTAGAGGCCCCATATCCTGAATAATCATAGCTCATGATGTTGACGCGGAGGTGGGCGCGGAGCTCGAGGAAGAGGCCGAGCATCTGGCCGAGGTCGGCGGCGTTGCCGTGGGAGTAGAGCAGCGTGAGGCGCGCGGAGGGGTGGCGCCAGAAGGCGGCGACGACGCGCGTCCCTCCCTTGGTCGGCAGCGCGTGCACCTCCACGCCGGCGTCCGCCGACACCCCCGTCATCCTCACCACCCCTCCTCCGCCGCCGCCCTCCTCCGCCACCAGCTCGTACGTGGGTGGCTCCGGCGGGAAGAAGGCCAGCCTCGCCGCCACCGACGACGTCACGTTCCCCATTAGCTCCCCCTCCCCGCCCGCCTATCTCGCTCCGCAACGTGAGGCCGCCTTCTCCTCCTCCTCCTCCTTTTCTTGATTTCTTCCCTCGTCAAGAAAAAGAGGTGAGGTGGTGGTGTGTGTTGCTTTTCTCGGGCTCCTTACCTAAGCTTGCTTTTCCTCCTCTCTCTCGCGCGCGCGCAATGACTCTGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.937447
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0188500.1 2 33876863 G C
Osa02LNT0188500.1 2 33876888 G A
Osa02LNT0188500.1 2 33877255 A G
Osa02LNT0188500.1 2 33877282 A G
Osa02LNT0188500.1 2 33878399 G A
Osa02LNT0188500.1 2 33878821 T C
Osa02LNT0188500.1 2 33879330 G A
Osa02LNT0188500.1 2 33880244 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
Osa02LNT0188500.1 osa-miR395f Translation 4.5 12.923 1 21
Osa02LNT0188500.1 osa-miR159a.1 Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR159b Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR159c Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR159d Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR159e Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR159f Translation 4.5 10.054 1 21
Osa02LNT0188500.1 osa-miR443 Cleavage 5.0 18.61 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0188500.1 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0188500.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188500.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0188500.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188500.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188500.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0188500.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188500.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188500.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0188500.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0188500.1 2 nan Morphological trait Seed C747 C1445
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