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

>Osa02LNT0189800.1

GCTCTCTGTTGTCACCTGTGATAACCGATAAGAAACAAAACAAGCTATGAAAAATGATTTTTTTTAAAACAGTGGAGACAAACTATGCAGCCTCAATTAGTGGCCACAGGCATCTCACATCTCCCAATTCCGGCCTACATTGGCAATATAGATTTGATTTGATGGTATTTTCCTATTTCCTAACATCGGATATGTTCATTGTTACTGGCAGCTTATAGATAGATCTCCCTTTACAAAGCACTTCACACCAGAGTACAATGGCACAACAAGATATAACTACTGTTCTAGAGGTAAAATGCTAGATTAGGTGCTGCTCATGATCACCAGTCACCGATTTTGATCTGCTCTGCACTCCACAAGTCCAATTGGAAATTAGATCATGGGTTTACTTTGATTCTGCCCTCGACCCTAACTTTGGTGTCACTGGTTTGCAACCTGTCCAAGATTGGAAGCTGAATCGTCAGCTTATAATCTTTGCAAGTGTGGCATATCAAGTACACTTTCTGTGTTTTTCGGCATAATGTGCTGCAACTGGTCTTTGCTGAGTGCATATCTATCAAAACGATCAGCATTCATCATGTATGTGTTCTGCCTAACCGACTTCTCATCGGTTCCTGGCACAATTGTGCTCTCACTAGCTGAAGTCAGGCGGTGCTTTAACATCATCTCATCAGGATAGATCATCTCAGCGGGTTCAGTGAACCGTAAGGATTGAAGATTGGAACGCGAAGACTCTACAAGGAACCGAGGCTCCAGAGCGGTTGCATTAGGAACACCTGGTAAGAATAGAGGTTTATGTTGGCTTGCCAGCTCAAATGGAAGAAGTGCTCCTGAAGTCTGGTTCACCGGCTGCAAAACAACTGAAGGATCTGATGCTTTGGCACTATTCTGGTCAAGTGCAGCACTCATTTGCGGGATCGGCAGATGCTCAGGTGCCCCAGATAAGTTCACTGGGGGCAGATATAGACCATTCCTCATGGACAACATCTGGACCTGGAGCTGAAGCTGCTTCAGGTACTCGATGGCATCGTCAAGCATGGAGGCTTTGTCCGTCTTGCTGGAGTTGGGAATGAGGCTCTGCAGGGCCTTCATCTTCTCATTGATTCTGCTCCTCCTCCTCTTCTCGGAGAGGTTGTGCACCTCGGCGGCGCGGCTCCTCTTGCCGCGCGGCCGCGCCGGCCTGGTGGGCTGCTCCGACTCCGACGACCCCAGCGCCTCCTCGCTCTCGCAGCGATCCAGCCCCATGCTGGCGTGGTGTCGCATGATCAAATCCAGGTGCTCCTCCTCCTGGCTTCCTCGCCCATCCATCATCGCCTCGCCACAGCACCAGCAAACCACAAACACTAGCGCTTGCTGCTGCAGCTGCTGCAGGAGTTGCCACCTTTCTTCAGTTTCTCTCTCTCTCTCTCTGTGTCTCTGGTTTTGTGATGGCTTTTCCTTGAGCCCGAGAAAGCTGCAAGCGCGGCAGAGCTTTTGACGACGTCTTTTGAGTTTTGCCGCTGCGGCTGCCTCTGCTTCGGCTTCAGCTTCTCTCTCCGGCTCCGGCAGCAGCGGCGCGGGGCGGTCGGTGTACGGCTCGTCGCGTCGCGTCGCGGGGTGGGGTGGAGAGGTTCATTGATGGAGGAGGGAGGGAGGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.637803
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0189800.1 2 34353920 G C
Osa02LNT0189800.1 2 34354675 C T
Osa02LNT0189800.1 2 34354861 T C
Osa02LNT0189800.1 2 34355589 G A
Osa02LNT0189800.1 2 34355919 A T
Osa02LNT0189800.1 2 34356028 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
Osa02LNT0189800.1 osa-miR5804 Translation 5.0 17.865 1 21
Osa02LNT0189800.1 osa-miR5830 Cleavage 4.0 14.765 1 24
Osa02LNT0189800.1 osa-miR7695-3p Cleavage 5.0 20.738 1 21
Osa02LNT0189800.1 osa-miR393b-3p Cleavage 5.0 19.321 1 21
Osa02LNT0189800.1 osa-miR419 Cleavage 4.0 16.017 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0189800.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0189800.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0189800.1 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0189800.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189800.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0189800.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189800.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189800.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0189800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0189800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0189800.1 2 Hd7 Physiological trait Flowering R3393 R2511
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