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

>Osa08LNT0398700.1

GAATACCCCCATCTTCTCTGCATTTGATTCCATTCAGTTTACATTTTTTTCCAGACGAGAATGGGACACACATAACAATTTCTGCATTTGAATGTAATATGTACAGGGTAATGGAGTATGCATAATTTTTACAACAGATGTGGGGGCACACAAGAAAGCCCCAGTCAGGGTCATGATAACATGGAGAATAGCTACCTGAGCCTGATCATCGTTTCAACGAATTGCAACACAATGGTGGACTAATATATTAACCCCAACTAATGAAGATATCCTTTTTGGAGTTTCGACGACAGTGCAGCTGCATCAAGTTCCACTGGTAGGAGATTCAAGAAAATCATTTAGTGTTTTCATCAGCATCTCCATTGTGCAAACTCCCGTTAGAGTCCTCTTCTGTATCTTCTTTGTCAAAACTCCCGGTAGCACTCTCGTACCCATCTTCTTTGAGCAAGCTCCCAGCAGTATTGTCATCCACATCTTCTTTGTGCAAACTTTCTCTAGTATTCTCATCCGCATCTTCTTTGTGTAAACTCCCATTAGTGCTTTGTGAAGTAGAGGATGGCTCCCTGGAATTTCCAGGGTTATGTAACATGTTTGAAAAACCCTGCCACAATCTTGCCGGCAGAAAAGGCGCACTTTCTTGTTGCTCCTCAGATGGCACTTCATACACACCAGCCGAACCCGGATTCAACTCAGAGAACCTCACAGCTCCAAGAAGTCTCTCGGGGAGCTCTGATTCGGTCTGACCCTCAATAAGGAATGCTAGATCTACTGTTAGCGTCTGCACGTAACCAAACGCCAAATGAACAATTGCGTTTGCGACAATAGAAGATCCAACATCCACATCGATTTCAATGAAGTTTGATCCCTGAGTATACTTGCACGTAAGAGCCCTACCCAATATGCAAATAGCTTGTTCTCCCACAGCTGTTCGAACAATCCAAGGCCCTCTAACTATGTTCGCGATTAGCTTAAGCCTAGATTTCCGGAAAGCCTCATCTCCTTTCAAGAACTGATCCATAAGTGAGCCTTCCGGTACCGGCTCCAGCGACACAAAGTAGAATATAGCACTGTAATTATCCTTGCTGGGCAGTTGCAGGTTGAAAGCCCAGACGAAAGGCTGATTACCACGCAAAACCTCGCCGTCGATGGCTTTCCTCACACGATGACTCTTGTTATTCAGAATCTCGCATATCTTCGCGGGGCTTTTCATCCAATCAAACCCGAGAGGCTTTAGAAGATACTCCCCACCTGGTATCTTCACCTTGGTTGCAAGATAATCAGGGCCTCTGACCATGAATGTGTCCCCTGGGGGAGTAGCCCAGCCATTGGGGCAGTTGTCAGGGTCAAGAAATGGGACTGCTCCTCCTGACTTGACATCCTCCATCCACTGATGCTGAACCTCACCATTGGAACAATCCATCTCACCTGTGGATCTTGGTTGGGCCTTCGGGGTGGTTGCGGATGAGGAGGACGAACAGAGGCGAGCGTTGTGGAAGGGAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATCTTGGATGCTTTCTTGGTGTTGCCTTTGCTTGCTCGCCTCAGCTGCTCTTTGTTCTTCTTCCGGGGAAGGAGAGAAGGGGATTGTGTTGCGTAGGGGGATTAGCAGAGCAGGCAGGCTTAGCGTGTGATGTTTGGCATTATTGGGGAAAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.985361
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0398700.1 8 3014255 G A
Osa08LNT0398700.1 8 3014420 G A
Osa08LNT0398700.1 8 3016202 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
Osa08LNT0398700.1 osa-miR5804 Translation 4.5 10.322 1 21
Osa08LNT0398700.1 osa-miR5834 Cleavage 4.0 14.919 1 21
Osa08LNT0398700.1 osa-miR172c Cleavage 5.0 24.785 1 21
Osa08LNT0398700.1 osa-miR439a Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439b Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439c Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439d Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439e Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439f Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439g Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439h Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR439i Cleavage 5.0 15.797 1 21
Osa08LNT0398700.1 osa-miR2100-5p Translation 5.0 14.957 1 22
Osa08LNT0398700.1 osa-miR2863a Cleavage 3.5 12.051 1 21
Osa08LNT0398700.1 osa-miR3979-5p Cleavage 3.5 24.305 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0398700.1 8 nan Resistance or Tolerance Other soil stress tolerance C390 C1121
Osa08LNT0398700.1 8 qDTH8 Physiological trait Flowering R1943 R2976
Osa08LNT0398700.1 8 qPL8 Morphological trait Panicle/flower R1943 R2976
Osa08LNT0398700.1 8 qCTB8 Resistance or Tolerance Cold tolerance nan nan
Osa08LNT0398700.1 8 cl8.1 Morphological trait Dwarf RG20 RG885
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