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

>Osa10LNT0080500.1

AAACTTATGAAATTGTGAATTTCTTTTATACAATATATAAAAGATTACCTGGAATCTACAAGCAGAAGGTAGCTTCAAAGCCCAATAGGATGGCCTGATAGCAGTATCATATGGGCCGCCGTTTGAATGCAGCTGGGCTTTAGCTTGAAGCGTACCTTCACACCTTGAAAAAAGCACAATAGCGATACCAATATAAGCATCGCATGAGACTATGAGAGGGACTTCTCTAATTTGCTAATAAAATTGTTAACCTATAATATGTTTCAGCTTTATTATAAATAAACTTCATCGCTTGTCTCCATGTATCCCTCAAACTGGGGACGATCTGTCTGTTATTCAGAAGCACCAACAAAGGCTTCAGTTTTTCACAAGAGGCTTTTCATTGAATCAAAGCTTGGGAACAAGCCTCCTTCCATGGGAACGTCTAGGAGGTAGGTCCAAATCTTCCCACTCTGGATCATCGACTTTGGAAAAATATTTTTCCACCACCTCGTCGTGCACCTCTTCCAACCTTGGAGGCATCCACTTTGGGTTTCGATCTTTATCCAACAATATAGCCCTGCATCCCTCAAAGAAGTCTCTACTGAAGTCACCACGCATCACATGGCAAACCATCCTATATTCTCGACGTAAGCATTCACCAACAGTTTGTGTTCGCCCTTCTCTTATCGATCTCAGGGATATTTTCAGACTAGTAGGAGAAGCCTTCCTCAGGGACTGGATTGCAGAAGCAACCCATTCATCAGCAACATTTGGAGCCTCTTGTTCAAGAGAGGCTATGATTTCTTCTACTGTTCTTTTGGAAAAGCATTTGTTGATGATTTCCAGCCTATTCAGAGCACTTTTTTCTTTCAGAGATGGTTGTTGCGAATATTGATCGATAATTCCACATATAGCAAAGGGATCAGATGTATCAACCTTTTTAAGTGATTCTTCTAACAAAGCCAGCCTCTGCAAGAGTGAGCATACTAGGAATTAGAAAACCAGCAATACTCTGGTTACCTATAATCATACTTGGAACAAGCCAAGTGTAACACCCTGAAAATTTGACCAACAAAAATCAAAACTCCAAAAATATGGGTCTTCAAAAACTTTTTGAATAAATTGCATCATGCCGATTTTGTTCGATGATTTTATTGGATTTTGATTTCGGAGTTCATAGATCGCGAATAAAGAAGAATTAATTAGGAATAAACCCTAAAACTAGATGGGTTAAAGAAATAATTAAATTATAATCTAAAAATAAAGATTATGTGAAGATAGAAATAAATAAAATATTATCTCGGCCATATTCGTATCAATTAGATTTAAACGCGATGGAATAAGGATTAACTCTAATTAAAATCAAGTAAATGATATAAAAATAAAATATGAGTAAAATTAATCTAGAGTGGATCCATTGGGTGGAATAATACAAATATGGAGTAAACTTCATTTATGCAAAATTTAGGATTCATAGAATCAAATTTATATAAGAAATAAGCTAAAATGGGGATAAAATAGGAAAAGTCACTATTCATCTGCCGCCAGGGGTTCAATTACAGTCCCTAGCCCTAACCCATCTCTGTTGCGCGCGCCCGGCCGCCCCGAGCCCCGCGCCGCCGTCGCCGTCGCTTCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.815147
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0080500.1 10 22730182 A G
Osa10LNT0080500.1 10 22730318 G A
Osa10LNT0080500.1 10 22731227 T C
Osa10LNT0080500.1 10 22731253 G A
Osa10LNT0080500.1 10 22731718 A G
Osa10LNT0080500.1 10 22732981 T G
Osa10LNT0080500.1 10 22733200 C A
Osa10LNT0080500.1 10 22733228 G A
Osa10LNT0080500.1 10 22733402 G A
Osa10LNT0080500.1 10 22733521 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0080500.1 osa-miR5528 Cleavage 5.0 24.101 1 21
Osa10LNT0080500.1 osa-miR5817 Cleavage 4.5 13.305 1 24
Osa10LNT0080500.1 osa-miR1319b Cleavage 4.5 10.677 1 24
Osa10LNT0080500.1 osa-miR437 Cleavage 4.5 16.875 1 21
Osa10LNT0080500.1 osa-miR1857-5p Translation 5.0 23.053 1 21
Osa10LNT0080500.1 osa-miR1857-5p Translation 5.0 17.346 1 21
Osa10LNT0080500.1 osa-miR2876-3p Translation 5.0 11.589 1 21
Osa10LNT0080500.1 osa-miR5082 Cleavage 5.0 20.18 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0080500.1 10 Rf1 Physiological trait Sterility nan nan
Osa10LNT0080500.1 10 qTGWT-10 Morphological trait Seed RG561 RM228
Osa10LNT0080500.1 10 nan Morphological trait Panicle/flower RM171 RM333
Osa10LNT0080500.1 10 Qbph10 Resistance or Tolerance Insect resistance RM484 RM496
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