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

>Osa04LNT0261500.1

GCTCACCCCTCGGCCGCCGTGGCCTGGAAGGGGTAGAGGAAACTAGCCGAGGCGTGAAGCAAGAAGAATTGGCCCATGACGGTTGGATACAGAGTGGATCAATGCAGCTTTCCGCACAAGGGCCAGAAGGTCTACTAGGTTCATCTCTTCCTACTGATGAGGCCCTTACAAGCATTGGATTTACTGAGCACCTCAGGGACAGATCGAAATCAGAGAGCATAATGTGCCCATCTTCACGAACAAGTATGTTTTCTGGTTTCAGATCGCGATATATGACCCCCAACATATGTAGATATTCCAATGCTAGGAGAACTTCAGCAACATAAAACCTAGCAGCAGCTTCTGAAAAGGTCCTGGTAGGCTGTTTCTGTCGTAGAACATGCAGGTCACCGCCAGGGCAATACTCCATGACTAGGCAAGACAGATTATCGGTCGTGAAAAAAGAATACAGAGTTGGAAGAAATGGGTGGTCGAGCATTTGCAGGATCTCCCTCTCAGTTTGTGCTCGAAGCATCTTCTTTCTACTTATCAGGTACTCGATATCCATAACTTTCAATGCGAACATGCATTCAGAACCCACCAATTCAGCTAGATAAACAGTCCCAATATCTCCACAACCAAGTTGTTTGAGAAGCTTGAAGTTCTTCAGTCCCAGGCTCCCTTGTTGGATTGCCATGCGCCTAATGGCCCCCCATCTCACATCTTTTGACATGTGAGGCCTGCAGCCATTGCCACTGAAACTACCATAACTATCATCGCTTATGCTTGTGCTGGTGCTATAATCACCCATGCTGCTCTTTGAGCTTTGGGAGCATTCACCCTTTTCCTTCGATCTTGACAACTCACTGGGCTTTGAACCATGGATCTCACCAACACCACATCCTTTGGTGCCACAATTAGCTCCATCAGTGCTGATAGAGCTAGCCGCAGCCTTCTTGTTGATTGGTGTTGGAGTTCTGGGTTCATCCTGTAGGGCCTCGTGCTTCTTATTAGCTTGAGAATTGGAACTTTTTGCCTCACAAGTCTTGTGAGATACCACTGCAGCAGCTGGTTCTGGTTTGACCTTCTTCTTGGTGGAGGTTTTACTCCGGAACACCAGGCGTGAACCGCCCACAGGAACTGCACGGGGGCTAGATGTTTTCATTTTGCCCTTTCTCTGTTTAGCCACCGCAGGACCTGCAGGCAAATCTTCACTTGCCTCAGATGACTTATTACTGATCACATCTTGGATTCTGGTTTTCTGGACCTTTGTTGTGGTTGGAGATGCTGAACGCACATTTTTCTTAGCTGGGCTTTTGTTCCGTACCTTGTTCTTGGCTTCCGTTGACTTCACCGATGAACTTATTACATCCTTCTCAGGCAAAACGGACACTTTTCCAAACTTATTCTTTTCATCCCGCTCCTTGTTGGTTTGAACCACAACAGATGTATAAAGCTTCTTAATTGCCCCAGCTTCTGGGGTATTTGACACCGCCGTCGGCTTCGGCATCCTCTTCATGGCGGCCATCTCCGACGCCTGCGAGATGCACATCTTCCTCAGGGCCTGTTTCAGGCTCACAGACTCAACAATCTCCGAGCTCGATATCGGCGACTTCCCGAGCGCGATAAGCCTCCTATCCGTGCTCGTCTGCCCAGAAGCCCGTGCGGATGTGCGCACATTAATCGATCTAATGAGCCTATCGAGATCATCCTCGACGGAGCACGACCGCGCTCCATGCTCCTGACCCACCGGCTTCACTCTCACCCTCAGGTGGGTGACACCACCAGGACGGGCATCCTTCGACTCATCCACCAATTCGACTATCTCTGAGCAACCTGAAGAACCCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.809874
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0261500.1 4 20261156 T C
Osa04LNT0261500.1 4 20261323 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
Osa04LNT0261500.1 osa-miR5793 Translation 5.0 11.337 1 21
Osa04LNT0261500.1 osa-miR159a.2 Cleavage 3.5 23.936 1 21
Osa04LNT0261500.1 osa-miR168b Cleavage 4.0 23.164 1 21
Osa04LNT0261500.1 osa-miR1860-5p Translation 4.5 14.348 1 21
Osa04LNT0261500.1 osa-miR5157a-3p Translation 4.5 18.259 1 24
Osa04LNT0261500.1 osa-miR5157a-3p Cleavage 5.0 12.365 1 24
Osa04LNT0261500.1 osa-miR5157b-3p Translation 4.5 18.259 1 24
Osa04LNT0261500.1 osa-miR5157b-3p Cleavage 5.0 12.365 1 24
Osa04LNT0261500.1 osa-miR5486 Cleavage 4.5 24.235 1 21
Osa04LNT0261500.1 osa-miR5487 Translation 5.0 20.154 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0261500.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0261500.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0261500.1 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0261500.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0261500.1 4 qNOT4-2 Resistance or Tolerance Drought tolerance RG449 RG788
Osa04LNT0261500.1 4 qFRP4-1 Physiological trait Source activity RG449 RG788
Osa04LNT0261500.1 4 nan Morphological trait Root RG449 RG788
Osa04LNT0261500.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
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