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

>Osa06LNT0333900.1

AAAGATATTCTTTTTCATGTTTCACAGATAACAGTTTCAGGAAAGGGAATTTATCCAATTCAGGATATTGTTGGTACCAGAGATATTGTACACTACAGACATGCTTCCCTGATGCAGAAGACGCTCTTGAAGACACCCAACGCTAATAATCTCGCAAATCTTCTTTTACAGAACAATCCATCCATTAGCATTTCTTATGGGGAGGCCCCTTAGTACGATCTGTATAGTCCCATTAAGGGCTTCTCCCTATCCTCCATTCTTTTTCTTGCTGCTTCACGCGCTTTAAGGGCGGCTTCCTCCTCCTTTGAGATCACTTTGGGCTTGCCGTCCTCTCTTTTTCTCTTGTTAACAGCAATGGCGGATGGAGCACCCTTTACAGTTCTCATCGGATTCAGTGGTTTCTTGACGACCAAACCTGGAGCTTGGCCCCCTTTAATTGTGGGGACAGTCGCAACTGAAGCAGTTGGTTTTGTTTGTGAACTTGAGGATTGCCCAGCATTAGCTTGGGAGGTTTTTGCCCATGCGTATGCCTCTTCCTGAGTGACCCATTTACCTAAACCGTCAGAATAGTAGAAACCAGAATTTGAGTCAAAATAGAGTCCAGTAGATTTGTCATAATAGTATCCTGAAGTAGAGTCGAATTCCCATCCATCTCCAGGTGCCGCAGAAGTGTCACCGTCCACATTCCTTTGACTGTTCTCTAAATCTTTTTGGTAGCTCTTTTTAGCTTTAGCTTCTATTTGCTTGAGGGCCCGGGCTGCTTGCTGCTGCTCCTTTTCTTTGGCAGCACCCTCCTTTTGCATGGTTGCCAATCTTTTAGTGACATTGTCCTTGTGGCGCTTACCGATTTCATGTGTTCTGATGCTTAGCGGGTTATTAGCTATGTAAATCTTACAGAAGTCACACCATTTGTTTCCTTGGCTCACCCAGTACTCCGTCATGGCGGGCAAGGGCTCCGCTCAGCTGCGCCGATTGCGACAGTGAGCTTCGCCTCCGCTGCCGGGGGAGGGGATCGCCGGAGCGGCCAAGCGAGCGGGGGATTTTTGGTCGCAGTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.944198
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0333900.1 6 5858672 T C
Osa06LNT0333900.1 6 5859450 G A
Osa06LNT0333900.1 6 5859524 A G
Osa06LNT0333900.1 6 5860919 T C
Osa06LNT0333900.1 6 5860965 T A
Osa06LNT0333900.1 6 5859052 T A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0333900.1 osa-miR162a Translation 4.0 14.752 1 21
Osa06LNT0333900.1 osa-miR399i Cleavage 5.0 21.37 1 21
Osa06LNT0333900.1 osa-miR162b Translation 4.5 14.752 1 21
Osa06LNT0333900.1 osa-miR169r-3p Translation 4.5 11.411 1 21
Osa06LNT0333900.1 osa-miR2872 Cleavage 5.0 24.106 1 21
Osa06LNT0333900.1 osa-miR5519 Translation 3.5 11.411 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0333900.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0333900.1 6 qRCRJ-6 Physiological trait Source activity RM217 RM402
Osa06LNT0333900.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0333900.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0333900.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0333900.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0333900.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0333900.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0333900.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0333900.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0333900.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0333900.1 6 AsTol Resistance or Tolerance Other soil stress tolerance RZ516 RG213
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