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

>Osa06LNT0334100.1

AGCACAGTAGAAACAGGCCTGACAAACAGCCAGTACCACCTAATCAGATTTATGCTCCCTTGAATTTATCCTTCAAAATAACCATTACGACTGAAACCACAACTTATATTTAACTTCCGAGCTGTGGAACTGAAAGAATCTAATCATCAACTTACAACACAGGTAATTGTGGTGTTAGTCAAATTTAACTTATCAATGCAACCTCTCTCATTGGAATCTAGGCCTTTTTGCAGGGCCTTGATCAATGATAGGATCAACCTGGGGAGGCAGTGCCTCTGAGGCCAACAGATCATCTGATGCTTTCTCTTGTTCTGATGGTACATAGCCCTCTGGAAAAGGTGGAGGGGGAGGAGCAGGTTGCAGCTTCCTTTGCAACGACATTAGGATATGGTCGACCCGCTTCAACTCCTTCAAATCAATTGCTTCCTTCTGCGTCTTTGATTCAGAAGCTGCTGTGTCAGGCTCTGTTTCCACATGCCCAATTTTCTCCAACTTTGAACATGCCGTAGTAAAAGCTTTTGAGATGTGATGCATAGCCCTACTGATGCGGGACGCGAAGACGCTGCAGAGCTGGGGCGCCTGGTAGATGGAGCCATCGAGGATGTAGTAGGCGAGCATGGCGTTGGACTTCTCGGGGCTCTCCCGCCTCTGCTTCCGGATCACGAACAGGTGCGGCTCCATCACGTCGCTGAGCACGTACTCCATCCCCGTCATCTTCGTGAGGTGGGACATGTCGAGGGGGTGGATTTGGCGCGAGCGGAGGGACTCGTTGTTGCAGGTGAGGTCGTAGAAGGGGGAGAGCGCGAAGTAGTCGAAGACGAGGTTGCGGTCGAGCGGGTAGGTGTTGAGCCAGAGCTGGTCGCGGAAGCAGATCCCGGTCATGTCCGTGCCCGGCGGGGGCGGGAGCGCCGCCGCGCCATCGGGCCCGGCGGCCCCCGGCGGCGGCGGCGGCTGCGCCGGTGGGGGAAGAGGCGTCCCCGACATTCGCGGCGGGTCAGGAACGCGGTGTCTAGCAGCCGCGTGCGCCGAATCGGAACGGGAGGGTGGCGTGGGTGGGTGGATGGATGGATAGATGCAGGCGCCGCCTGCGCCGGCGAGACGAGGAGGCAAGCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.86964
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0334100.1 6 5977731 C T
Osa06LNT0334100.1 6 5977866 A G
Osa06LNT0334100.1 6 5978570 G A
Osa06LNT0334100.1 6 5978732 T C
Osa06LNT0334100.1 6 5978936 A G
Osa06LNT0334100.1 6 5979445 A G
Osa06LNT0334100.1 6 5978320 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
Osa06LNT0334100.1 osa-miR528-3p Cleavage 5.0 18.556 1 21
Osa06LNT0334100.1 osa-miR535-5p Cleavage 5.0 21.656 1 21
Osa06LNT0334100.1 osa-miR1857-5p Cleavage 3.5 8.234 1 21
Osa06LNT0334100.1 osa-miR812f Cleavage 4.5 9.505 1 24
Osa06LNT0334100.1 osa-miR5078 Cleavage 4.5 19.698 1 21
Osa06LNT0334100.1 osa-miR5152-5p Translation 5.0 18.455 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0334100.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0334100.1 6 qRCRJ-6 Physiological trait Source activity RM217 RM402
Osa06LNT0334100.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0334100.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0334100.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0334100.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0334100.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0334100.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0334100.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0334100.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0334100.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0334100.1 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