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

>Osa04LNT0254400.1

ACTGCTGCAGTTCGGTGATGAGCGTATTGGGGCAGCGCCGCCCCTCTGCTGCTCCGCTGGCCCCTTGGAGCTCGAGTCCGCACGGATCCCTTCGTCTCTCCGCCCCCCTCGCGCGGATCCGCCGTCGGCGCCTGGATTCCACCGTCTCTCCACCCTTCTCTCGCGCAGATCCGCCGTCGGCGGCAATAGGAGGGGCTGATCCGGCGACCTCTTCCCCTCTCGCACGGATCCCGTCGCGCCGGCGACGACGGGAGGGGTGGATCCGGTAGCCTCCCCTACGGTGACGACGACGATGGGTGGACGCTACCTCCATCGCTCCATCTGCCAGCGACGGACATCCTTGATTCGCCGTCAACCCCAGCCACTGCCGCCCAGTATCCTGAGGGAAGGCTTCATATTTGCTAAGTGAGTTGCGTTTTTTTATGTGTGCTATTGAATTGAAGTGAGCAAATATTGCTGTCGCACATACAGGTTGAGTACAATGATAACCTGGAATCGACATTGATTGGAGGTGGCTTGGCACCCTAGAGGAAAAACCTTGTGATTTGTATTTTTTTTGTGTGCTTCTATTATTTCTATATGTATGTCTTGCCTGAGAAATCTGTAAAATCGTGATCGGGTGAGCGCTAAAAATAGTGGAAGAAAGAAGAAAAGGAAAACGGAATAGCAAGAGCAGGACTCCTGGTCGCAGTTGGGGCAAACCGGAGTAGGAGTGGGGGTGCACCTGGGCTTGTGGGCTTGTGGTGCACCTGGACTTGTGGCTCTATGGGCTTGTGGCTTGGACCTGGACTTGTGGGTTTGTGGAACACCTGGACTTGTGGCTCTATGGGCTTGTGGCTTGGACCTGGACTTGTGGGTTTGTGGAACACCTGGACTTGTGGAGGTGCACCTGGACTTGTGGCTCTATGGGCTTGTGGCTTGGACCTGGACTTGTGGGTTTGTGG

Coding Potentia
Explanation CPC Score
noncoding -1.04508
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0254400.1 4 11450840 T G
Osa04LNT0254400.1 4 11450890 A C
Osa04LNT0254400.1 4 11451624 C T
Osa04LNT0254400.1 4 11452185 A G
Osa04LNT0254400.1 4 11452611 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
Osa04LNT0254400.1 osa-miR1428a-5p Cleavage 4.5 17.826 1 21
Osa04LNT0254400.1 osa-miR1428a-5p Cleavage 4.5 20.298 1 21
Osa04LNT0254400.1 osa-miR2872 Cleavage 5.0 20.272 1 21
Osa04LNT0254400.1 osa-miR2872 Cleavage 5.0 22.819 1 21
Osa04LNT0254400.1 osa-miR2923 Cleavage 4.5 15.782 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0254400.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0254400.1 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0254400.1 4 qPEN-4 Morphological trait Panicle/flower RG190 RG908
Osa04LNT0254400.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0254400.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0254400.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0254400.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0254400.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
Osa04LNT0254400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0254400.1 4 gwt4a Morphological trait Seed RG788 RG190
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