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

>Osa04LNT0258500.1

GTGCGATGGGGCCGTGGCGGCGCGAGGCGGCAGCCTGCAGGCGGCGGCGAACGGCGTGCGGCGGCGGCTTGCGGTCATGCGGGAGTGGAAGTCGCCTGCAAAATTACGATCCATCAGTCGATCTCCCGGCCGTCGATCATGGCGTCAAGATCTGTGCGTTCTCGGGCCTATGGGGAGGCCCATTTTCTTAAAAACCCAAGGTCCAGGGGTCCGTAGCTGCCACCACCGCACTGAAGGCAAACACGATTCGTCCACCGGCTCTTCTTCTCGAGCGGAGAGGCATTTTCCCCTCTTGAATCCATCGCCGCGGCAGTGATTCGCCCACCGGCGGCGGCTGCGAGCGTCGGCATCGGCGGCGCTGGAAGGGTCAGGCTTGGAAAAAAAGAGAGAGGCAGAAGAAACACTACAGTTCTACATGCACCAAGATCCTATCAGAGGATTGGATTTTTTTTTTCAACTACAACATGAGAACAGCGGTGGCAGACACATCAAGCATCCACATATCAACAAAAAAAATAGAAAATACATTTGACGATCTGTATTTTATACTAAATTCGTCCTTGCGGTTTCGATCGACCTGATCCTCTTGCTTCCTCTAATCCAATATAGTGTATTTGATCTGTAATGTGTGGGTGTGATTTTTGCTATGAGTTTTGGTCCTCCCTCTCTTCACCCTTCACGTGTCTTGCTATGTCTTGAGAGGCAACAAATAATGACATAAAGCCCAAAGCCCATATGCATGAATCAAAACTAATTCGAC

Coding Potentia
Explanation CPC Score
noncoding -1.03973
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0258500.1 osa-miR159c Translation 4.0 12.498 1 21
Osa04LNT0258500.1 osa-miR159d Translation 4.0 12.498 1 21
Osa04LNT0258500.1 osa-miR159e Translation 4.0 12.498 1 21
Osa04LNT0258500.1 osa-miR159f Translation 5.0 12.498 1 21
Osa04LNT0258500.1 osa-miR164e Translation 5.0 21.192 1 21
Osa04LNT0258500.1 osa-miR5502 Cleavage 5.0 16.753 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0258500.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0258500.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0258500.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0258500.1 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0258500.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0258500.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0258500.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0258500.1 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