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

>Osa04LNT0256100.1

TCTTAGGTGCTTTTCTGCAATATGGTAATTCTTCATGTTAACTTTCCCTCTGACATACACAGTGCGCCCTTACTTTAAATAAAGTACATGAGTCTAAAAAAAAGCAGGGCCATTTGGGCCAATATTTCTACAACTGAATAACAAAGCATTTTAGAACCATCTAGAAGAGAAGTGAGTAAATCTATGATTTGACGTATGCCTCCTTAGCAATGGAGCGAAGGAAGCACAAAAGTTGTTTCTTTGCTCCCAAAAGCTTCATGGTAGATTCCTCTTCATGTTCATTTTCTATATTATCTTGGACCATGTGGACTGTCCTCACGAGCTTCCGCAGTTCCTGACGATCAAACTCAACATTATGTATCGCATAAATTTCATTAGTAACTGAAATGTCTTTGGAAAGGAGGCCCTCAAACCATCTATCTGCAATTTCAATATGCTCTTTGTCACCCTCTTCTTCATTGCAAGGCAAGTCCTCTATTTCCTCATCTTCCATCAAGAATGTATTTTCACTCATTAATGCAAGTAACCTGTTATCATCGCCATCCTTCGAATACTGGATTAGAGTGTCCATCAATTCGGGTTGTGCACCACGCAGAAGTCTTCCGATATAGTTGAACTGCCTCCTTTTTCCTTCCCGCACATCTGATCCAAATCTCTTCACGAGCATGAGAGCGTCGAACACCTCGCGATCTAGCGACGCAGCCCTGAGGATGCGCTTGATCTGGGGAGGGGAGAACTTAGCGAGGTCCATACCCCACTGCACGGCGCGACGAGCCTCCCGTTTCAGGTCGTTGCGGCTCTTCCTGAGGGCCTCGCCGGCGCCGTCTCCGGCATTCGAATCGTCCGAGTCTTCGACATCGGAGGGCAAAGGGCCCGCGGGGCGGAGGGCGCGCGGTAGAGATAGGCGGTGCGAGGAGGACGCGAGGGAGGAGAAGAGACAGCTCGGGTTGAGGGAGGGAAGGAGCGAACGCCGCAGCGGCGCGGCCGCGGCGGCAACGGCGGCGGAC

Coding Potentia
Explanation CPC Score
noncoding -1.26338
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0256100.1 4 13992343 T C
Osa04LNT0256100.1 4 13992709 A G
Osa04LNT0256100.1 4 13994574 A G
Osa04LNT0256100.1 4 13995097 A G
Osa04LNT0256100.1 4 13995102 A G
Osa04LNT0256100.1 4 13995790 A G
Osa04LNT0256100.1 4 13995811 T C
Osa04LNT0256100.1 4 13996441 A G
Osa04LNT0256100.1 4 13996664 T C
Osa04LNT0256100.1 4 13991251 G 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
Osa04LNT0256100.1 osa-miR2873c Cleavage 4.5 15.273 1 21
Osa04LNT0256100.1 osa-miR395u Cleavage 3.0 20.432 1 21
Osa04LNT0256100.1 osa-miR159a.1 Translation 5.0 21.196 1 21
Osa04LNT0256100.1 osa-miR159b Translation 5.0 21.196 1 21
Osa04LNT0256100.1 osa-miR159f Translation 4.5 21.196 1 21
Osa04LNT0256100.1 osa-miR5144-5p Translation 3.5 15.047 1 21
Osa04LNT0256100.1 osa-miR5491 Cleavage 4.5 24.454 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0256100.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0256100.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0256100.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0256100.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0256100.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0256100.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0256100.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0256100.1 4 nan Morphological trait Panicle/flower RG788 RZ69
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