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

>Osa04LNT0249000.1

AATATCAACTGAAAAAGTTGTCAACAACAAAGTTGAATAACTCATCAAGATCAAAAACTTTTATTTTGGTTATTTCTTCCTACGACAAAGTGATAGTAACATTGTTCACAAAATTGACATATCTCTTATATGGTTTTATAAACTATAACACATATATGTAAAATTTGTGAACAATGTTACTAACATTTTGTTGGATAAAGAAATAACAAAAATAAAAGTTTTAGATCTTGATGAGTTATTCAACTTTGTTGTTGATGACTTTTTCAATTGAAATC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.936727
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
Osa04LNT0249000.1 osa-miR821a Cleavage 1.0 14.608 1 24
Osa04LNT0249000.1 osa-miR821a Translation 4.5 7.926 1 24
Osa04LNT0249000.1 osa-miR821b Cleavage 1.0 14.608 1 24
Osa04LNT0249000.1 osa-miR821b Translation 4.5 7.926 1 24
Osa04LNT0249000.1 osa-miR821c Cleavage 1.0 14.608 1 24
Osa04LNT0249000.1 osa-miR821c Translation 4.5 7.926 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0249000.1 4 qCTS4-1 Resistance or Tolerance Cold tolerance RM335 RM261
Osa04LNT0249000.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
Osa04LNT0249000.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
Osa04LNT0249000.1 osa-MIR821a 93.796 274 2 274 5.4e-115 411
Osa04LNT0249000.1 osa-MIR821b 92.701 274 7 280 1.59e-110 396
Osa04LNT0249000.1 osa-MIR821c 94.007 267 1 266 8.75e-113 403
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus