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

>Osa04LNT0255800.2

ATCCACTTCTCCACCGCGTCGACTATCTCCTTCGAGCTGCTGCTGCCCGCCATGGATGCCGATGAGATTGTCCTCGGCTATTTATCAGCGAAGGTGTAGCAATCTTGGCCGTGCAACCATCGATTCTTGCTCTCTTCAGGCAGCGAGCGAGTGATCGATCGATTCAGATTCAGGCAGCAGACAGCAGAGTACTCAGGTCACTAGCTAGGCTGATAGGCTTGGATCGATACCAATCCAATCAGTCAGGTGGCGCCGGGGAGACGAGGGAAGAGGAAGAGGAAGAGGAGGAAGCAAGTAGGCGACAGAAAGAATGGCGGGCGTAGCAGCAGCGGCGGCAGGTGAGGATAATGCAATCCGCGAGCCCGTGAGCGATCGAGCGACTCACGGTCGTCTCGCCGGGATTCTGTGGCCGCGGCGCGGCCACCTCGCCCCCCGGCCGGTGACGGCATCTCCGCGGCCCTCCCCCAGAAATTATTGCTCGGGTGGTGGTGGTGGTGGTGGTGAGAGGGGTGTGACGGCGACGGGCGGCGACGACGATCTTTTTGGGGCGGGCCTGCGGCC

Coding Potentia
Explanation CPC Score
noncoding -1.15744
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0255800.2 4 13654210 A C
Osa04LNT0255800.2 4 13654382 G A
Osa04LNT0255800.2 4 13654390 T C
Osa04LNT0255800.2 4 13654391 C A
Osa04LNT0255800.2 4 13654567 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
Osa04LNT0255800.2 osa-miR6250 Translation 4.5 10.873 1 22
Osa04LNT0255800.2 osa-miR169i-3p Translation 4.5 21.096 1 22
Osa04LNT0255800.2 osa-miR169p Cleavage 4.5 21.037 1 22
Osa04LNT0255800.2 osa-miR156j-3p Translation 3.0 12.45 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0255800.2 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0255800.2 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0255800.2 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0255800.2 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0255800.2 4 qPEN-4 Morphological trait Panicle/flower RG190 RG908
Osa04LNT0255800.2 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0255800.2 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0255800.2 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0255800.2 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