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

>Osa03LNT0215800.3

CAAAACTTTGCAATGTTAGAAGCAAAGTTGGTGATGGCCATGATCCTGCAGAAGTTCTCCTTTGCTCTTTCGCCAAAGTATGTCCACGCACCTGATACCTTCATTTGCTACTTGATGTTGATTGTGCCATGACGTCCTACTATCTGCATGGCGTCATGCATGACCTCATCTTCTGTATCTCCTGGTTCTGGTGTTTCCATGTAGTTATCCTCGATGTCACTCTTACAGCTTCATCTTCTGATTGCCATAGCCTCAAAGGTCGTATCTCCTCTTTCACACTCCGGCGTGGGCGATCGAGAAGGATCAACCACCACGGGGCCGCTCCATTGCCGGCCCTCGACCGCTGCGCCCCTTGCTGTTGGGGATGTAGCGCACCTTGCCCAGCCATGTCAGACGCGCCTCGCCGGGCGGCTACCACCACCATCACCAGCCGGCCGGCCGGCCAGCTCCAGTCCCCCGGCGCCCGGCATCCTACTGACGTCGACCCCCCTCCCGACGACCCGACCGCCACGCGCGCAGCGGCGCGGCGGCGGCGGCGAGAAATCAGGTTGCTTGGGTCATCAGTTCGGCACGATGACGGGGAAAGGAAAAATCGATTTGACGCCTTGTGCCGCGGAACAAAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.257732
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0215800.3 3 14556731 C T
Osa03LNT0215800.3 3 14556993 A G
Osa03LNT0215800.3 3 14557430 A G
Osa03LNT0215800.3 3 14557495 A G
Osa03LNT0215800.3 3 14557648 T G
Osa03LNT0215800.3 3 14557661 T C
Osa03LNT0215800.3 3 14558671 T C
Osa03LNT0215800.3 3 14559120 T C
Osa03LNT0215800.3 3 14559200 G A
Osa03LNT0215800.3 3 14559203 C T
Osa03LNT0215800.3 3 14559366 A G
Osa03LNT0215800.3 3 14559943 T C
Osa03LNT0215800.3 3 14560163 C T
Osa03LNT0215800.3 3 14560525 G A
Osa03LNT0215800.3 3 14560592 T C
Osa03LNT0215800.3 3 14561154 G C
Osa03LNT0215800.3 3 14562130 C G
Osa03LNT0215800.3 3 14562378 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0215800.3 osa-miR160c-3p Translation 5.0 23.836 1 21
Osa03LNT0215800.3 osa-miR160e-3p Cleavage 5.0 23.836 1 21
Osa03LNT0215800.3 osa-miR5150-3p Translation 3.5 14.422 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0215800.3 3 nan Physiological trait Eating quality RZ574 RZ284
Osa03LNT0215800.3 3 nan Morphological trait Root RM338 RZ284
Osa03LNT0215800.3 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0215800.3 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0215800.3 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0215800.3 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0215800.3 3 qDLR3 Resistance or Tolerance Other soil stress tolerance RM338 RM2453
Osa03LNT0215800.3 3 qGL3-1 Physiological trait Eating quality nan nan
Osa03LNT0215800.3 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0215800.3 3 qTA3 Physiological trait Eating quality nan nan
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