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

>Osa03LNT0217400.1

ACAACAACAACAATAATAATATAATAATTAACACATATGATGTGTGCTTATTCAAGCTAGAACACTAGCTTAATTAGGTGGCATCTTTGTAATTATTAGTAGCAGCAGCAGCAGCAGCAGAATAAGAATTATTTGGAAGAAATTACATAATTCGCAAACAGGAACTACGTACCCTTTAATCTTCTCGTATTTTATATATGCATATAGATGTCAATCTTTCACATGCGACCGTTTGAGGGCCGTCGCCGTCCTCCTCCATCGACATCAGCATCCTAGCTTTGCATGGATATCTCTCTCTATCTTTCTTTGATCCTGTGTCAATTTTGCTTCCTCTTTTGGAGGAATCGCTGCAGCGACGCCTTCCTGGCGATCGGCATCACGCCGCCGGCGGAGACCCCCGAGGCAGCCGGCATCTGCGGCGGCGGCAGCAGCATGGGCGGCTCGTCCGGCGGGGGAGTCACAACGGTGACATTATTGTTTTTGTTCCCACCGCCGCCGCCGGCGGCCGCAGCCAGCAGATGCTGCGTGCGCTGCACCAGCTTCTCGGCCGCCTCCGCCGTGTAGTGCTCGAACACCAGCACCTGGCCGCCGTAGACGATGGTCAATGGCGCCGTCGGCGCCGTCGCCGGCACCGACGGCGTCACATGCACTTCCGGCCGTCGTCGTTCTTGGGCCGCCGCCGGCGCCGGAGCCGGCGACACGACGACGCCGTCTGCGGATCGCGTGGGGAAGAGCTGCATGGTCCGGGCGTCGACGACCATCTTCTCCTTGGCCTCCGCCGCCGCCGCCGCCGGCCAGATCACGGCGCCTCCGGCGGCGGCCTGCTGCTCCGGCGCCGTCGTCATGCACGGTGGCTGCGGCGGCTGGCCGCGCCTGGCGGCGGCGGGGAGCATGGCGCCACCGCCAGCTGCGCCGACGGCGTCCATCTCTCGCGTCCGGCCTTTCTCCTCCTTGAACGTACTATACCTAGCTAGCTTACCATCTCTTGTGTTGGCGAAGCTGCGTGGGTTCCGGGGATGGGACGACTGTTCGTACGGTACGGTGTGGGGGTGGTTTTTCTTTTCTTTTGTTTTCTTTGGCGCGGCTCTCTCGCGGTCCGGATTAAACCTTGCCGTGCATGTATGCGCGCGCACAGGGGGCACGTGAGAGTGCTATCCTATCCGAACCTCCATCGATA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.754079
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0217400.1 3 16026033 C G
Osa03LNT0217400.1 3 16024945 C A
Osa03LNT0217400.1 3 16024706 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
Osa03LNT0217400.1 osa-miR5526 Translation 4.0 12.593 1 21
Osa03LNT0217400.1 osa-miR156k Cleavage 5.0 15.366 1 21
Osa03LNT0217400.1 osa-miR415 Cleavage 5.0 18.578 1 21
Osa03LNT0217400.1 osa-miR5152-3p Cleavage 5.0 15.546 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0217400.1 3 nan Morphological trait Root RM338 RZ284
Osa03LNT0217400.1 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0217400.1 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0217400.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0217400.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0217400.1 3 qDLR3 Resistance or Tolerance Other soil stress tolerance RM338 RM2453
Osa03LNT0217400.1 3 qGL3-1 Physiological trait Eating quality nan nan
Osa03LNT0217400.1 3 nan Physiological trait Eating quality RZ574 RZ284
Osa03LNT0217400.1 3 nan Morphological trait Shoot/Seedling RZ284 RZ403
Osa03LNT0217400.1 3 nan Morphological trait Panicle/flower RZ452 RZ284
Osa03LNT0217400.1 3 gw3.1 Morphological trait Seed RZ672 RZ474
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