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

>Osa05LNT0310400.1

TGTATATATATATGTTGAAAAATTAAGTCAGGGACTAGCTTGAAAACAGTCTAAATTACAATCAAATGCAGCAAGCCACACTAATTAATTAAAGATAGTACATATATATATATGGTGGTTCGTCTCTGTGAACGGAGAAAAAAAGAGATAAACATGAACAAATGAAACAAGCAGTATTTGCTAATGTAACAACACATTTTCTTCTGCATGTAAAGTGGTGGTAAACAAGCCCTCCTAGCTAAGGGTCTTTAGGATATTAATAGTAATTCACCAGTTTAGTCTTCAGCTCTTGGTTATTCTCCTCAATTCATTTACCTGCCCAATGCAAAGATCGAAGCTGAACAGGCCGCCGCGGCTACTGCGCGGCGGTGGGCCGGTCGCCGCCGCCGGCGGTGCCGGGCTTGAGGAACGTCCCGCCGCCGAGCGGCCCGAGCCCGGACATCGGCCCGCCGGCGCCGCCCATGGCGGACGAGTACCCGAACTCGTAGCCGCCGCCGCCGCTCACGTTCACGGCGCCGCCGAGCCTCGCCACCGCGCTCTCGCCGTCGTAGCTCCTGGCCAGCATCTGCACGGCAGAGAACTGGTGGTGGTCGTTCACGAACCCACCGCCCGCCCCCCCGCCGATGCCGATCGCCGCCGCCGCCACGCCGCCGCCGCTGATGAAGTTCTGCGTGCAGTTCGGCTGCACCGCGCTCCCGATGAAGTGATCCACCATCGCCGCCGCCGCCGCCGCCTGCCCGTTCGACGACGACACCGCCACCGCCGCCTGGTACTTGGAGAGCTCGAAGCGGGCGCGGGAGAGGTCTTGCTGGAGCTGGCGGAGCTGGTGCTGGAGGACGGAGATGACGCCGACGCAGCCGTAGACGGGGTCGCGGAGGCGCATGTCGGCCTCGTACGCCAGCGAGTTCACCGCGTCCTCCCGCTGGTAAGGGTGGAGCTCGTTCAGCAGCTTGGTCACGTTGCTCGCGCCGAACACCCGGTGCACGTGCACGAACTTCTGCGGGTTGTCCGGCGGGAAGTAGGGCGCGAACACGCAGTCCGGCTGGCACTTGCGCCGCAGGAACTTGCACGCCGCGCACGGCGACCCCGTCCCGCCGCCGCCGCCGGAGCTCGCGCCCACCGCCGGCGACGAGGAGACGGTGATCACCGAGCCGGACGACAGCGGCAACGACGACGCCGACGACGAGGCCGCCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.376797
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0310400.1 5 20415960 T C
Osa05LNT0310400.1 5 20416121 A G
Osa05LNT0310400.1 5 20416788 A G
Osa05LNT0310400.1 5 20414941 T C
Osa05LNT0310400.1 5 20415893 A G
Osa05LNT0310400.1 5 20415901 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
Osa05LNT0310400.1 osa-miR5827 Cleavage 4.5 9.206 1 21
Osa05LNT0310400.1 osa-miR815a Cleavage 4.0 12.772 1 21
Osa05LNT0310400.1 osa-miR815b Cleavage 4.0 12.772 1 21
Osa05LNT0310400.1 osa-miR815c Cleavage 4.0 12.772 1 21
Osa05LNT0310400.1 osa-miR5506 Cleavage 5.0 24.106 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0310400.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0310400.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0310400.1 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0310400.1 5 nan Morphological trait Seed RG13 RG573
Osa05LNT0310400.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0310400.1 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
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