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

>Osa05LNT0314700.2

GCTACTCAACATCGTACACCAAATTTATTGCCATAAAAAACATCCATGAAAACAGAGTAGCAAGGTATTTACATTGTCTGACCATTGCTTCTAGGTCATCACTCGTTTATTTGACACATAGGTAACTGCTTGTACTAATTTTCATAAAGTGGCTGAGGTGGGATTTTCCTTTGTAACCAGTTTTGTTTGGACCATTCACATCCTTCGGTATCAATTACATGTAAGCTCAGTGCATGTCTTGACACCAGAGAAAGATTTTCAAAGCTCTGGTGTACAAGATCTCCATGAATAACCACCAAATCACCTGACTTTACTTCTAATGGCACAAATTCTTTCAGATCATAGGTTGGCGAAGGATGATCAAAATGAGTATCATTTTCATCTCTGATCATTCGCCTTTTCAGACCATTTTTATGTGATCCAGGAATTGCCCATAGGCAACCATTCGTTTTTGTCGCATCTTCGAGTGCAAGCCACAACCCTGTGCATGATGGAGGGTTTGTATATAGGAATGTATTATCCTGGTGTGGCACCACCTCGCCACCAATGCCTGGTTGCTTAAAGATGTACATAGATTGAATAACTGCAGGTCTTTTGTAGCGTAAAGAAGAGAATAGGCTGGAAACATTCTCTCCAAAAGAGAACTTTTTGAACACAGGGTCAAGTTCATGTAACGCGTGCCCAACTTTATTAATTGAAAGTTCCTTTGCCTGTTTCAAGCATCCATCATCTCCAAATGCCTTTTCCTCAAAGAAGAAAGAGATATTCTCCGCACTCTTGAAGAAAAAGTCATTCTTCACCTGCCGATGATCCTTTGTGGAGAAGACGTCGCCAGCGCCGTCAAAGCCGTCGATGAGCACCGCCATGCGGTCCCTCATTGCCTTCACCTCCTCCGCGCTCGAGAACGACCCCAGCACAAGGTACCCATTGGCGTCGAAGAAGTGGAGCTGCTTGTCGGTGAGGCTACCGGCCGGCAGCATGGCGGCGGAAGGGAAGGGGAGATGAGAAGTTTGACAAAACAGAGGGCGGGTGGATTGCAGGAGTGGACTACAGGAATACTACACGGAACCGCATGGCTCTACGTTCTCCTGAGATGGGGTCAATTGGCAGGATTTGCACCCGCTCAGAGAAGGGTAGTCGGTGACGGTGGATACTCAAGGATGGGCGGCGGCACCACGCTGAGTATGCAGTCCCTCCTCCTTGAAGAATCTGTGAGGGAGATCCCTTGCCCGTGAGCCTTGATATGCCTTAGGAGATCTTTATTGAAAGCCTAAATTCCAGTGACGCTGACCTTTCGGCGGTGGGCGAGTGGAAGTGGATGACGAGGCGGAGTGGAGACCGGCGAGGCGAGCGACTGTGTTCGGGCGGTGGAGAGCGGGGGCGGCGCGGAGAACTACAGCGGAGATCGGTGCGCGAGGGGCGAGAAGGGCGTGTGGGAGCGGAGGCGGGGGCGGCGAGTGTGTAGATCGGCGGCGGCGGGGTGGCGGTGAGGGTGAGGCGTGCGGCGTGCGAGGGAGGAGAAGGGCGCGTCTGGCGGCAGCGGCGTGGATCGGGGCTGCTGTGGCGGCGACCGAGAGGA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.703063
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0314700.2 5 23275841 T C
Osa05LNT0314700.2 5 23273970 C A
Osa05LNT0314700.2 5 23275069 A G
Osa05LNT0314700.2 5 23276213 A G
Osa05LNT0314700.2 5 23276691 A G
Osa05LNT0314700.2 5 23276904 C T
Osa05LNT0314700.2 5 23277050 T C
Osa05LNT0314700.2 5 23277793 T C
Osa05LNT0314700.2 5 23278162 A G
Osa05LNT0314700.2 5 23278998 G A
Osa05LNT0314700.2 5 23279113 T C
Osa05LNT0314700.2 5 23280256 C A
Osa05LNT0314700.2 5 23280208 C T
Osa05LNT0314700.2 5 23275780 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
Osa05LNT0314700.2 osa-miR7693-5p Cleavage 4.5 21.912 1 24
Osa05LNT0314700.2 osa-miR7693-5p Cleavage 5.0 20.803 1 24
Osa05LNT0314700.2 osa-miR167c-3p Translation 4.5 21.664 1 23
Osa05LNT0314700.2 osa-miR1435 Cleavage 5.0 15.682 1 20
Osa05LNT0314700.2 osa-miR1850.2 Translation 4.0 17.627 1 21
Osa05LNT0314700.2 osa-miR1428e-5p Translation 4.5 14.793 1 22
Osa05LNT0314700.2 osa-miR1861d Cleavage 5.0 21.233 1 22
Osa05LNT0314700.2 osa-miR812f Cleavage 4.5 20.526 1 24
Osa05LNT0314700.2 osa-miR812g Cleavage 4.5 19.328 1 24
Osa05LNT0314700.2 osa-miR812h Cleavage 4.5 19.328 1 24
Osa05LNT0314700.2 osa-miR812i Cleavage 4.5 19.328 1 24
Osa05LNT0314700.2 osa-miR812j Cleavage 4.5 19.328 1 24
Osa05LNT0314700.2 osa-miR1428f-5p Translation 4.5 14.793 1 22
Osa05LNT0314700.2 osa-miR1428g-5p Translation 4.5 14.793 1 22
Osa05LNT0314700.2 osa-miR2918 Cleavage 5.0 21.718 1 21
Osa05LNT0314700.2 osa-miR2930 Cleavage 3.0 21.726 1 22
Osa05LNT0314700.2 osa-miR2930 Cleavage 4.5 18.058 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0314700.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0314700.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0314700.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0314700.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0314700.2 5 APAGE1 Physiological trait Eating quality nan nan
Osa05LNT0314700.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0314700.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0314700.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0314700.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0314700.2 5 nan Physiological trait Eating quality RM163 RM31
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
Osa05LNT0314700.2 5 23278998 Lemma-and-palea-pubescence 8.554387093 -