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

>Osa09LNT0442100.2

CACAGGGAAATGGCACACGATATTTTATCAACATTAATTGAAACAATTTGCTACGTACGCATAGATTAGCAACCCAGGAGCTAAGGGGATCATGATATTTACAAAATTTACAGAACCGGCCTTCTAATGGCCGGTTTATCAGCATCACCAGATAAAAACTACATCATACCCATGTCAAACGCTTATTTGATTTGACAGAAACCCAGGTTATTATCCTCAGCTCAGAGACACCACCTGATGGAGCCTTTTAACTGGCATCAGACCAACCTCTGCGAGAAAAATATGCACCATTCCAATCAGGAGCTGTACATCAGGTCGGGTCAGAATGCCGTACAGAGGTTGCTCTTCAAGTTTGAAGAGCATTCCTGCTGTATGGGAATGGCTGGGTTACACAGCCGACTCCTTTTTGGCTCTGATATCCTAACATTCGTTATTGCTGCTGTCAGTGCATCAACTATACCACATTCATCCTGATCTGCTGATCTCTGACTTGATGAATCTGAAGATATTGACTCGCAATGTAACCTAATTCTGTCCCATGTAATTCTGGGTGCTACGATATTGTTAGTAATACTCAAATTAGCAGTTACAGCCTTCAAAGGGCACTCTGTGTAGAACACGACCCATGGGTGACTAAGAACTTCGTCAGCAGTAATTCTGGATGGTACATCTCGGTTCAACATTCGACTAATAAGATCCCGTGCAAGAGATGATATTGATTCCCATGGTCCACTGTGGAAATCAAGTTCAACTGTCTTTATAGCCTCAAAGACAGCATCTAGTGAACCCCCTTGAAATGGAAGGGAACCATGCAGCAGTACATGGAGTAGCACACCAGCTCCCCATACGTCTACTTTCTCAGAGTAGCATCCAGACAAAACCTCAGGCGCCACATAAGCTGGGCTACCAGCAATGCCAGACAATTTTTGACCTATCAAATGGAGATGACATGTGAACGGACACTGCTACCAACTCAAGACTCCAAAACACACAGCTTGCACTCGTTTGTATCCCGAAAGAACAAATTTCTTCTTGTGGGGTACCACACAGAACACTGAATCAGTCGCCAATGACAAGTTAAACAGGACTCCAGAAATGAGGGACCTCATAACTTTGTAAACTTGAGTTAGCCTAATTTATTTGTTACATGATCAAACCAAGAAGATCCAGGCTAACAATGCTTGCTTAAATTCTTAAACTCATAAGGGTATGACAACTCCCAACATATTAACATCACATTTAGCTGATATGCATGGCCAGTAGATATGAGAAACCTGCAAAAATACTAGTGATCATGGTAAAAGAGTAGTGGTCAAGATTTAATAAGTTGGAATTGTGGTGGAAACCTGGCACCCACCTCTAAATCACAATAACACAACAAAATATTACATGTTAGATGCAGTTTAACTAAAACGTTGTCCATGCTAACTTTGTGATACCATCTTTTAATCTATAATTCAATGCTAGAATTCCAGTTGATCTTCAACTACCTTTGGGTAACTTTTGTTTCTGATGACAACAAAAAATGCATTTTGGTGCAGGCACATTTTTTGTTTCCTCATAACTTAGACAACTCGAGGCATCCCAGCATAAGATTATCCTCAAAGAGCGCATCTCAACATTGTAGAGCCTCAAATTCAGTATCAGTGTCACTAACACTATCAATCTAAGATGAAGAAAAAAAAATTACCGTCGGCAACTCGTGCGGCAAGTCCAAAATCTGCGAGCTTTATCTTTCCTGCCTTGGTGAGCAGTATATTCTCCGGCTTAATGTCCCTGTGAACGACGCCCATCTCGTGGCAGTACTTGACCACGGACATTAGATCTTTGATCACAATGGCGGCGCGCTGCTCGGAGAACTTGCCCTCCCTCGCCATCTCGTCGAGCAGGCGGCCGCCGCCGCAGAGCTCCATGACGAGGTAGAACTTGTCGGCGTCCTCGAAGACGGCCTTGAGCGTGACGATGCCGGGGTGGCCCGAGAGGTGCTGCATGATCTCCACCTCCCGGTGGACGGTCTCCTCCCCGTTCTTGGGGAGCGCCTTGCAGGCGAACTCCTCGCCGCCAACCTTGGCGCGGCAGATCCGGACGGAGCCGAACTTGCCCTGGCCGATCTCGGCGCCGAGCTCGTACTCGCTCTCGAGCCGCTTCTTCCGCCCCATCCGGGTGGCGGACTCGATGCACCCCAGCTTCCGCTTCAGCCCCCTGCTGGGGCTCTCCGGCGCGGCCCGGCCGCTCGCGGGGGGCGCCGTCTGGACCACGCCCCCGCCTCCGCCCCGGCCGGAGGCGTCATCGGAGGAGGGATCCTTCTTCTTCTTCTCCGGGCGAGGCTTGGGCTCGCGGCAGGCGCGCTTGCGGGCGACGGTGGTGGGCTCGTGGGAGGATCCGACGAGGGAGCACGCGGAGCGCGCGCCCTTGCGCTTCCGCGGCAGCGACGACTCCATGGACTCCCACCCCCCCCCCCCACCCCGGGCGATCAGGCGGCGTGCTTGCGCCGCTTGCGGGTCATGGGGATGCGGATCGGGAGGGGAGGGGAGGGTTGGTGGCGGTGGATTGGGGCGGGGGAGGGGAGGGGCTCGAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.643626
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0442100.2 9 17736994 T C
Osa09LNT0442100.2 9 17737671 A G
Osa09LNT0442100.2 9 17738077 A G
Osa09LNT0442100.2 9 17736891 C T
Osa09LNT0442100.2 9 17734807 C G
Osa09LNT0442100.2 9 17736286 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0442100.2 osa-miR169n Translation 5.0 18.484 1 21
Osa09LNT0442100.2 osa-miR169o Translation 5.0 18.484 1 21
Osa09LNT0442100.2 osa-miR1428a-3p Translation 5.0 15.589 1 21
Osa09LNT0442100.2 osa-miR2876-5p Translation 4.5 16.673 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0442100.2 9 qSB-9 Resistance or Tolerance Sheath blight resistance C472 R2638
Osa09LNT0442100.2 9 nan Morphological trait Panicle/flower RM257 RM566
Osa09LNT0442100.2 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
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