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

>Osa02LNT0141700.2

ACAGGAGAACGAATTCTACCCTACAACTTACTGATTTTTCCTGGTCTAATCTTCTGGGCCATCATGTCTTGAATTCCGTTCCAAAGATCATACTATGAACTAAGTGCAGCTTCTGTATGAGAGCTGAGGTGCCACTGATCAGCAGAGATTGCAGAATGATCTTTCTGGGCTTATGCAACTCTTTTCATCTTTGTTGTCACCTCAGGAAAACCTATAATTCATACTACTTCTTATGTGGCCTTCACCTTGACATACTCATCATGATGGTTATTGAAGTTTTCGTTATATAGCATGCCCGTTGGAGAAAGAAGCCGTTGTAAAGCACTTCCAAACCGACCCCACTGAAACAAGACAAGTATCCACCAGCATCCAGGCAAACTACCAAATTTGTTGCGAATGATCATTAGTAGAAAGGTTCCAATGCCAAAGCATGCTCCCATTGATTGACTCAAAAACCTGAGATCTCTTCCAGCCAATAATGTTCCTTCAAGACTATGCACTGAAGGTGTCACCAATAATGCACAGAAATATGGAATCAGCACTTTATGCATCTGTTGGACAACCATAAAATCATTAGTAAAGAGACTAGGAAAAAGCCACGGAACAAGTGTTCCTACTGCCCCCACAGTCGTTCCAGTTATTGCTCCAATCATGACAAGTGATTTCAATAGCATCCTTGCCTTCATCAAATTGCACTTAGCTCCATATATCAACTCTGGCATGAATGACTGTGCAGTTTGTGACAGGGGCTCACCCCAAACAGTGCACATGCATAGGACATTAACCATAACCTGGTGGGCTGCAAGTGTTATTGCTCCCATAGAAGTTGCAGAATACGTAAGTAACGCGTAAAATGCTACCTTGGAGGTCATTGTTATGAAAACAGGAGCTGCAATTTCAAAAATCTGCAGAAGCTCACTTGATGATGGGATTGTGAATGAAAAAGCTCGAAATCCTCTCTTATTTAGATTTTGCATCATCATAAAAGCTGTGAAACCATAGTTGCCCAGGCAGCGCCAGCAATTCCATATCCACATACAGAACAGAGAAGAAGGTCCCCAACACCATTGATAACACTAGCAGCTGCCAATGCCTTCAAGGGACCCCAAGAATCTTTCATGCCTAGACTAGCACTTTGAGCAACTAAGCCAACCAGAACTGCAGGCCATGCAAAGCCTCTAATCTGTGCATATGTATTGGCAGCAGAAATGATATCATAGTTCCCCGATCCAGTAAACACAGTTAACACTTGAGTCCCAAAAAGCTTGGTGAACAAAAACATTCCTAAACCACAAGTAAGAGCAACAAACAGCAACATAGATACTTGGTGCTGTGCAAGTTCTTCATCCTGCATATAGTAACTGTGCTTATAAATAGAGTGCGGAGAAAAGACATGAAAGTTTGTGCGTTCATTGTTCAAAGTTAATAACCTTTCATAAAATTATAACCACCACTAATTTCCACAAAGTAGGGCTCTAGTAACATGCCAAGCACCAAGCCACCAATATTCTCGCCATACAGAGAGTTTTATAGTTGAAAACAGTTTAGTTTCTGAATTTCTGAGTGGCCTGCAAATTGCCGAGTAATATACATATGTATGTCCTGCTGCAATGTTCTCGTTTGTAGTAAGAAAAAGTGTATAGTTCATGCAAGAGAAATCAAAACATTAACTTCGAAAGTTTTCAATTTCAGCTTGTTATTAGGCATTTTTTGTACTTTTGTTCCATAGTCTTATAGAGGAAAGGGAGGGAGAGATTGTTCACGCCGAACTAAGTTATAAAGCTAAGTAGCTTAGGTTGGCAACAATCAAAATTGGAATGTTAAATTTGTTTTACCACTAAAATTCTAACAGATAAAACAGTATGTAAATCATACTATCAAGAGTAGCTAAGTTAACAATATATGTTTCTGATAACTGCCCAAGCATAGCATATTCCTGCCTATAGTTGTTCATCTAACAAAGAGGAAGGTACACCTTTTTAGCTAAGGAGGTGGCCACCATGTTGGAGGTCGCGATCGAAAGGAACATGAATATATAGCAGAGGTAATCGCAGAACACCGTTCCAGGCCCTAGGGCAGCGAGCTGGAGGGAGGAAGTCTGGCCGATGACCATGGTGTCGATGAGGCTCATGAGGGGCCCGCAGATCCAGAGCCCCAGCGCCGGCCCAGCGAACACGACGATGTCCCGCACCTGCTCCCACAACCCCGCCGTTCCAGCCGCCGCCGCCGCCGGCTCATCCCCATCCGCTCCCGCCACGGCCACCCCGCGGCAGCGGGCGGCGGCGCCACGGGGGAGGCGCGGCGGCTGTGGCTCGGTAAGCGGGCGGCTGAGGACGAGGCGTGCCGCGCGGGCGGCGAGAGCGGGAGTGGGCACGGCGGGAAGGCGGCGGGTGGGGAGGAGCGCCGGGAGCGGCGCGGCGGAGAGGAGGCGGAGGTGGGCGGACATGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.77789
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0141700.2 2 1167478 C T
Osa02LNT0141700.2 2 1169743 G A
Osa02LNT0141700.2 2 1169750 C T
Osa02LNT0141700.2 2 1169971 A T
Osa02LNT0141700.2 2 1172176 T C
Osa02LNT0141700.2 2 1172735 T C
Osa02LNT0141700.2 2 1173417 T C
Osa02LNT0141700.2 2 1168962 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
Osa02LNT0141700.2 osa-miR5543 Cleavage 4.0 15.318 1 21
Osa02LNT0141700.2 osa-miR5834 Translation 4.0 14.264 1 21
Osa02LNT0141700.2 osa-miR160c-3p Translation 5.0 16.505 1 21
Osa02LNT0141700.2 osa-miR166d-5p Translation 4.5 12.551 1 21
Osa02LNT0141700.2 osa-miR395f Cleavage 5.0 24.407 1 21
Osa02LNT0141700.2 osa-miR159d Cleavage 4.0 10.975 1 21
Osa02LNT0141700.2 osa-miR167h-3p Cleavage 4.0 24.875 1 21
Osa02LNT0141700.2 osa-miR444a-3p.1 Translation 4.5 23.534 1 21
Osa02LNT0141700.2 osa-miR444d.1 Translation 4.5 23.534 1 21
Osa02LNT0141700.2 osa-miR5337a Translation 5.0 9.79 1 21
Osa02LNT0141700.2 osa-miR5498 Cleavage 4.0 19.785 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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