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

>Osa02LNT0143400.2

CGGAGTAACCCATTACAACGAGAATTGCAGATTTTGTTTCACGAACAAAATCAAGATAACTCATCCCTTGTGTCTTGATGCAGGTATTCGGTCACACATCTCATGAACAGAATTTGCATATGGTACACGCAGCCAGATTCTCTCAGAACATGGCTAAAGAAAGATTGATTAATCAAGTATTCCCCATCGCTAACATTTTCAGTTTTTCAGACTTTCAGTTAATTTATTGACAAGGCCTTGCAAGTGACTATTCACGTCAGGGATGTTCTCCATGTTAGCTGAGCAACTTGAAAGCACTCGTGCTCGTGTATGAGTCGATGAGAGTATTCCACCACGACACCAGAAACCAAAATTGTACAGCCAGCACACTTGCGAGCTAGGACACTTTGTGCGAGATTTTTATGTAATTCATGAGCCTGCTCAGGGCTTTACCGCTGTCAATGGCTTCTCTTGCCCTGTCAAGTGCGGACTTGATATCCTCAGCTCCAGTGCAGCCTAAGAGGTGGTCAACCATGGCAGCATTTAGGACTATTCTGTCATAGGCTGGTCCTTTCTCCCCACTCAGCGCTGCCAAACCCAACTCCAAGTTTTTCAGGACTGATCTATCAGTTCGTGGAGTCTCAGTGGATTCAAAACCAAGTTCCTGAGCATTCACAATGACACTGAAGCCCTCTCTAGAAATGCCATCAGTCTCGGAGAAATCTGTGCTGTTTGGTATCCGGAACCCTGAGCAATGGTTCACTGGAAGTCCTTTTGATGCATGAGCAGATCTTTCTTTGGTTGTCATAGAAAGCGCACCCTCCTCACCCTTTACAACTAGTCCAGCATGAACAGTTCTCCTCCTCATGAGCATAAGCAATGGATCTTCATAGCCCACATGATAAAATCCAGCAACCATTGATTCTCTTCCTCGCGCTCTCACAAATTGCTGAACTTTCTCAGAGGTAGCTAGCGGTGGCCGTTTCTTAATATGCTCCCTAAGCCCAATAATCGAATATAATGGTGGGCAAGCTTCTTGGAGACCCAAATATGCAAAGCCGGTATTCTCATCCTCCAGTAGTGTTTTGGCCTGTAATGTGGACAAATGTGTGTTTGCACCCATGAATTTAAGCATCTGACCTTCTGTTATGCCTCCCTGAAAATCTTGGGTGGCATCCACTCAACACCATGGAGGAGACAAGCCTCACCATAGCAGGCTCTAACAGCTGCAACAAACAGAGTACTCCTGAAAAAGCGTGTATTTCCATCATAGGGCTCACCATAGTGTGTCAATGATTTGACATCAGCAACTGGAGTTGGACCTAATTCATCATCAAAGGCTAGACAATATCCTTTGAGCTCGCGATCAGTCTCCCTATTCATCCGCTGTCCAATAAGAAATGCTGCCAGCAGTGCTTCATTAACCATAGTTGAATTTGCACTGGCTAATTCAACTGGTAGAACATCCTTTAGTACACCCTGAACTTCCTCATAACCCAAATGGCCACCAGCAAGAACTTCTCTCAAAGCACTGACAAGTCTCATCTCTGCAGTGCTTTGACCAACATACCGAGGTCCAGTTAAACCATTTGCTCCCATGATTGTTCCTTCCGGATCTGCTATAAATTTCACCTCGGGGGGAAGAACATTGACAAGCCGTGGCCAAAATAAGCTCATGGCACGACGCTCACCCTCACTCCATTGGGTGGCTTCTGGAAAGGAATTAGCTCTTATTGTCATGCCAGCGAAGAATGCACCCAGTTGTGCACTGGATACTGGCTCATCTTTGAGTTCTCCCATTCCGGAGCGGAGGATGGTGTCGAGGACGCGCATGGCCTGCTCCTCCCCGAGCGGGCGCGTCTGCTCGGGCCCCGTGCACACCCGCGCCTGCGCCTCCAGCACCGTCGCGTTCGGCCGCGGCATCCCCGGCGGCCGGTACGAGTCCGACACCGCCGGGTTCCGCCTCACCCCCTCCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.24874
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0143400.2 2 1632688 C T
Osa02LNT0143400.2 2 1633067 A T
Osa02LNT0143400.2 2 1633128 G A
Osa02LNT0143400.2 2 1633390 T C
Osa02LNT0143400.2 2 1633930 C T
Osa02LNT0143400.2 2 1634549 C T
Osa02LNT0143400.2 2 1635582 T A
Osa02LNT0143400.2 2 1636142 A 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
Osa02LNT0143400.2 osa-miR5821 Cleavage 4.5 7.249 1 21
Osa02LNT0143400.2 osa-miR169f.2 Cleavage 4.0 16.423 1 21
Osa02LNT0143400.2 osa-miR535-5p Cleavage 5.0 14.087 1 21
Osa02LNT0143400.2 osa-miR1427 Translation 4.0 24.597 1 21
Osa02LNT0143400.2 osa-miR2872 Translation 5.0 22.948 1 21
Osa02LNT0143400.2 osa-miR2872 Cleavage 5.0 23.476 1 21
Osa02LNT0143400.2 osa-miR2876-5p Cleavage 4.0 15.61 1 21
Osa02LNT0143400.2 osa-miR2931 Cleavage 4.5 16.312 1 20
Osa02LNT0143400.2 osa-miR5080 Translation 5.0 20.259 1 21
Osa02LNT0143400.2 osa-miR5160 Cleavage 4.0 19.668 1 22
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