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

>Osa02LNT0143500.2

CATCAAGGACGGGCATTTGCATCATAATAAAACGTCTAGCCAAAGTTGGATACCACACATTCTTCGTCAACAAACTGCTGCTGCGACAAAACCCAAAACCAAAAAAAAAAAGCAACCTAACGGAACGGAGGAAACAACCCAGTAGTTCTTAGTTATGCAGCTCTCCCTCCCTTTTGACGGATCAAAACCTCATGCTTGCAGCATATGCATATCCCACCAGGCCACCACCATGGGGTGGTGAACCATTTAGTTTCTTGCGTTGTGGCTCCCCAAAATGCCCCTCTCATGGTGAGGAACACGCTGGTAGCCATTTGATGGCCTGCCACTACCACGGTTGCCCGCATATTCGTTGTCGCCTCCCCCTCTAGCATACCCTCGCCCTCCTCCACCGAAACGACCTCTGCCTCCCCTTCCTCTTATGCCGCTGTTAGGCTTCCGCTCCTCAACATATATCTGCCGCCCATTTATTTCAATTGGTGAAGCCTTCAATGCATTGTGAACACCACTAAGTTCTTCGAATTCCACGAACGCATAGTAGCCTCCGGTCTCCTTGCGGCTTCTGATAGCAACACCATCAGGAATGAGCCGCCCAAACTTCTTGAACTCATTCTCAAGATCAGCCTCAGATACAGAAGATGGCACGTTCCCAACATAGACAGATTTGCTCTCTTCATCATCCTGGACAGCAAATTCACCATAAACATCGGTTTTTGGCTTCTCGGTTGCCACAGACGAAGTCATAACCGAATGCTGTGCAGCCTGGTTTGTCTCGGTTGCCTGGTGAGGTCTAGTCGGGGCTGGCTGGGCTACAGGGAACACCAGTGGAGCTTTTGCGGTTCTTAGAATGGAGGCATAGGTCTTCTTTACTGGTTCACCAACAGGTTCCTCTACATGAGGAGGTGGAACAGGTGGAGATTGCACTGGCTCCTCCGGTGCCATCGCCATTCCATTTGTAAAGGAAGAAATTGGTTCTTCAGGAAGAGGCTCATCTCCCCAATTGTCTGACTGAGAAACTACTTGCTGTGGTGGCTCAGAGTAAGTATAGTTCTCAACAGCATCACTTTCTTCAGATGTTATTGGGACAGCACTTTGATTTTCCTCTTCGTGAATGTACTCTGGAACAGGTTCGACGACGGAGTTGGATGCCATGTTGGTCTCGAAGTTGTCCTGGGCAATAACAGGTGCAGGTTGCACTTGCTCTTCGTCAACGAAATGGAAATAATCATTGAGAACAAAGTAACCCTTTTCCTGGGGAGCAAGGAAAAACATCTGGATGAATTTCCTTTGGTGGCTGTACTCCTTGGTCTGTACAAGACCAGATACCATAACTAGCACACCATCACCCCATGAGTTGAGAAAGTTGGCTGTTTTGATCTCGATTTGGGTGAAATTCAAGGACATAATGAGGGAGTGTATATCCATCATGGTGCTGGCGGTGGTGTTGGTTCCAGCGAGGTCGTCGACGCGGACCATGGTGCTGGCGTCGTTGTAGAACTGGTGGACGACATCGGGGCTCTGCTGCAGGAGGTTGTAGTAGTTGCGAAGGAAGTAGGTGCCGACCTGAGTCGCCGCCGCCGCCGCTGCGGAAGCCATGGTGCAGGAAACCCTAGATCTGCGTCCGCGGGAAGGGAGCCGGGGAGGGGAGGGCGAGATCTACTGGAGAAGGAGCCGATCGAGACGATCACGAGCACGCCCGCTGGTCGGGGCCCCCTCCGTCCGCCGGTGGCCTCCTCTCGCCGGCGACGGCGGCGGTGGCGGCGGCGCTCGGAGACGACAACGCAACGGCGGCGGCGGCGGCGGAGGAGGCGGACACGGCGGTGCGAGGGGAAGGCGGAGGCGGCAACGCGAGGCGGCGGCGCGAGGGGGGAGGCGGAGGCGGAGGCGGCGGCGCGAGAGGGAGAGGGGGGAGGAGATGCGGGTGGCGGCGGCTAAGGGTTTGGGAGGGGAGGAGGAGGGGTCTGGATTAGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.898357
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0143500.2 2 1652425 C T
Osa02LNT0143500.2 2 1652464 A G
Osa02LNT0143500.2 2 1652950 T G
Osa02LNT0143500.2 2 1653009 A G
Osa02LNT0143500.2 2 1653811 G A
Osa02LNT0143500.2 2 1653905 G A
Osa02LNT0143500.2 2 1654566 T C
Osa02LNT0143500.2 2 1654107 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0143500.2 osa-miR6251 Cleavage 5.0 19.195 1 21
Osa02LNT0143500.2 osa-miR1846d-3p Cleavage 3.5 21.795 1 20
Osa02LNT0143500.2 osa-miR1862d Cleavage 5.0 13.832 1 24
Osa02LNT0143500.2 osa-miR1862e Cleavage 4.0 13.813 1 24
Osa02LNT0143500.2 osa-miR5514 Cleavage 3.0 10.653 1 21
Osa02LNT0143500.2 osa-miR5522 Cleavage 5.0 11.998 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