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

>Osa11LNT0084700.1

GAATAAAAAATAAATAAACAAATAAACTTGAACATGACAAATATTTGCAGTTCACAACTTCAAGTAAGGATCTATGGATATATGGCTTCTCTAGCAAACTAACAGAGCCAAAGGTAAGTTCTACCATAGAGGAGCCCAAAAAGGTTTTCACTTGGGCACCTCTTTAAGTAAAAAATGTAATGCCAACATTTGTTTGCCTCAGGACTAAAAATAAGATCTGGCTATGCAAACAAAAGTAAAGTCTAACTAACTTCACATAACCAAGAAGAGTTGAACAACTCCTCAGACCAAAAGGAATAGTTGTACATCACATAAGCCGCAAGCCTATCCTACAAATCTTCCCAATTCATAAGCATTAATCCTGCTTCACGACGCAGGACTCGCCAACTATCAGATCAATCCTCAGGGTATTGTTTAATATACAAAGTTAGCACAAGGTGCTTCCTTTATAGCCCAACAATTGTTGTAGAATCATCATTGCCGTTGGGCAGATGGAGATTGCTGAACCTGCACTGGTGGGAAGAAGCCAGCACCTGGTGGTTGAAAAAATCCTGTCGAGGTCGGCGATTGCTGTGGTGCCTGCGGAGACTGCTGCTGCTGGGGCTGACTCTGGTTCTGAGGTTGTGTAGGCAGAGGCAGAGGTGGAGGCGCGCTTAGTCTTGGAAAACCTGCTGACATAATGTTGGGCAATAGGGGTGGAGGCGGCGCAGAGCCACTCACCATCCCAAAAGGTCCCATTCCAAACATTCCTCCAGTATTTTGAACAAATTGTGGCATAAGTGGTAATGGAGGTGGAGGTGGTGGAAATGAACCGGTTGCTTGGTTTGCTTGTGTTGGTGGCTGTGTGCCTCCAAGAGCAGCTGTTGCTCCAATCTGTGGTTGCACCTGTGGTACTTGCCCAAAGAATGGGGGAGCACCCATGTCACTCACATGAATAGGGTTGTCAAGCCTAGGCTTCTTATTGCTCTCAAAGCCTGGAGGTCCTGCAGAGAGATCTCCAGAAGTCGAACCACTATTCCTTGCTTGTTCAGCAGCAAGGGACGAGAAAATGGAGGAGAGCACCTTCTCAGGAGCTGACAAAGATGCAAGCTTATCTGCCATAGCTGCTGCAGTTTTTTTGGGCTCATCACCAACAGCACTAGATGTGGCAGGAAGTGAGGTTGCTGGATGCAGTGGTTGATAGTGGGGAAATATTGGCATTGCAGCTGAATTCTGCATCATGGCAGCTGTTTGTCCTGGTGGAAGTGTAACCATCAGTGGACTAGAACTAGATCCTGCACCATTGTTCAAGGCACTACCAAGTCGTTGTTTTAGTTGCATGGCATGTTCAGCCTTTGCTCGAGCTACATGCAACTGATTGCGAAGAAGCTCTGACTTTGCTTCCTGTTCGCTGAGGGCTTCTCTTAGTTTATTGATTAGGGTTATTCTAGCCATGTTGACACTTTCAAGTTGCTCAATGCACTGCTTAAGGACTGTTTCCTGCCCTTGAAGGTCAGAAATCAACGATGATCCTTGCTGAATACCTTGGGTACAAGCATCATCTACATCTTTATCCATCCTTTCCAAAACACTAACAGCATTATTGCATTTGTTTAAAGCTGTGTCTTCGTCAAAATGTTGATCAAGCACAGACTGATATGCTGTTACAATCTTTTCTGGCATCCCGCCAATAGTAAGTTTTTTTGTTACTGTACCAGAATCTTTTCGCACAGCTTTGGAAACTGAAGAGGGGTGAGAGCTTGGATTTGAGCTATTGCCATTGTTACCCATTGTATGAGTGCTACCACCAAGAATGTCATCTTTCAGACTTTCAATACGGGTTCCAAAGACCTTCCGTTCATCCCAAATATCTATTAATCTTCCGACTACTTTCTTTCCATCTTCTCCCCCATTGACATAAAAGTCTTTCAATAATCCAGGAAGAACCCTCCAGAATTCATTCACAAACTCCCCTCCCTTGCGTTTACTATTTTGCAGGATATCATTTGACAGGTACAGGAATGATACTTTCTTATCCTTATTTGCACTGTTATACTGCTTCTCCCATGTATCAACAACCTTTCTGGCTCTCTTTCGGTGAAAAATGCACCAATTTGAAAGTGTCTGGATCCTAGTCGCCGTGTTGTTGAGCTTGTTAAGCTTCTCAACAAACGCTTGCTCGCTGAACGAGCCAGAGCCGCCGCCGCCGATAGTTTCCGCCTTTGCCTCCGCCTTGGCGTCCGCCTTGGTGTCCGCCATCACGAAGGCGAAGGCTCCACCACCGAACTCCTCCCCCTCGCGAACAAGCTAATCCCCCGAAGAAACTTGTGCTTCTTGGCCGGCCAAGATCGAACCAATCCCCGGTGGCGAGCTCGTCAGCTTGAATTCGCCGCCGGTGAGCGAGGGAAGGGGGCGGCGAGGCCGGGGCGGGCGGGGGAGGACGAGACGAGAGGGTTTGGTTTTCTTTTTTTTTCCCCTTTCCGTGCTGCGTGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.994749
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0084700.1 11 1383900 T C
Osa11LNT0084700.1 11 1383635 T C
Osa11LNT0084700.1 11 1383747 A G
Osa11LNT0084700.1 11 1384608 A G
Osa11LNT0084700.1 11 1384633 T C
Osa11LNT0084700.1 11 1384960 T C
Osa11LNT0084700.1 11 1386175 A G
Osa11LNT0084700.1 11 1387426 A G
Osa11LNT0084700.1 11 1389204 T C
Osa11LNT0084700.1 11 1389380 A 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
Osa11LNT0084700.1 osa-miR5541 Cleavage 4.0 15.298 1 21
Osa11LNT0084700.1 osa-miR1437b-5p Cleavage 4.0 17.914 1 21
Osa11LNT0084700.1 osa-miR5079b Cleavage 3.5 15.139 1 22
Osa11LNT0084700.1 osa-miR162a Translation 5.0 22.425 1 21
Osa11LNT0084700.1 osa-miR396e-5p Translation 4.5 20.955 1 21
Osa11LNT0084700.1 osa-miR1423-3p Cleavage 5.0 23.587 1 21
Osa11LNT0084700.1 osa-miR1441 Cleavage 4.0 16.316 1 21
Osa11LNT0084700.1 osa-miR2093-3p Translation 5.0 18.836 1 20
Osa11LNT0084700.1 osa-miR396f-5p Translation 5.0 21.356 1 22
Osa11LNT0084700.1 osa-miR2871a-3p Cleavage 4.5 14.963 1 21
Osa11LNT0084700.1 osa-miR2871b Cleavage 4.5 14.963 1 21
Osa11LNT0084700.1 osa-miR3980a-5p Cleavage 5.0 22.57 1 21
Osa11LNT0084700.1 osa-miR3980b-5p Cleavage 5.0 22.57 1 21
Osa11LNT0084700.1 osa-miR5079a Cleavage 3.5 15.139 1 22
Osa11LNT0084700.1 osa-miR2093-3p Translation 5.0 19.1 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0084700.1 11 nan Morphological trait Panicle/flower RM286 RM332
Osa11LNT0084700.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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