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

>Osa08LNT0395700.1

AAAAGCAATGATTGATAGGTTATATTCACAGAAATTAGTATCCTGACCAAGTCATTACAATGGATGGGGAAAGAAGAAAAAGAAAAGCTCTAATATCATATAGCTATGATATAATAAAAAGAATGGGAGGTGAAACAAAAGTCCTCTCCGTATGCAGCTCCATTCATCCTATACTCAGGAATCAGCTTCAGGGCAGGTGAAGTAATCTTCACTGCCCGCACAGCATCATCCATCAGAGATGGGTGACGACTCATCGAAAGGCGTCTCCGATCCATCTGTCATGCGATACATGCCCCCAAACATGTATAGTGTACCGCTACTCCTCATGGAGTATGTGTGCCGATGGAGATAGTCCGGTAGCGTGATGCCAATGAAGAATGGTGAGTAACTCAAAAGTCCAATATGGTCGAAGTGAGGTTCATCAATGGCCCGAGAGCGCTAGGAGCAAACTTCCTAGCAAACAGATAGCAGACAGAAGTGGGCTTCGAGTTGTAAGTGCATCGTGTACCGTTATTCCTGATAGCCTGGATGAACTCTTCACTGATGTTTGAAGCACCATATCTTGCTGGGTGTGGACCTCCTCTTGACCAATCAACCCATGTGATGGTCCTGTTGGCATTCAGGGACCCATGAAACAAATGCAGATAGGTTGGTATGTAATGCTCATCCGGATAACAAGATGGTCTGCAATGCTTCCTGAAGATTGAGTAGTACTTGTTGTCTGCTATTATCCGCAAGGCCAGTTCACGGTTGAGCTCAAACCACTCTGACCCTTTTCTCCATTGACTCGGCAAGATGTGAGGAGCCATCCGCCGGTTGTAGCGGCCAGCACATTGAGGGGTGTCAATGTTATAGGACTCCACGAAGCTGTGTGCCGAGTTTATGAGATACTCATAGACGGTTGGGAAGTTGAACACGGGGATGCAGCTCTCCGAGAGAAGAACGAACCGCTCATTGGAGAAATCCAACAAGGCATTGGCCAGCAGCCGCTTCTCAGCATCAACAAGGGTGATCGATCCCCAGGACACTTCCTAGCATGAAAGGCAGGCAAGCATATTCCCCTAGAGCAAATCCTCTCCCATTTGCAAACAAATCCCAATCAAGTTGAGCACGCACATGGCAGCCACCAACTAGACAACTAACACCTCGGATTCATCAATCCACCAAGGCACCAGCTAATTCATTGGAGTTGGACAATGCAAATGCTACTCGGCGGATTCATTGGATTGCAATGATTCAATGGTAATTTAACAAGAAAAGAAAAGAAAAGGAAGTAATAATAATAAAGTAGTAGTAGATGAAAGAAGAAGTGACCTCGCTGGGGATCTGGCGGGCGAAGAAGGCGGAGTTCTTGGAGACGTTGAGCTTGTAGTCGGGGAGGGTGTGGACGTAGACGGAGTAGAGGCCGTGGTGGCCGCGGAAGAAGCGGTCCCAGAGCGGCGCGAAGGGGAGCGGGCCGCGCGTCATGAAGAGGAAGGCGACCTTGGGGACGCGCTGGAAGGGGAAGTCGTCGGCGACGGGGACGAGGGAGGCGCGCCAGAAGAGCTCCGGGTCGGACATGGAGTGCGCGAGGTGCGGCGGGTGGACGAACGACTTGAAGGTCGGGGCGCAGTCGGCGCGCTCGCACGCGCCGAAGGTGTTCGACGGGAAGAAGAGCTCGGTGTGCGAGTTGTAGTAGTAGCGGGACACGTTGGCGCTCGCGGAGAGCCCGATGACCACGCCCGCCATGAAGATGACGGCCACGGTGACCAGCCTCACGAGGAGCCCCGTCGTCCACCACTCCTTCCGCGGCGTCGGCGGGCAGTAGTCCGCCTCCTCGTCCCCGGAGGCGCCACCCGCTCCCCCCGCCGCCCCCCCTCCCCGCGACTTCAGCATCGCCTTCCCGTCCCCCCACATCACCGCCGCCGACGCGACGCGACGCCACCCAAATCAAGATCGGGGTTTCTCCTCTCGCGCCCAGATCTCGCACCACAAGAACCGAACCCGCACACGGAGCAAGGAATCGAGAGAGCGAGATGGATCGGGGGAGGAAGGAAGGGAAGACACGGGATTTTCGCTTAGCGGCGAAGGATGGAGGTGGGGGGTGGGAAGCGCGTGGAAGAAGAAGAGGAGGGAGGAGGAGGTGGTCGGCGGCGAGGTCGGGCGGGCGGCGCAAGTGAGAGGGGCTTGGGCGCCGCGTGCTCCGATTTAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.784213
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0395700.1 8 547689 G A
Osa08LNT0395700.1 8 547891 T A
Osa08LNT0395700.1 8 548667 G C
Osa08LNT0395700.1 8 548959 T C
Osa08LNT0395700.1 8 549111 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
Osa08LNT0395700.1 osa-miR160a-5p Cleavage 5.0 15.547 1 21
Osa08LNT0395700.1 osa-miR160b-5p Cleavage 5.0 15.547 1 21
Osa08LNT0395700.1 osa-miR160c-5p Cleavage 5.0 15.547 1 21
Osa08LNT0395700.1 osa-miR160d-5p Cleavage 5.0 15.547 1 21
Osa08LNT0395700.1 osa-miR160e-5p Cleavage 5.0 15.547 1 21
Osa08LNT0395700.1 osa-miR160f-5p Cleavage 4.0 15.547 1 21
Osa08LNT0395700.1 osa-miR171i-5p Cleavage 5.0 22.843 1 21
Osa08LNT0395700.1 osa-miR438 Cleavage 5.0 11.554 1 21
Osa08LNT0395700.1 osa-miR817 Cleavage 4.0 19.301 1 21
Osa08LNT0395700.1 osa-miR2924 Translation 2.5 21.959 1 21
Osa08LNT0395700.1 osa-miR2924 Translation 5.0 21.527 1 21
Osa08LNT0395700.1 osa-miR812o-5p Translation 5.0 22.733 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0395700.1 8 nan Resistance or Tolerance Drought tolerance RM407 RM38
Osa08LNT0395700.1 8 qDTH8 Physiological trait Flowering R1943 R2976
Osa08LNT0395700.1 8 qPL8 Morphological trait Panicle/flower R1943 R2976
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