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

>Osa09LNT0439400.1

GGTACAATGATAGGAAATTTTTTATAGCATTTGAGTCATACAAAATTCCTCCACAAAGCCCTGATTCAAAAGGAGGCCTGAACAAGGAATTCGACCGTTTTAACTACGAAATGCTCTATCGGTGACAGGCTGACGGCAGTATTTTCCTTTTACATGGAAGGTTATATCAGTTTTGACAGCAACCTCCAGCAATCTTCGATTCTTCGTCAAGCATCATGTTGAGCATTTTGCCAGATTATCCATTTGTTCATTCAGTCTGGTCAAGGACTCTTGAATCATAAACATTTGCCATGCGATGGAAAGTATGAAAAATACCCAGTTCTCAATTCACAGGCAAGTATGAAAAAATGTCTAAGTATTAGCATTTGCATTACCAGATAACAGTGGTACTGAAAGATTGGTTCCACATTCAACTTTGACGCCTGTACATTCAGGTTCAGTTATCCTTTTGGAATCATTTGACAGGATGGTCAGCCCCTCACTCTTTGCATCATCTGCTTTGCCCCATAGCACAACGTACAACCCAATGATGATTGCAATTGCACCTAATATGCTTCCTATATGAAGTTCCTCATGAAGGAAGATGGTAGATAATATTGTTGTAATCACAGCACTCAGTGGTGTAAAGATTGCGCTATAAAGGGGGCCTTTCACTGATATGCACCAGGATTGGAGAAAGAAGTTTGCGCCAGAGGCAAAAACACCTCCATATAAAATGCAGGGGAGCTCCCAAATCGAAGCTAGTTTCCAAATCTGTAAGTAGTTTGATTCTAGGAAGAATGCCATCACGGCGCATTGCAAGGTCGCTAAGAAGCACATCCATGTTGCCAGAGACAGTGGATCAAGGTACGATCTGCAAACCGGCACCTGCAAGATGTACCAAATGGAGACGCAGAAAGCATTTCCGATGAGGTAGATGCCTCCTTTCACCCAGTCATCATCGGTGGTCGCCGCGACGAGAACCGCGCCGAGTAGCTTGGGCCCCTTGAAGAACGCCATGGCCATCGCTCCGGCGAGGCAGACGACGGTGCCGGCGATCTTGGCCAAGCTCCTCGAACTCCTCAAATCCACCTTCTCCAACCCGATTACGGCGGCGATGGCGAAGGTAATGCCGGGGGCGAGGTTGGTGGTGGCCCTGGCCATGGACGGCGACGCGAGCTGCAGCCCCAGGAAGTAGAAGTACAGACCCGTCGCGCTGGCGAGGGAGGCGGCGAAGAGGAGGGCGAACGCCGGGGCGCCGACGGCCATGTGGCGGCGGAGGTCCCACCCCCTGGCGGCGAGCGAGGCGAGGAGGAGCGTGGCGGCGGCGATCCCCTGGCGGTAGGCGACGAAGACGATGGGGCGCATCCCCATCCCGTACGCCGCCTTGAGCGCCATGTCCACCGCCGCGTAGAACCACTGCACCATCACCATCCCCACGCACGGCCCGTACCGCTCCACCCACCACCACCCTCCGCCGCCGCCGCCGCCCGCCATGGCGAGATCCGCGAGCTCCACTCACCCACCACCA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.665972
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0439400.1 9 15448734 G T
Osa09LNT0439400.1 9 15449560 T A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0439400.1 osa-miR166a-5p Translation 3.5 11.897 1 21
Osa09LNT0439400.1 osa-miR166a-5p Translation 5.0 20.493 1 21
Osa09LNT0439400.1 osa-miR166b-5p Translation 4.0 11.897 1 21
Osa09LNT0439400.1 osa-miR166d-5p Translation 3.5 11.897 1 21
Osa09LNT0439400.1 osa-miR166e-5p Translation 3.5 11.897 1 21
Osa09LNT0439400.1 osa-miR166e-5p Translation 5.0 20.493 1 21
Osa09LNT0439400.1 osa-miR166h-5p Translation 4.5 11.897 1 21
Osa09LNT0439400.1 osa-miR815a Cleavage 4.5 23.59 1 21
Osa09LNT0439400.1 osa-miR815b Cleavage 4.5 23.59 1 21
Osa09LNT0439400.1 osa-miR815c Cleavage 4.5 23.59 1 21
Osa09LNT0439400.1 osa-miR5337a Cleavage 5.0 11.621 1 20
Osa09LNT0439400.1 osa-miR5508 Cleavage 4.5 14.214 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0439400.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0439400.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0439400.1 9 qSB-9 Resistance or Tolerance Sheath blight resistance C472 R2638
Osa09LNT0439400.1 9 nan Morphological trait Panicle/flower RM257 RM566
Osa09LNT0439400.1 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
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