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

>Osa09LNT0438500.1

GCTAGAATATCATTTTTTTTCTCTTTTTCTTTCATTAATTTGCTATTGCACAGTGGCATTTTACAAAACCTTCTCTACCCTCAGAAAATGAATAAAAAGTCTCTAGGATTCCCAGAAGATAATTTCACCATTGTCGCCAACTAAACCAATATCCTTGAGTCTCCGTTCTTGGTAGTACTCTAGGCCATCCAGTTCCTCCTCCCTCTGCTTGAAAATGTCATCAATCTGCTGTAGCACTTTCTTCTCACCGGCCCTGACTTCAACGGCAATTTGAAGCCTTGGCTGAAGATTTTCACTTCCCAACAGTTCTTCGTCCTCTTCTATGGTAGTGTGGTAAGCACCAAGGGCAGATTTGCAGGCATTTCGGATGACCTGACATATCGCTTCTTCATTATCTTGACTCACTGGCAGTTCAAGGTGGCCCCAAACAGCATTTCTGAAGAGTGCTTCCAAGAGAAATGCATCTGTTCCCCCAAGGCAGAGTAATCGCAGGTAAGGTAGCATTTGAGGAGGAAGAGATTCACCAAGGACAATATCAAAGTATGCAGTCTCCCCCATCCCATTTAGCTCTGCAATGTCAAGCTTGTCATCATAAAATGGATCAGATTCAGATATCTCCAAGGTCAGAGTATATGCATCCCTTGATGAATTTGATTCGGTGAAACCATAATCAAGCGCTAATTCTGCGTTGCTCTTGTCCAAATCATACTGAATATATATCTGTTCTCCAGATTTAACATTCACCGGTGTTCGCAAAGAAAACACAACATCCCTACCAAAAAGACCCTTTCCTTTGATCTCCCAACTGGACTCTTTTGAGGTTATATCATCGCTGTGATTTACAAGATCAGCAAATGGTATGAGAGCAAGCTTATCTCCACGGAGCTCCGCAAACACCCGTGATCTGAGTATGCCGAATGCCCATAGGAAATCATTGAATGTTACAGTACCAGGAAAGAGCTCCCTGTTCTCGCTTATGATCTCAGCTTCAACACTCTCAAATTCACTCTGCACATACTCCTTCACACCCATTGTTGTGCTCAGTAACTGTGTTCCTTGTATCTCCAAGAGCTCTTCTTCTGACCTGCACAGAAGATGGTGGAGTCGGTCTGGCGCGGGAGGATGGCGAGGTAGGGCGCCCACGGCGAGCCGGCGCCGCGGGCGGCCTCGCGGAGGAGAAGCAGCGCGACGGCGACCCAGGGCCTGAGCCCCCCGCGGCCGACGGCGCCGCCGAGGTCGGAGGCCGCGACGGCGTCGGCGTCCAGCCAGAGCTTCTTGGGCACCTCGGCGAGCACCTCCCCGCGGGGCAGGTCCCGCGCCGCGACGAGGCCGAGGCCACCCTCGGGGACGGCGGCGGGCGCCGCCGCGCCGGCCCCCGCGTCCGCGCCGTGGGACGACACCCAGCGCCTGAACTCCTGCAGCGCGGCGTCCGTGGGCGGCGGCGCGGCCGCGGTCGACGACGACGTCCCGGCCGCTGCGCCGGACGCGGCCGCGCGGCGGGGGAGCGGGCGCCGGAGGCGGAGGCGGGGAGGCTGCGGGTGGACGGAGAGGAGGCGAGGAGGGAGGAGGTGGTGGTGGTGGATGGCAGCAGCCATGGCGCGCAGCCAGAAGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.584793
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0438500.1 9 14608753 A C
Osa09LNT0438500.1 9 14608864 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0438500.1 osa-miR5817 Cleavage 5.0 14.348 1 24
Osa09LNT0438500.1 osa-miR397b Cleavage 4.5 14.278 1 21
Osa09LNT0438500.1 osa-miR169d Translation 5.0 18.437 1 21
Osa09LNT0438500.1 osa-miR5152-5p Cleavage 4.5 21.033 1 21
Osa09LNT0438500.1 osa-miR5492 Translation 4.0 12.541 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0438500.1 9 qLG-9 Physiological trait Germination/dormancy G103 R1751
Osa09LNT0438500.1 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
Osa09LNT0438500.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0438500.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
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