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

>Osa12LNT0136400.1

ACATACACATAGCAAATACATTAACCAATACATCTCTTCTGTCTCTCTGTTTAATACAATACAGAACTAGGTTCCATACAATGCTTCTCATTTCTCAGTGTTCCCAAGAAACAGTCTTGCATGATATCATCCGGTGCTAAATTTTTGGCACAACATACATAATTACATACTACACAATCTGCTGCAACTCAGCTGCAGTATGGTTCATCAGAAATTCAGACTCAAGAACTAATAGGCAGCAGAGCCTGCTTCCTAGTAGCCTGAACACAGATCTCTTCTGGAGCTCTACCTGCTCTGAAACAAGCTGATTTTCAGTGCAGTTTCATTGCAAATGTTGAGATGATTACATGGCATATACGATCTCTCCGCTGCTCTCAATGTCAAGGTCAAGGTCCGAGTCCATATCCTCCATGTCGTCGTCGAGGTCAAGGCTGTCAGTCAAGAACTGGTTGATTCCACTGGTGCCTGCTGCTGGAATTGTTGCTTCTGCCAGTATCTGCATGATCTCGTTCATATTCTGCATCGGCTGGTCAGGCTCCTCGTACTGATTGCTAACCATGCCATCATCCATGAGGTCAGCCGGGATGTTCTTCATGAACCATGGGTGGTTCTTTATCTCAGGCATGGTGATCCTACTAGCTGGGTTGCCAACAAAAATCCTCGTAATGAGATCGCGGCACTCCGGAGATATGTGGACATAGTCTGGAATTGAGTACTGAACACCCAATATTTTCTGAATTGTCTTTCTGAAGTTCTTGGGATCTTCAGGATCCTCGAAAGGGTATGCGCCAACCAACATCACGTAGAGCGTCACACCGCATGACCAAACATCGGCAATCTCCATCCAAAGACAAATTATTAGGGATTGAGCTAACTAATGCATTAAAAGGGTTACTTCACAAGACCATACACTACCCATGCCATTGAAACATGGATCAACACCTTTACAACACAATGGCAGCTTCTATTGTCGAGCAAAAGGCATAGAAGTTGGGCAGCTGCTGGTATCAGTGTATCTTTGCATGCAGGATGGCAACTTTTAAAGCACAAAGGGGATAGATAATACCTTTCCATCGTATTCTTTCTTGAGCAAAACTTCTGGAGCAATATAAGCTGGAGTTCCAACTGTTGATTTTGGTTGTGAATGAAGAACCGATGACTTCGAGTAACCAAAGTCACATATCTTCAAGCGAGGAGCAGTACTTCCATCTAGCAGAGTGTTCTCCAGCTTTAAGTCACGATGGCATACTTGCATGGAATGGCAGTAGCTAACTCCAGATATCAGCTGCTGGAAGAAGAAACGAGCCTCGTCCTCGCTGAAGCGGCCGGCGCTGCAGATGCGCTCGAAGAGCTCGCCGCCGGAGGCGTACTCCATGACGATCGCGAGATGCGTCGGCGTCAGAATAACCTCCTTGAATCGGATGATGTTGGGGTGGCGCAGCGACCTGTGGTTGATGATCTCCCTCTGCACGTTCTCGTCAATCTTCTCGCCGCGGTCGATGTACTTGACGGCGACGAGGTCGCCGGAGGCGCGGTTGCGCATGAGGCGGGCGACGCCGAAGTTCCCCGACCCGATCTCCTTCACCAGCTCGTACCTGTCACCGTCGTGCATTATCGGCATCTCCATCCCCAGCGGCCCCGCCGCCGCCCTCTCCATCGCTTCCGCCGGCGACCAAACGAACACAAACGCAAACCTCGATCCGACTCAACACGCCACCTCCTCCCCTCTTCTTCCTCCTCCTCCTCCTCCGATCTCGTGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCCCCTCTCGCTTGCTCGTGTTCTTGATTTTTTTTTTCTCGCTGTTGTTTTTTTTTCTCCTTTTGCTCCCGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.886837
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0136400.1 12 24459657 G T
Osa12LNT0136400.1 12 24460297 T G
Osa12LNT0136400.1 12 24460506 T C
Osa12LNT0136400.1 12 24461795 C T
Osa12LNT0136400.1 12 24461821 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
Osa12LNT0136400.1 osa-miR5531 Cleavage 3.5 24.325 1 22
Osa12LNT0136400.1 osa-miR171f-5p Cleavage 4.5 22.239 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0136400.1 12 nan Resistance or Tolerance Submergency tolerance R1709 RM235
Osa12LNT0136400.1 12 qSD12 Physiological trait Germination/dormancy RM3331 RM235
Osa12LNT0136400.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
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