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

>Osa12LNT0134700.1

GTAACAATCACGTCTTCTTATATGTTTTACATTGTTGGGACAACATATACATATGTGTCAATCGACATCCATACAAAAAAAAAGGAAAATCAAAGAAGAAATTTACTTTTTTTCTCTCGTAGTAACTTTTGAAGTTAGAATAAGCTGACTCTAATCTTTGTTCCACGAGTTATCAATCAATATTATAAAATGTATACTCCTGTACGTATGTGTATATATAGCCACAATACAAATTAATGCAAAATTCACTACATCTTCCAAATGTCCTCCAAGCTCCAAAAATTCTCGGAAATGCCCTCAGAAAAGCCCTGAACCCAACCAACAAGATCTGGATCCTGAAACTGGCTATGCTCATGAGGATGAAGTTGCTCTGACTCATAATTACTACAAAACCCTTTATTTGCTCCCTGCATCCAGTAGTCCCCACCATTCACCATCTCATTGTCCTGCACATTTGCATAAAGGCCCCCATCGTATGACTCTGATGTCGCGAACGAGTCCGACGACGACGATGTCATCACTGGCATCCCATGAGCATCGCCCATGGCAGTGGTACTATTATACCCATGGTGATCACCGAGCTGGCTTGCATCGGCGAGGCGAGGCATCCATAGATATCTCATAGCATCCTTGAACCTAGCACTGTTGGCATCGCAGTTCAGCTGCTTGGCATGCTTTTGCACTCGGGTCCTCCAGTAGTTCTTGATCTCGTTGTCGGTCCTCCCTGGCAAATGCTGCGCTATCTTTGACCACCGGTTGCCCCATCGGGAGTGGAGGTCGAGGATGAGCAGCTGCTCGTCGGCGGTGAAGTTGCCGCGCTTCACGTCGGGCCGGAGGTAGTTCAGCCACCGCAGCCTGCAGCTCTTCCCCGTCCTCTTCAACCCGGCGGCGCGGGCGAGGGAGTTCCAGCGTCCCTCGCCGTGGTCGGCGATGTAGTTGACGAGGGTGAGGTCCTCGTCGACGGTCCACGGCCCTCGCCGGAGCTCCAGCTGCAGGTCCGCTGCCGCCGCGGAGGCCTCCTCCTCGGCGGCGGCCTCATCCTGTAGTACCGCCGCTGGCCGCCGCATCATCGTCATCAGCTGATCGGCCGCCGCCTGGTCGTCGACGTCGAGCTGCGCCGCCGTGCTCCTGCTCCTCTGCGATGCTGCCATGGCCGGCGCAACTCAGCTCAGCTCTCAGCTAGGTCGTGTGTTGCAGGAGGAGAGAGAAAGCAGCAAAAGTAGCTAGATGGCTCTAGCTTGGCTTAGCTTAGCTGAGAAGTTGTAGAGAGAGAGAGAGAGAGAAGAGAGATGGATTGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.834091
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0134700.1 12 23135458 G T
Osa12LNT0134700.1 12 23135065 T C
Osa12LNT0134700.1 12 23135254 G A
Osa12LNT0134700.1 12 23136000 T C
Osa12LNT0134700.1 12 23136234 C T
Osa12LNT0134700.1 12 23136328 T A
Osa12LNT0134700.1 12 23136444 C T
Osa12LNT0134700.1 12 23136571 A G
Osa12LNT0134700.1 12 23136583 A G
Osa12LNT0134700.1 12 23136619 T C
Osa12LNT0134700.1 12 23136839 A C
Osa12LNT0134700.1 12 23137280 A G
Osa12LNT0134700.1 12 23136324 C 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
Osa12LNT0134700.1 osa-miR5819 Cleavage 4.5 24.327 1 21
Osa12LNT0134700.1 osa-miR156c-3p Cleavage 3.5 2.718 1 22
Osa12LNT0134700.1 osa-miR156f-3p Cleavage 4.0 2.718 1 22
Osa12LNT0134700.1 osa-miR156g-3p Cleavage 3.5 2.718 1 22
Osa12LNT0134700.1 osa-miR156h-3p Cleavage 4.0 2.718 1 22
Osa12LNT0134700.1 osa-miR156l-3p Cleavage 4.0 2.718 1 22
Osa12LNT0134700.1 osa-miR319a-3p Translation 5.0 18.059 1 21
Osa12LNT0134700.1 osa-miR414 Translation 3.5 18.388 1 21
Osa12LNT0134700.1 osa-miR535-5p Cleavage 4.0 14.684 1 21
Osa12LNT0134700.1 osa-miR1866-5p Translation 4.5 11.346 1 24
Osa12LNT0134700.1 osa-miR1879 Cleavage 4.0 14.723 1 24
Osa12LNT0134700.1 osa-miR1866-5p Cleavage 5.0 10.144 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0134700.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0134700.1 12 nan Morphological trait Seed RG543 RG81
Osa12LNT0134700.1 12 Bph18(t) Resistance or Tolerance Insect resistance RM463 S15552
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