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

>Osa12LNT0133200.2

CTGCATACATCCTATCCTATATATATACAAACAAAACTGGTACCACAAATAAAATTTGTTCTTGTGGTGTGACAAAAAAAGCATTCAAAGAGTTCTACTCCAACACCAAAGAAGCCATCGTGCCAAGAGCAGCTCCGTGAACAACTTCAATTGTATTGGGGATCACAAATTCACAATGCCATTCCAGGCATCTTGATCTCTTGTCTTGGTAGTCAAAGTTTCTGAGTTCCAATCACAGCTATAAATGCAATTTTTAATATTTGACATGGTAGTGCAATTTCACGCGGTGAAACACCACATAATCAGCTTCTGGTCCACGCCCAATATCCACAACACAAAGCACCCCACAGCAGGCCTACCTCGGCGCTGTACAAAGGACGTGGTTCAGTACCTGTAGTATATGGCTATAACTTTCGCAGTGACCTTATCTGAATTCCTGGTAGAGTATTGTCATACCCATCAAGACCCCCATAGCTGCCCAAATAACCACCAGTACCAAAGATCCCAAAGTTAATATGAAATCATGAAGAAACGCCCACTATCTTCAATGGCACCACTCAGCCGCGCTCTCCTCGGTCCACCATCTTGAAAGCTCCTCTCCAGCCAGCCGAACAGCTAACGGGGAGTCCGCTCTCACAGGATCCGACGGCCATGGCCTCCTCATCAGCAGAACCACAGGTCAACCTTCGTCCGCCATCTTGAAACCTTCTCTCCGACCAGCCGGACAGCTACTGGCAAATCTGCGCGAGAGGGGGCGGAGAGATGACGGGATCCATGCGGGAGGGGAAGTGGTCACAAGATCCGACGCTCCCGTAGCTGCCGATGGCTGATCCATGCGAGAGGGGGGCGGAGAGATGACGGGATCAGCGTGGGAGGGGAAGAGGTCGCCGGATCCGCCCCTCCCATAATCGCCGACGGCGGATCCGCGCGAGAGGGGGGGGGGAGGGGGGCGAACAGACGACGGGATCAGCGCGGGAGGGGAAGAGGTTGCTGTATCCGCCCCTCCCATCGCCGCCGACGGTGGATCCGCGCAAGAGGGGGTGAACAAGCGATGGGATATGTGAGGGAGGAGAAGAGGTCACCGGATCCGCCCCTCCCATCGCCGCCGACGGCGGATCCGCGCGAGAGGGGAGCGAACAGACGATGGGATATGTGAGGGAGGGGAAGAGGTCGCTGGATCCGCCCCTCCCGTCGCCGCCGATGCCGCCATCACCAAAACAGCCACCACCGATCATTTCGCTGGAGAGCCGCAGGATGCCCAAATCCAAGTCCTATGAGGAGGAAAGCCATGGGGATCCAGTGAGTGAGAGGGCAGGAGGGAGGAGGGACTGAGGGAGAGAGTTGTTTGGTCTGGGTGAGTGGGAGGGGAGGAGGGAGAGTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0268552
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0133200.2 12 21525801 A C
Osa12LNT0133200.2 12 21525986 A G
Osa12LNT0133200.2 12 21526397 T C
Osa12LNT0133200.2 12 21526764 G A
Osa12LNT0133200.2 12 21526962 T G
Osa12LNT0133200.2 12 21527106 T C
Osa12LNT0133200.2 12 21527186 C G
Osa12LNT0133200.2 12 21527300 T C
Osa12LNT0133200.2 12 21527306 C T
Osa12LNT0133200.2 12 21527335 A G
Osa12LNT0133200.2 12 21527456 T C
Osa12LNT0133200.2 12 21527687 G C
Osa12LNT0133200.2 12 21527791 A G
Osa12LNT0133200.2 12 21527539 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
Osa12LNT0133200.2 osa-miR5788 Translation 5.0 8.855 1 21
Osa12LNT0133200.2 osa-miR1851 Cleavage 3.0 18.747 1 21
Osa12LNT0133200.2 osa-miR1846a-5p Cleavage 3.0 20.824 1 21
Osa12LNT0133200.2 osa-miR1846b-5p Cleavage 3.0 20.824 1 21
Osa12LNT0133200.2 osa-miR1846c-5p Cleavage 3.0 20.824 1 21
Osa12LNT0133200.2 osa-miR2867-3p Translation 5.0 20.11 1 20
Osa12LNT0133200.2 osa-miR2930 Cleavage 5.0 23.295 1 22
Osa12LNT0133200.2 osa-miR2930 Cleavage 5.0 23.702 1 22
Osa12LNT0133200.2 osa-miR2930 Cleavage 4.5 20.352 1 22
Osa12LNT0133200.2 osa-miR2930 Cleavage 5.0 23.791 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0133200.2 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0133200.2 12 nan Morphological trait Seed RG543 RG81
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