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

>Osa02LNT0142800.2

CAATCTTAATTTAATTTCTCTCTTCATCATCATCTCGCTCTCGATCTCCTACAGAAGCTACAATAGCCAGCAAATCAATCGATCGATCGATACGTGCAATGGCGGCCATGAAGGTGAACAAGATTGCCGTGGCGGCGCTGTTCCTCGTCGCCGTGGTGGTGGCGGGCGGCGCCGGCGCTAGCGCCCACGTCGGGGTTGGGGCTGGGGCCGGGGCCGACGCCGGCGTCGGTGCCGCCGTCGGGGCCGGCGCTGACGCCGCCCTCGGGGTTGGCGCCAACGCCGCCGGCGCCGCCGGGGCTGGAGTTGGGGCTGGAATTGGAGCCGCCGCCAACGTCGCCGGGTCTCTCACCGGCGCCGCCGAGGGCGCCGCCGGCGTGGCACCCAAGGTGCATGTGTGAGATCGATCGATCGATCGAGCGCGCCGCGGCTTCCATCTCCACGACTCCATCCGCCCGCAGCGGCTCCGGCGATCCATATTTTTATAAATTCGCAGTCGATTGTTTGTTGTTAATCAAAGTTTGGTTAATTTATCCGTCGAGTGTTTGGTTGTTTATTTCATATGCAAACCTCGCGATTTGTGATAAATAATTACCGAAATGTATGTGTGTGTGGGGTGCTAATTCATCCTTCACTCCATTAATTTGTTATAAATATATATCCTTGTACTAGTGTAAATGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0827447
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0142800.2 2 1420651 G A
Osa02LNT0142800.2 2 1420573 A C
Osa02LNT0142800.2 2 1420811 A G
Osa02LNT0142800.2 2 1422091 A C
Osa02LNT0142800.2 2 1422465 T C
Osa02LNT0142800.2 2 1422728 G A
Osa02LNT0142800.2 2 1422736 T C
Osa02LNT0142800.2 2 1423058 T C
Osa02LNT0142800.2 2 1423208 T A
Osa02LNT0142800.2 2 1423231 G C
Osa02LNT0142800.2 2 1423376 G A
Osa02LNT0142800.2 2 1424159 G A
Osa02LNT0142800.2 2 1424362 A G
Osa02LNT0142800.2 2 1423049 T C
Osa02LNT0142800.2 2 1424413 A G
Osa02LNT0142800.2 2 1424591 A G
Osa02LNT0142800.2 2 1425010 A C
Osa02LNT0142800.2 2 1425792 T A
Osa02LNT0142800.2 2 1426000 A G
Osa02LNT0142800.2 2 1426552 T C
Osa02LNT0142800.2 2 1426560 C T
Osa02LNT0142800.2 2 1426954 T C
Osa02LNT0142800.2 2 1427120 T C
Osa02LNT0142800.2 2 1427894 C T
Osa02LNT0142800.2 2 1422688 A G
Osa02LNT0142800.2 2 1422945 C T
Osa02LNT0142800.2 2 1425519 A G
Osa02LNT0142800.2 2 1421878 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa02LNT0142800.2 DTM_#DNAt_MULE_japo_Os0086 Chr2 + 1425202 1425630 428
Osa02LNT0142800.2 DTM_#DNAt_MULE_japo_Os0086 Chr2 + 1421522 1421950 428
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0142800.2 osa-miR531c Cleavage 5.0 12.416 1 24
Osa02LNT0142800.2 osa-miR531a Cleavage 5.0 12.416 1 24
Osa02LNT0142800.2 osa-miR1423-5p Translation 5.0 16.842 1 24
Osa02LNT0142800.2 osa-miR531b Cleavage 5.0 12.416 1 20
Osa02LNT0142800.2 osa-miR1850.2 Cleavage 4.0 17.71 1 21
Osa02LNT0142800.2 osa-miR5513 Cleavage 4.5 13.632 1 21
Osa02LNT0142800.2 osa-miR5081 Cleavage 4.0 11.034 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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