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

>Osa12LNT0113200.1

GCGAAGAAGAAACACAGTGATTAGCATAAAAGGAAGGGCTTTTTCTACAGCAAACTGAATTTACAACATGTTAAAAAACGAGTACACTACACAAACAGGATGTCAGCAAAATACAGACAATTCCGTCCAAACTGCGGTCAAAGCGCCATCTCTGCTTGAAGTTTGGTCAGTTCAGCCAAATCATTGGCTGGTTGAGTAGTCGTAACTCTCGCTGAAGGTTCCATACTTGTCCTCTGAGGTGGTTCAGGCAGATCATTCTCGAGCTCTTCCTCCTCTAGATCTTCCAGCTCTGCTTCTAGCTCATCCTCGTCAAAATCAGCAGAAGCGCCAATTGGTGTTGCAAGGGCCTCCTGTATCTGCCTCATATTCTCTGTGTGTTCATTTGCCTCTTCAATGGCATTTTCAATGTCATCGATACTCACTGACTGGTGAATAGCTTTGACAGCAGATGATCCAGAGCGCAAAGCATCAACAGTATCTGTGGTTGCCTTTGCACTCTCAAGCATTATTATCTGATCATGAACCCGTAATTGGAAGTTTGCTAGCTGCTCAATCTGTGTTTCATACAACTTCTTTTTCTTTAGACATTGAATTGCAGCTCATGAAGCCTATCCAAAGTGGGGAGGGCAGAGGAGGCAGCCTCCTTCTTCTTCTTGCTCTTGGGCTTTGATAGCAGTTTCTTCAGCATCTTCTTGTAACACTCACTTGATCTTCAATCTCGGGTGACGATAGCCTGTGTGGGAATAAAGAGGTGAATGATGAATGTATATAGCCTCTCCAGTAGGATTGAAGATTAAGAGAGGGGAAGGGGAAGCAAAGGGAAAGGTGGTTGGAAGCAGATTCCTTGAGAAAAGTAGGAAGGAAAAGGCAGAGATGGCCAAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.868941
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0113200.1 12 1012343 A C
Osa12LNT0113200.1 12 1012955 C T
Osa12LNT0113200.1 12 1013416 A G
Osa12LNT0113200.1 12 1014462 G 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
Osa12LNT0113200.1 osa-miR530-3p Cleavage 4.5 18.968 1 21
Osa12LNT0113200.1 osa-miR1865-5p Translation 4.0 8.564 1 24
Osa12LNT0113200.1 osa-miR2095-3p Cleavage 4.0 8.564 1 20
Osa12LNT0113200.1 osa-miR2100-3p Cleavage 4.5 18.249 1 22
Osa12LNT0113200.1 osa-miR2118b Translation 5.0 7.01 1 22
Osa12LNT0113200.1 osa-miR2118l Cleavage 4.5 7.01 1 22
Osa12LNT0113200.1 osa-miR2118n Translation 5.0 7.01 1 22
Osa12LNT0113200.1 osa-miR5338 Cleavage 5.0 8.865 1 21
Osa12LNT0113200.1 osa-miR5510 Cleavage 5.0 20.753 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0113200.1 12 gy12 Morphological trait Seed RG869 RG98
Osa12LNT0113200.1 12 nan Physiological trait Eating quality RM20 RM101
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