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

>Osa05LNT0308800.1

TTTCAATAAACTGGTGAAAATTCAAACATCGTGGTTCAAAAGAATTACAGTGGTACAATAAAAAAAGAAGGGCCCTATCATCCAAAAGCTCCAGAACAGTTAAACACAATCTGAAGCACAATTGTTTACTCTTGAAAGAATTTCTAGTGGTCCTAACCCTTGGTGAAAAATGTAGGATGTAAAATCAAGTTGGTCAGCTACATCCTTGGAGAGCCTGACTGCTGTACCGCATCAGCTCGCTCTTGCAAGACTCGTCAATGCTACTGTTGCGACTCAAATCTTTAGTGCTATTGACGCCGTGAACTTGTTGAATAGGTCTATCTATTACAAGAACCATTGTTTCTTTTTCCAATTGCAAGCAGTAGCTTCCGAACGTCTCTAAATCCACTTTCAGCCTGAAGTCCAGATTGAACAACAAATCCAGCTCAAGTCGGTTCATCTCTACTGTGCTGATTCCCCCAACTCTAGCATAGAATGCATTGTTGAAAAACGCATCATCTGTAAATTTGGCAGCAACCACCACAGATGTAATTAGCAAGCGATGAACGCTAAGGGACGTCATGTACACATGTGGCTGCTGTAGATATCTCTCCATGTAGATGAGGGCCAACACAAAGCAAGATGGGCTGCACTCTGAGTACTTGAAGATGCGCTCTGCATAAAGCTTTATACTAAGATCTGGAGCCCTGTGACCATGAAAGATGGTGCTTGAATCCTTTATCTTATTGGAATCTAGTAAGTCTTCATTCTTCTGAACTGATCTATCAAGATAAGCCGCCAGAAGCAACAGAACCTTGGGGTATTCAGTGTTGTTTTTCTTTGACTGTGATACTGTCAAACCCAACGACAGGTAGCTCTCTTCATGTTTGTCGCTTTCATCAGTTGTGAATGTCCCCATACCCATATCCAGACATTAGAAAGCTCGCTCGAGCTTCAGCTTGTGGTAGTCTGTGGGGGAGGATTTGCCTTTGAGGCTTCAGGCTTGCGCTCGGGCCTCTCGCACTCTTCGACTCTTCCTCCTTTTGGGAAGAGCAAGCAAGCTGCTGCTCCTTGGATGCTGAAACCTGGAAGAGCAAAGATGCAGGATGTAACAGAGCGAGAGAGAGAGAGAGAGAGAGAGAGGAGAATTCTTTTCTTTTTATTTTTATCTCCAACATATGGCATAATGGCATGTCATCATCTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.999734
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0308800.1 5 19364052 A G
Osa05LNT0308800.1 5 19364098 G T
Osa05LNT0308800.1 5 19364328 T C
Osa05LNT0308800.1 5 19364896 A G
Osa05LNT0308800.1 5 19365013 C T
Osa05LNT0308800.1 5 19365121 T C
Osa05LNT0308800.1 5 19365563 A G
Osa05LNT0308800.1 5 19365831 G C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0308800.1 osa-miR1857-5p Cleavage 3.5 14.241 1 21
Osa05LNT0308800.1 osa-miR1857-3p Translation 4.5 19.137 1 21
Osa05LNT0308800.1 osa-miR2880 Translation 5.0 19.942 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0308800.1 5 dcs5 Physiological trait Source activity RM440 RM430
Osa05LNT0308800.1 5 dcfs5 Physiological trait Source activity RM440 RM430
Osa05LNT0308800.1 5 nan Morphological trait Seed RG13 RG573
Osa05LNT0308800.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0308800.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0308800.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0308800.1 5 nan Physiological trait Eating quality RM163 RM31
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