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

>Osa11LNT0098000.1

TTCCGATAGAACGGAAGAGAGCGAAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGGTGATTTCATCGGGGAAAGAGGAGGCGATCTCGCCGCGCCGTCGAGCTGGGGATTTCTCCGCGCCGTCGCGGCGGCGCCGAAGCGACGAGTAGGCGGTTCACTGGTGAGGAGGTCTTCATCGACGGAGATGTTGCATTTGCTAGATTTGTGGTTTTGTTTTTGTGTTTGAAGCGCCGATCTGGTGATTTCTTCTAAGGTTGATGTGATGGAAAAAGTTGGAAATTTGGAGGAAAAGTTTGGAACTAAACGCAGCCGAGCCAGGAGTTCAATCTGGTTACTGCAGTTAGAATCAAATGAAGCAATCCAGTGAACAAAGAGGAGCTAGCTCAATGTCAGGAGGAGCTTGGCTGTTTGAAACAATCGGGGGATGCAAGGGGTGGATTCATAAGGTCGAGTTGTTTCAAATCTGTTGACAAAAAAATGCCGCACAAAATCGTTAGGTGAAATTGATGTTCTGATTAATTTTCAAGTTCCCATATCAGTTAGTTTTGAATTGGAGAAATTCAGAAATTTAAAGTTACTTCATGTTTGATATCTGAATTATCACTGCAGTACTCTAGCTCTGAATCTTGAAGCTGTCATGTTGTCTAAAATTTAACAAATTTTAAAATTGTCATGGTGTTCTGACACTTGAATTATCACTGCAGTATTCTATTTATTAGACTTGAAGTTGTATAATTGTAAAATTCAACCTATTTTTCTGCATTACTGAATCTGAATTTATTTTTTTTGCCTTCAGTTACATGGTTGTAACATTGTAATTACAGTATTTTTCTACGTAAATATAGTACAAATGAACTATAATTTTTTGTGTATACTAGGATGAAAGTAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.468363
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0098000.1 11 14321526 T G
Osa11LNT0098000.1 11 14322642 G A
Osa11LNT0098000.1 11 14322941 G A
Osa11LNT0098000.1 11 14323066 A G
Osa11LNT0098000.1 11 14323032 A 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
Osa11LNT0098000.1 osa-miR5827 Translation 4.0 10.315 1 21
Osa11LNT0098000.1 osa-miR156b-3p Cleavage 4.5 9.064 1 21
Osa11LNT0098000.1 osa-miR167e-3p Translation 4.5 10.587 1 21
Osa11LNT0098000.1 osa-miR167i-3p Translation 4.5 10.587 1 21
Osa11LNT0098000.1 osa-miR1428a-3p Cleavage 4.5 19.559 1 21
Osa11LNT0098000.1 osa-miR1852 Cleavage 4.5 7.628 1 21
Osa11LNT0098000.1 osa-miR1428b Translation 5.0 19.559 1 21
Osa11LNT0098000.1 osa-miR1428c Translation 5.0 19.559 1 21
Osa11LNT0098000.1 osa-miR1428d Translation 5.0 19.559 1 21
Osa11LNT0098000.1 osa-miR1428e-3p Translation 5.0 19.559 1 21
Osa11LNT0098000.1 osa-miR2096-3p Cleavage 4.5 19.689 1 21
Osa11LNT0098000.1 osa-miR2927 Cleavage 4.5 22.558 1 23
Osa11LNT0098000.1 osa-miR5506 Cleavage 4.0 15.716 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0098000.1 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0098000.1 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0098000.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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