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

>Osa02LNT0188300.1

AACATGTAAACACTTGCATTTAAATAGAATACATTACAAGCATCTCGCATACACTTGCAGCCTAGAAACAAATAGGTACAGCAAACAGAACCCCTTCATCTACACACAAGCCATAAAATAAAATAAGATAAATTGAATTTTACACAAGATAAAGACATCTGGGAATACTCTTAAACTGGTATCCGAAGATGTGTAGAACTTGGAACCTTGATAATATTACTTAATCTAAGCCTATAAGGTATCAGGTGGTGGTGCTTCTCCCTCCTCATCAAAGGCTTCATTTTCATCGAGCATGTTCATCAGCATAGATACCTGCTCATGAAGCATGGAATTTTCCTTCTCTATCTCCGTTCGCTTCTTACGCTCATCTGCGAGCTGCTTTTGTAGAAGCTCAAGCACTCGGGAGTCTTCTTCCAACTGTTCATTCAGGCCATTGATCTCACGGTCCTGCCACAGCATTTCCATGAATATAGGAGTCAATGTATGCTTCAGTGAGCAACAAATAGAATCGCATATAATTCAACTTTGGGTTTAACTAGACCAACACACGTCGTAAATTGAGGATAAAGTTAGTTTTTTCAAGCCTTGATCATCGATAAAAAAAAAGGAAAAAAGTATACCAAATGCATCACGATATTGTGCTAGTATGTGGTATTGTGGTACGGTAGCAAACTATTAAAAAGATCATGAACCTTTCTGTTCATTTCTTGGATTGCTATCCTCCTCATGCTCTCCACCACATCAACATTCACAAGCTTGCGTTTCTTGCCAACCAGCCATCCCTTGGGATATGACGCGGGCTCAAAGTCTGGTGGTGGGAGCAACATTTCAGCAGAACTGCGCTTGCCGTTGATTGGTTCCAAAGGCTCAAACAGCGCCTTCCTCTTCTCAGATAAGTTAGCTTTTGGATCTGGATGAACATCGTCGTCAGTACTTACTGCATTTGCATCATCTATTTTCATGGCCTCTTCATGAGCCTGATTGTTCAGTTGTTCATCAGCAGCCTCTTTGTTAAGTTCTTGTTGCAAGCTCCGGCCATTGGCTGAGGCTGATCTCCTCCTCGACTTCCAGAAAATCCGCGGGGGATCAGCCGAGGCCGGCTCCTCCATGGCTTGCTCTTGCTCCTCCTCCTCCTTCACTCTTCTTCTTCTTCTTGATTGCGAAGCTACCTGGACCCGTTCTATCTGCTTGCAACCTGAGCTCTATCTCTCTCTCTCTCTGTCCCTCTCTCTATCAATCTATGGGTGCGTGCCTTGTGAGTTGCGTTATCTTGTGGTTCTTGGCTGAGGAGGGTTGCTACTTGCTAGGACGGCGAGAAGAGAGAGGAGAGGTGGGTCACCGGGTCGCCTTCGCCTTGGAAGCAACTCCCGTTTGTTTCTTGACCGTCTCGCGTGCCTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.95997
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0188300.1 2 33735435 G A
Osa02LNT0188300.1 2 33735949 A G
Osa02LNT0188300.1 2 33736632 G A
Osa02LNT0188300.1 2 33736807 A G
Osa02LNT0188300.1 2 33736914 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
Osa02LNT0188300.1 osa-miR1857-3p Translation 5.0 15.193 1 21
Osa02LNT0188300.1 osa-miR1858a Cleavage 4.0 11.749 1 21
Osa02LNT0188300.1 osa-miR1858a Translation 5.0 10.413 1 21
Osa02LNT0188300.1 osa-miR1858a Translation 5.0 15.066 1 21
Osa02LNT0188300.1 osa-miR1858b Cleavage 4.0 11.749 1 21
Osa02LNT0188300.1 osa-miR1858b Translation 5.0 10.413 1 21
Osa02LNT0188300.1 osa-miR1858b Translation 5.0 15.066 1 21
Osa02LNT0188300.1 osa-miR1860-5p Cleavage 4.5 15.419 1 21
Osa02LNT0188300.1 osa-miR1860-3p Cleavage 4.0 16.262 1 22
Osa02LNT0188300.1 osa-miR1861b Translation 5.0 14.762 1 22
Osa02LNT0188300.1 osa-miR1861c Cleavage 3.5 14.762 1 22
Osa02LNT0188300.1 osa-miR1861e Cleavage 4.5 14.762 1 22
Osa02LNT0188300.1 osa-miR1861f Translation 5.0 14.762 1 22
Osa02LNT0188300.1 osa-miR1861i Translation 5.0 14.762 1 22
Osa02LNT0188300.1 osa-miR1861k Cleavage 4.5 14.762 1 22
Osa02LNT0188300.1 osa-miR1861l Translation 5.0 14.762 1 22
Osa02LNT0188300.1 osa-miR1861m Cleavage 4.5 14.762 1 22
Osa02LNT0188300.1 osa-miR1861n Cleavage 5.0 14.762 1 22
Osa02LNT0188300.1 osa-miR2091-3p Translation 3.5 18.115 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0188300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188300.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0188300.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0188300.1 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0188300.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0188300.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188300.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0188300.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188300.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188300.1 2 qCHR-2 Others Others RM263 RG520
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