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

>Osa02LNT0188000.1

GCTGTTATTAGCTCTAGGTCAAAAGAGTAATTCACAACAATTGAGACATGAAGTGCTGGCCACTTGTTCTGAACGGTTGAGATACAAATAAAAGTAATAAACCACATAAACAGAAAGAAAAAAAAAACATATTTTGTCTAATGGCCGCCGGTAGGAAGAATGCAGAACGAGAATATTTCATCTGAAGGTCCCATATATAGAGGCTACTATTATGGCGATGCAGTGCAGGAAGAAGGCCGACAGATGCGCAGAGTGAAGGAAAAACCAGAAAGAATAAAGCCAAGGGGTGGAGTCGGTGGAACCGCTTAAAAGGTAGTCTCTGCCTCTTGCGGAAGCCAACCCAGCAAATTCCTTTTGTCGCTGAATTACAGGCTGCAGATGAATGCGATGTTTTAACCCAACGACTGACATGAAGATTTATTTTGCTGTATCAATCTCTTGATGCATGGTTCTATTAAAAAAATGGTCTATTTACTTGCACGAGCTGCACTAATCACTAGTTAGTATTGCTCAAAATGTTATCAATTTTATGAGAGGAAATATGTTACTAATTTGTGACGATGCAGCATCTTCAACGAAGAGTGCCAACCACAACGAGGCATCATAGGCAGGAAACAATGGAAGATTCTCTTTTGCTTGCAACTTCACATGAAGCAGGCAACACGCTCGAGGAATGAAGAGTGCAGAACAAAACCATGCAGACAGAGCCGGTAGTTGGCTGAGTCGCTTAAGCAGAATGATCCCTCTTAATTGAAGTCAATCAGTTGATGCCAGTCTTAAAGCATTCATGGCATGCAAGCCAAAGAGCAGACGGTCAAGCACAGGCATCAGGGTCTAGCTCCTGCTACGGCGGTACCTGCCACCATCTCTTCCATCAGCATAAGGAGAACCACCTCGGCCACGTGGTGACCTGCTGTAGCTGCGCCCACGAACTGGTGAAACACTGCGGCGCCTTGGAGAGCGATCACGAGGACTGTAGCTTCTTCTACCATAGGTCGGGCTCTTGCGGTATTGAGGGCTGCGACTGCGGCTGCGACTCCTGCTACGACGCTTTCCACTACCCAGACCTCCAGGACCAATACGCAAACGACATTCACGAGCAAAGTGCCCAGTTTCACCACACTCATAGCACTTCATCTCAGACCCACCATGTCGATCACGACCTCCGCGGCTACTTGAGTTCCGTGAGAGCTCAACTCTCCATCCATTCTTGCCATCTAAATCACGGAGTGCATCCTCAGCATCCCTCTTGTCATCAAAATCGATAAATGCAAAACCAGGTGGTTTACGGGCAACCCAGACACTTCGCAGAACTCCAAACACACGAAACTCATCTTCAAGTTCCCCGGAAGTCACTCGGGGATCCAAGTTGCCAACATACAAGCGGGCCATCGTGAACAAATCCCTGCGCGGGAAGGGTGCGAGCGACGATGGCGTGTGGACTTGGCACCGGCAAGTCCCCGCCGCGGCGGCCGCGGCGGTGGCGGTGGCGGCGGCGCTCTAGGGGCGAGGAGACCTCCGCTCCCGAGCGATACGAGGGGGAGGAGAGT

Coding Potentia
Explanation CPC Score
noncoding -1.04036
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0188000.1 2 33542464 A C
Osa02LNT0188000.1 2 33542974 C T
Osa02LNT0188000.1 2 33544916 T C
Osa02LNT0188000.1 2 33545582 G T
Osa02LNT0188000.1 2 33545769 T A
Osa02LNT0188000.1 2 33546318 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
Osa02LNT0188000.1 osa-miR5822 Translation 4.0 18.539 1 21
Osa02LNT0188000.1 osa-miR160f-3p Cleavage 4.0 14.321 1 21
Osa02LNT0188000.1 osa-miR1431 Translation 5.0 22.803 1 21
Osa02LNT0188000.1 osa-miR2097-3p Cleavage 3.5 20.749 1 22
Osa02LNT0188000.1 osa-miR395x Cleavage 4.0 16.201 1 21
Osa02LNT0188000.1 osa-miR5144-5p Cleavage 4.0 18.416 1 21
Osa02LNT0188000.1 osa-miR5156 Translation 5.0 23.24 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0188000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188000.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0188000.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0188000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0188000.1 2 nan Morphological trait Seed C747 C1445
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