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

>Osa02LNT0188900.2

GGGCGCTGCCTCCAGCGGCAGCGGCGGCCGCTACCTCCGTCATTAGGAGAATGACGATAAAAACAGCATACGCGACCTTCTTTGAGTCCATTGTCTGACTCTTGTTAGTGGCTGGCAGTAAGTACAGTACGTGTGCGCTCGATTTTGATCCCTCCCCTGCCTGCTGGGTGCCCATATAAATACTACTACTCCGATCCACTTCACACAGCGACCAACATTAATTGAACATGCCCCATTAATTAACTAGTAGTACAACTCCACATGCCCGCTAGGAATCAGTATCTTCTGGAGTAGTAGTAGCTAGCTAGCTCCCGTGTAGCATTAACTTTCTGCCTCAGCCATTGCCTATCTCTATTGTCATGAATGCCACGCTGTTCACCACCACTGTCTATGAGTGGCCGGAGTGGTTCATGGTCTTCTGAGTTTTCCCTGATGACCAAGGATGATAGCACCACGTTGAAGACGATAGGATCTTATTTATTCTTTTGCCTTGAATAGCTCCTTTCATTAGAGGCTTAGAGTATTGAAAAAAAAAATCCCAATCTATCAGCTTTCAGGAGATGCGATAGCCCTTGCAACAGGAAGAGGAACATCGATGTACCGTGGCCATTCGCCTTGACCAACACAAGATATTATTTAAGTTCATACCCTTGCAATAGGAAGAGGAACATCGATGTACCGTGGCCATTCACATATTGTCTCATACATCAGCTCAGCCAGATCATGAACAGTATAAATCTCTGGTCCACCAAGTCCGTAGCTCTTTCCCATGCTGGTGCCATCATCCTTGAGGGAGTTGACAATAGCAGCAGCAACATCCACAACATAAACAGGCTGAATCTTTGTAGACCGGGAATCAATTTTTAGCAAACTGTACCCATCTGTTCAAAATCCGATCTTCTGTGCCAATCATAGTTGCAGGCCTCATAATTGTAGCCTCAGGAAATTCCTTCAACACAGATTCTTCCCCAGCAGCCTTGGCCCTCAGCATTCTAGAAGAAGAGGCCGATGCTCCTAGGCAAGAAACCTGGATAAATCTCATGAAACCCCCATGCTCCTTTGAAACCTGACTTCTTTATCAAATCCAAAATGAGCCCCAAAGTAAAATGCCACACAGTATCCATGAATCACTACGGACAGCTATCAGGGACAACCAATCTTTCCAAGAACGTGCAAAGAATAGATTGGAAAATCACAGGTATGCCTGAAGGATCAAGTAACTTTTCATCTCGTTGTTTGCCACAAGATACATCTTGTTCACCAAATGAGTTGCATATAAAATAATTGCATCATTGAATTTTGCTCAGTGGTACGAATTATCGTGAAAGATATTATCTCCAATTGTTCAACAATAAAGGGAACTAAACCGATAGGGGATTATGTAATCCAAATAAACCTGCACTAGGAATAATGGAGATCTAGTGGAACAACGTCCTAGTTAGCCGAGAGGATGGATCCAGCAATTTCTTCATATATAGAAATGACGAGGATTGGGCCTGGCTGCATAGACAGCAGAGGCATATGCCACCAGCCCGTACTGCATCAGTGCCAATTCAGCGAAGAAGAAGGCCATGTGCTCCATCAGCATTCACCAAAAGAAATCTTGAGTACACGCTTAAACTTGTCGCTTAGCAATGAAATATAATCTGGTGGTAAACAGAAACAAACAAAAGCCATGGCTCTTTACCTCCTTGTCACTTTTGTTATCTGCAGACGCAGATAGCATCATAATGAAGACATATGGTGTAGGAATGGTGAGATTCCACTGAAGCTTATTCAGAATCCCCTTCTCCATTGCAAGAATCTGTTCCCTAGTGTATGCACTATCTGATATGAAGATGAAGTCGTTCACCTCTGGGGCCCAAATCTCCTCGTACTTGCAATCTATCAGCATGGCAGAAACGGCGACCAGTTGCAGCTCCCTCCGCTGCACTTGCTGCATCGAGAGAGAGATTTGTGGCGCACTTGTCGCTTGTGTGTAGGCGGTGCCGCCGAGCAGCAATTCCAGAGCTCCACGTCCCAGGACCCAGCCATCCTCGGAGGCCGCAGCGTCTCAAATAGCATTGAGGTAGACCACGAGGAACTTAGACAGCCGGTCGTATTCCTTCTCCCTCTCCGCCACCATCGCCCTCGACTCGCTGTTCGCAGCAGCGGCCTCCCTCGCCGGCTGCTTCTTGGTGCTTGAATCCTTATTTTTCTTAGTTAAGATAATCTTCAAACCCAAAATCATCTAAGGAACCAGTCAGTGCCTCATATCCTAGCATAGATGACGGCAATGCACCAGGGGGCCTTTGGAACTTGGAGAGGATTTGGGCATCAAGATCCTTGCGGATGTTGAAGGCGGATCCGTAGATGGCTTCCGCGCCGAACCTCTTCTTGTCCGCCCAGAACTTGGCCTCCTTGTGGACGCTGGCCTGGAGCGGGTGCGGCGGCGCGAGGTCCCCCTTGACGCTGTCGTTGACGCCGAAGCGGACGACGTCGTGGTTCCCGCCGATCTCCTTCTTCACCACGCCGCCGCTCGCCATCGTCGCCTGCGAAGCTCTCTCTCTCTCTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.974764
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0188900.2 osa-miR5797 Cleavage 3.0 20.314 1 21
Osa02LNT0188900.2 osa-miR5816 Cleavage 4.5 13.204 1 24
Osa02LNT0188900.2 osa-miR6255 Cleavage 5.0 17.369 1 22
Osa02LNT0188900.2 osa-miR169i-3p Cleavage 4.5 23.378 1 22
Osa02LNT0188900.2 osa-miR1850.1 Cleavage 4.5 13.839 1 21
Osa02LNT0188900.2 osa-miR1853-3p Translation 3.5 9.315 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0188900.2 2 nan Morphological trait Seed C747 C1445
Osa02LNT0188900.2 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0188900.2 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188900.2 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0188900.2 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188900.2 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188900.2 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0188900.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188900.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188900.2 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0188900.2 2 Hd7 Physiological trait Flowering R3393 R2511
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