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

>Osa09LNT0440900.2

GATCCAATGTGCCAAAAACTTATATATGGTAGTAAAGGAGCTGAATACATGAATCACGTGTGCAACATATTTAGCTAGTGCTATTTATAGTTCCTCCAATAGTTGAAAACTCAAATTAAACTCAAGAGGACATTATGAAACATGGAAACCTTATGAGATGGAAAGCACACACTCAAAATTGCAAGTACTATTCACTAAAAAAAGATATGGATATACTATTTAATGCAAAGGCCATCTATGAAACTTTGGAAGAACGATGCATCACAGGTATTGTTTACAACAGTTGAGCTGTAGTAGACCACAGATATAGATCTTCAGTATATACTTGCCATCTGTACCTTCTTTTTTTCTTTGATCTATGCACATGGACAACTAATCCGATGGCATGATCTTCATGGTAACGGCCTGCCCACGTGGATGCCGCATCCGGACCTGAAACGCTGGCAAAGCACACAATATCCTAAATGATCCATCATCAGCACCTTTCATTACTGCTGCAGTCTAACCTAATGAAATATTGTTGTTAGATGGTTCTCCCAGTCATTCAAGTAGGCACCTCCCAAGAAGCTTATGGGAGCTTTCCTGCCATAAAATCCTGCAAAATAAATCAAACAAAATGAAAGTTTAGTGAATAGTCAAGTTCTGTCTTATTTGGCCAAAGGCTTCACTTCTCGATTTGCAGTCTTCAAATCATAGTCATACATGGGCTAAACCGAATCTATATTGCGTGGGTAAGAGAAAATTTAAGGCTATAAAATTCTTGATATGAATATATCATATATGGCAGAAAAAATGACTCGGTTAATCACATGTAATATATAGCAATGCCTGAATTTTGGTTCCTCAAATGACAGAGAGTTGTAGTTCAGAAATTTAGGGTAATATTAACATGCAGCAGTGCAATTAGTTCTAGAAATACTTCACCTGAAGGCCATGAACACATCTATTACTGAAGAACTCAGCTCCATCTACCAAAGCAAGCATCACACCAAGCTTACCATTTGCTTTTAGAGTCCATGACATGGATTAGCGATCAACTCTGGTTGACTGGTTCACATTGAGATGTCAGAATACCATCACCATCCATGTTTGCTCACTCATCTGTCAATAGCAAGAGGCCTGCAACCTTTGTGAAATATCAACCAATACCAAAACGGTACAACATTACCACCGGTTTTTTTGATCAGCAATTCAGCACCATAACACCAGGCATAATCGAGCCTTTCTCATGTGCATCTTTAATTAACCATTTATGTTCTGATCAAGGAGCATGAGCAACTTGGTGATCAAGAAGCATGAGCAGCTTACTGCCCACCAACTTTCTTAGCCAAGTGCATTACCGAGACAGGAAAAGAATACTCTTTTTTCTTGTATGCAGGGAGCCAGGGGCATGCAGATGCAGGTGGAAGCATCGCCAGATTTGTGTGTTGTGGTGGCAGGATGATAGTGTTGTCGGTGCATGGAGAAACACTGAAGCATGTCTTCCTCAAGCCAGAGTTCTGCACCATCAGGCTGACCTTCTCGCTACCAACTGTCGCCTCTCACCAAATTTTCAGCTAGCTTGCTGACCTGCGAATGAATCTGCTCCCAATCCCTACACATCACCAATGGAAATAGAGAGCATGATACATTGCTGGAAGCAAGCATTCAACAAATCAAGCTTTTGTACCTGGTCGATAGTGGATGCGTTGTTGGGATCTCGTATATCTTTGAATCAAAATAGATGAATACATATGAAATATGATATAGTATCAAACAATTCAATAGATTAGTACTTAAGAGGTCTCATAGAAGAGAAAAACAATAGCATTCTATCTATCCGCATTCATGTGTATCACTGTAAATAACTGAACATGCATCTCAGATTTTTGTCAGTCAGTAATAAACACCACCACAAAACCTGTAAAGTGCTCAAGAACATGTATTACATCTACACACGCAAAAGTGCATATGCATTCATACTCAATATACACATCATATCATCCCTACCTTCATCAATTTGCACGATAGACCATCACCATTTTCATCGGTCTACCAAGAACACCAAAAAGAACAAAAACTTACAAGTTATAATGCCAGATGGGGTTGGGGAAGATCGGCTTTGGCCTCGGCCTCCTGCACGTCGCTGGTGTATGCTCTCGGAGGAGGCCGTGTCTAACACGTTTCTTCCATCTTGCCCGAGCTACTGCTGCCGTCGATACCGAGCTCAACAGACCCAACGACCCTGGATCACTGTGAAGGAACGGCCGCCGTCGACACTTACAATGAGCCTCAATGACACAGATCGGGTTGCTCCCTCTCCGAATCGGGCCGCCGTCCTTCCGGATCTGGTGATTCCCGGCCTCCTCGATTGCTCGCCCGCGCGGCCGTTGTTGTTGCAGGCCTCCGCCGATCTGCAAAGGAATAGTGGAGATAGAAGGGAGAAGAGAAGGGAGCAGCCACCCGTTGCCTCACGCGATCCGCGCGGCCGTCGTTGTAGCGGTGCCGGACGTAGAAGGAGAAGAGTAGAGAGGGTGATAGCCGGTCTCCCCTCGCCTCCGGGCGGCCGGATCCACCGACAATGAGGCCGGGGTCACCGGATCCGACGGTCCCGGCCTCCTCGTTGGCGGATGCATCGACCGGAGCGAGAGGAGGATGGCGACGACAGTATGATGGTGCGGCGACAGCGGTGGCTCGCGTGAGGAGGCGAGGCGGGCCTGGGCATGGAGAGAGCAGAGCGAGGGAAGGAGAGGAGGTGGTGGGAAGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.356482
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
Osa09LNT0440900.2 osa-miR5541 Translation 5.0 16.692 1 21
Osa09LNT0440900.2 osa-miR5792 Cleavage 3.5 18.241 1 24
Osa09LNT0440900.2 osa-miR5815 Cleavage 4.0 16.651 1 24
Osa09LNT0440900.2 osa-miR439a Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439b Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439c Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439d Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439e Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439f Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439g Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439h Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR439i Translation 5.0 20.705 1 21
Osa09LNT0440900.2 osa-miR443 Translation 3.5 23.607 1 22
Osa09LNT0440900.2 osa-miR529a Cleavage 5.0 22.057 1 20
Osa09LNT0440900.2 osa-miR529a Translation 4.5 16.555 1 20
Osa09LNT0440900.2 osa-miR395v Cleavage 4.0 15.134 1 21
Osa09LNT0440900.2 osa-miR395v Cleavage 4.5 14.272 1 21
Osa09LNT0440900.2 osa-miR1852 Translation 5.0 14.068 1 21
Osa09LNT0440900.2 osa-miR1846e Cleavage 4.5 23.164 1 20
Osa09LNT0440900.2 osa-miR2875 Translation 3.5 10.667 1 24
Osa09LNT0440900.2 osa-miR2920 Cleavage 4.0 16.8 1 23
Osa09LNT0440900.2 osa-miR2931 Cleavage 5.0 10.218 1 20
Osa09LNT0440900.2 osa-miR5083 Cleavage 5.0 15.507 1 20
Osa09LNT0440900.2 osa-miR5491 Cleavage 5.0 23.215 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0440900.2 9 qSB-9 Resistance or Tolerance Sheath blight resistance C472 R2638
Osa09LNT0440900.2 9 nan Morphological trait Panicle/flower RM257 RM566
Osa09LNT0440900.2 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
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