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

>Osa08LNT0406900.2

GGAAGATGAATATTTCAACTGCAGTAATATCTTTAATGGTAGTCGCATTATAGGTCAACAAGTACATAACATTCTGATAGGGAGAGAAATGGATTACTCAGCATTCGTATACAATTAACTCTGCAACAACCACTTAATAGGCCGTGATCCAAGGGCTAAATCCATAAAAAGAAGAAAAGGTAAAAGAAAATGAAAACAAAAAACCACTGAGCTAGCTATGATACCTGAATCATGGGATAACAAATCACCAGTTCATCTTAACTACCAGCTTTGAAAACTCAAAACTGATGCCACAGGCAACTAAGCTTGGAGACCATATTCACTGTCCGCACTCCGCAGGATCAGTACTTGCCGTGGCAATAAAGAATTAGGCAAGACAGCCTCTTTACTCGATCTTGACAGAAGAGTACATCAGCCTAGTGAACAGGAAGCATGCGTAGAATCCGATCGTACCAGTCAAGGCAAAGAAGGCATATGAGGCGGTAAGCATGTAACCGAAGTACAGAACAGCTGACACAAACTTTGTGATCTCCAGCTTTGTGAAGAAGTAGAAGGTTGCATACAAGAACAGGTAGATAGCAGAAGACCCTGATGTCAAGTATGACCTCCACCACCACAGATAGTCCTCGCTGCACAGCTGGAAGTAGCAGAGCACGATCGAGATCTCAGCACAAGTTATGACCAGGATCAGAACCCAAAGATGTAGTAGAACTGGTGCAGCCAGATGGAGGTCAGGATAAAGAGCTCAATGAATACAGCACCAAATGGAAGGATTCCTCCAATTAGAATTGAGAAGATCGGGTTCATGTACCAGGCCTGCTCAGGAATCTGCCTGGGTATCTTGTTTGTTTTCACGGGATCCTCAATTGCAGGCTTCTTGAAGCCAAGGAAACTCCCAACAAATACTAGGGGCACTGAGATACCGAACCAAAGGAGGACAAGGGCAAACATTGTGGTGAATGGAACTGCGCCTGAGGACTTCTGCCCCCAAATAAGAGAATTCAGGAAGAAGAAAATAGCAAATACACTGCCAGGGAAAGTGAAGGCTGTCCTCAATGCAATGTTCTTCCATTCTGCGCCCTTGAACAACTTGTAAAGACTTGAAGAAGAGTAGCCAGCGAGCAACCCCATGAATACCCAAAGCAAGAGCATCGCTGTCATCAGTCCACCCCTGTTTGATGGAGAAAGGAATCCAAGGACTGCAAAGACCATGGTGACAAGCAGCATGCCAATAAACTGGACTCCTGTACCGACATAAACACAGAGCTAGTCAGAGTTGGATGGAGGCCTGAAAACATCACCATGGACAAGCTTCCATCCTGTTTCTTCCTGGGCTTCTTCCTGAGTCCCAAGCTGGTTATACTTGGAGATATCCCGGTAAAGGGTTCGGAGCATGATCATTGCAACCATTCCAGAAAGGAAGAGGATAATCATGAGGGAATTCACAATGGAAAACCAGTGGATTTGGTCATCCGTCATCAGTAGATAGGTATCCCAGCCAGCGAGATGCCCACTTGATATCACTCTCCTTGAAATCCACATCATAAGTAAATATTATGTCTTTGCCAACTTCAACCTCCTGGGGAGAATCAGATGATGTAATTATATGTTTTGCATGAGGATCACAAGTGGTCAGGCGGGTCTTCTTGTCATTCCACTGTCCTTCGTATTCATGTTTAACGCCTTGCATATTGTCCTTTGGCTCCAACATGGAAGACATGCTGATAGAAATATGCACCTTCTTGGTCCATTCTTTTAATTGGAACAACTAGAGGTAAGTTGTCAAGAATCATGTTGAGAAAATGAATGTTTAGAATATTTGGCAGCCATGAATAAGCTCTTAGAATCAAGAAACCAAGTTACACTAGCTTGCATGTTCACACGGTACTCATCTTCAATCTTTTCCTTGAGAATCTTTGCTTCTTTCTCCCCGACAGAAATCTTGCAGACTATTTGACAGCATTTGAGGCTCTCTCATTTCAAACGTGTATGGAGAGTTCTCGATTCGATCACCACGAAGAACTTCACCGAGATTTTGAGCACTGTCGACATAAGAGTAGGGAAGCTGGGTCTTGATTGATGTCAATTTGTTGACTTTCACTTGAAGAGGATCTTTCTTGTCGAAGTTGTTGGGCGCGACGCCTGGGAGGTAGAACCCGGCGGCCAGCCCCGCGAGGCAGAGCGCCGCGAGGGCGATGGCCAGCGCCATCGCCGCCACCGGCGAGATCGCCATGGCGGTAGAGAGGAGGGCGTAGGCACGCGCACGCTCGCTCGCTCGCTCGGGGAGGGAGGCGACGCGAGGTGTGTGTGTGAGAGAGAGAATGGCGAGACGAGATT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.805592
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0406900.2 8 10621946 C A
Osa08LNT0406900.2 8 10622940 A C
Osa08LNT0406900.2 8 10623054 C G
Osa08LNT0406900.2 8 10623417 A G
Osa08LNT0406900.2 8 10623488 T C
Osa08LNT0406900.2 8 10623851 A G
Osa08LNT0406900.2 8 10625041 T C
Osa08LNT0406900.2 8 10625076 A G
Osa08LNT0406900.2 8 10625092 T C
Osa08LNT0406900.2 8 10625101 C T
Osa08LNT0406900.2 8 10625209 A C
Osa08LNT0406900.2 8 10625273 A G
Osa08LNT0406900.2 8 10622798 A G
Osa08LNT0406900.2 8 10622018 G A
Osa08LNT0406900.2 8 10624034 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0406900.2 osa-miR171c-5p Translation 3.5 11.44 1 21
Osa08LNT0406900.2 osa-miR390-3p Cleavage 5.0 16.667 1 20
Osa08LNT0406900.2 osa-miR1862d Translation 4.5 13.395 1 24
Osa08LNT0406900.2 osa-miR2098-5p Cleavage 4.5 24.049 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0406900.2 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0406900.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0406900.2 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0406900.2 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0406900.2 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0406900.2 8 nan Resistance or Tolerance Drought tolerance RM72 RM331
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