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

>Osa08LNT0407200.2

CAGCCGACCACACCGTCTCCTCGCGTTTTCTCTCACGAGAGGAGGAATCAGCGAAGAAAGCGCCGCCGCTTCACCCGCGTCGCCTCCTCCGCCGCCATCCTTTTTCCTCCCTCTAACTCCCTAATTCTGCCGAGCTTCTTCACCGCAACCACCGTTCGTCGTCCAAGTTTCACCGGCTGTTGGATCCAGCGCCTCACAGCTGAGGAGGTACGCGTGCTCTCCCTCCTGGTTTGGACCATCCGCCGCCCTTTTTCCCTTCCCCTCCCCTGTAGTCATGTCCTTGCGCTGGCATGGATTTGGGCCTTGCCAGCACTCCGACCTCTTCAGCATCTCCGCCTCGACCGTGGGCTAGGTGTCATCGCAAGCTGCCGACGCTAGTTCATCTCCGCCTGACGATCTCGACCTTCTAGTCGTCTATGGTTCTGATCGATTCCGCTGGCCACCGGTGCTTCCTCCACATCTAGCAGACCATGACCCATCAACTCTTGGACTGATCCCATATCGGTTTGCCATTTATAATAGTAGTTGACATCAACAACTCGATGCATTGTGGCAAACATGAGCAATTGTTTCTTTCGGATGAAAATGTGTTGTGGTACCTTTATACAGATCTGCACAACAAGGTAATTATCTGCATTCCACTGTATGGAATAGTACACTTTCCCAGTTTTTATTTGCAGGTGCAATAGATGGATCTAGACTTCATACTATATTTTGATGCATGAGACAATTGCTTATGTTCTATCCATGCCCTGCTTATGTTCTTCTTTCAGCAAAACAGGGGAGGTTTGTGCTTTTCTTTTCCAGCCTCAAAATTCTGGAATGAAGGATATTCAGATAGATCGTTTGTGTAAAAATAAACTAGATGGCTTTTATTGTTTTGGTGCAAACCTGTCGGCAATCGTTTCTAGATCAAGCTGTATAATTATGTGTGAATCATGCATATTGTAACAGCTGCAGTAGTTTAAAACTGGGTTTTTGTAGGTCACAACAATCCCAAACCCAAAAAAGGATATATCTGATATCTGATATCTGTCAGAACTTTAATAGACCAAAATAACCATGTTTTCATTTCATGGCATAGTTTACTCATACCTTAGTTTTCTTTCAATATGGTGTTTCAATAACACATTACATCCAGTGCTCAGTCCAGAGGTTCTTTCCATGGTGTTTCAATAAGTTATTACATCAAGTGGTCACCCCAAAGGATCAATGCTTGCATTTCCCATAGGTACTTTTATGCTAGAAAAGTATCAACCTCAGTTGATTTGTATTAATGACCATGATTTATTGAACTTCTTATCAGCGTTCACATCAAGAGTATATGTTATACCTGAATTGATCATGCCTCCATATCTCTAGCTATACTGCGTGGATCTCTTGTGCTTTGCAAATGAAGTTCTACTTCAGTATATTATGGCATGTGACATTCAATTCGTTGAAATCCCTTCTTAGTTCAAACCATTCTAGATAGGTCCTGCCATATGCTCCAATGGGTGTAGTTGGGACAGTTAATATTTCTTTCCCTCTAAAGTAATATTCCTGCTTTGATTTTTTTTTTTGGCCTTGCACTGCATGTTATTGGAATTTTAGAAGATCGATCCTTTTGGATTGAATTTTTTTTGTTTTCACAAATATGATTATGAGGCCTTCATTATAAGTTGACTTCATGCAATGATTTCATTAATCATTTTTTTGTTTTATAGATTCAATGTTTTGTTCCCCTTTTCGTGAGCTGAAAATATTTCTTGAGAATACTTATGAATGCCCATCTAATATGAAATTTTTGGACATAATGTAGGGGATAGCTTTAGCAGCATCCAGTACCAGCTCATGTGCAAAATTGCTATGGATAAACGTTATGATGTGATGTTTTTATCGAGCTAAAGCACTACATTTCTTTGCAATGCAAGTTCTATTGAAGAGATCCGTTTGTACATATGTCAGACCATCTTCTAATTACGGTTTGTAACCACTTAGTTTCCCTAATATAATCCACTGTACGTATGCGCCACTTTTCTGTGGTTGCTATTTTTGCTCAAGTGTACATGATCATACAGATAGCACTCCAAACAAATTGATCAAAACAACTCATATTTGAACTTTGGTGGCATGGTTCGAATGTAATGTT

Coding Potentia
Explanation CPC Score
noncoding -1.21584
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0407200.2 8 11076342 A T
Osa08LNT0407200.2 8 11076609 G 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
Osa08LNT0407200.2 osa-miR5788 Cleavage 4.5 17.787 1 21
Osa08LNT0407200.2 osa-miR5798 Cleavage 5.0 19.451 1 21
Osa08LNT0407200.2 osa-miR5821 Cleavage 5.0 20.563 1 21
Osa08LNT0407200.2 osa-miR5829 Translation 3.5 21.408 1 24
Osa08LNT0407200.2 osa-miR156a Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156b-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156c-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156d Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156e Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156f-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156g-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156h-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156i Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR156j-5p Cleavage 4.0 20.058 1 20
Osa08LNT0407200.2 osa-miR164a Translation 4.5 17.374 1 21
Osa08LNT0407200.2 osa-miR164b Translation 4.5 17.374 1 21
Osa08LNT0407200.2 osa-miR166c-5p Translation 4.5 16.378 1 20
Osa08LNT0407200.2 osa-miR395f Translation 5.0 13.764 1 21
Osa08LNT0407200.2 osa-miR164d Translation 4.5 17.374 1 21
Osa08LNT0407200.2 osa-miR166h-5p Cleavage 4.0 16.378 1 21
Osa08LNT0407200.2 osa-miR166i-5p Cleavage 4.5 21.546 1 21
Osa08LNT0407200.2 osa-miR166i-5p Translation 5.0 15.542 1 21
Osa08LNT0407200.2 osa-miR164f Translation 4.5 17.374 1 21
Osa08LNT0407200.2 osa-miR418 Translation 4.5 9.24 1 21
Osa08LNT0407200.2 osa-miR390-5p Cleavage 5.0 20.632 1 21
Osa08LNT0407200.2 osa-miR818a Cleavage 5.0 17.68 1 22
Osa08LNT0407200.2 osa-miR818b Cleavage 5.0 17.68 1 22
Osa08LNT0407200.2 osa-miR818c Cleavage 5.0 17.68 1 22
Osa08LNT0407200.2 osa-miR818d Cleavage 5.0 17.68 1 22
Osa08LNT0407200.2 osa-miR818e Cleavage 5.0 17.68 1 22
Osa08LNT0407200.2 osa-miR2105 Translation 3.0 19.176 1 20
Osa08LNT0407200.2 osa-miR2919 Cleavage 4.5 9.336 1 19
Osa08LNT0407200.2 osa-miR2922 Cleavage 4.0 9.927 1 20
Osa08LNT0407200.2 osa-miR5080 Cleavage 4.5 16.195 1 21
Osa08LNT0407200.2 osa-miR5148a Cleavage 5.0 18.087 1 24
Osa08LNT0407200.2 osa-miR5148b Cleavage 5.0 18.087 1 24
Osa08LNT0407200.2 osa-miR5148c Cleavage 5.0 18.087 1 24
Osa08LNT0407200.2 osa-miR5153 Translation 5.0 23.221 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0407200.2 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0407200.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0407200.2 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0407200.2 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0407200.2 8 nan Resistance or Tolerance Drought tolerance RM72 RM331
Osa08LNT0407200.2 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
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