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

>Osa06LNT0324300.2

ATCCAACCTTTAGATTACGCAAGAAAGAGGCACCACTCATATTGATGGCATCTAGGACATCCCCAGCTTCAGACTCCCTGCCTGAATGTTCATAGAGATGAAATGCAGCACTCAGGATGAAGCTATCCGGTTTCAGAAGTCGACATGCCGTTTCGAAGAACAAGATGCCATCATCGACGTAACCGTGATCCAGATGCATCCTCATCATCGTCCGACAACATGCCAAGTCAGCAGGTATGCCTGCCTCCTCCATTTGGTTGTACATCCTCTGGGCTTCATCAATCTGACCTTCCTTCAGAAAGGCGGAAATGAGATGGTTGAAATGAGTGCATGAAGGGGTCATGTTGCTTCTCAGCATCATCTGGATGGCTTCCTCAGCTTTGGAGTAGCATTTACCCTCAGTGTATGCTCTGATCAAAGCAAGATATGTGTGCGAATCAGGCACATGATTGTTTTTCTGCATTTCTTGGAATATAATCTCTGCCTCATTGTGCAATCCTGAAGTGGCATAGGCATTGATCATGGTGTTGAAGCTGATCTTTCCAGGCCTGATACCATCTTCCTTCATTCTACTGAACAGTAAGGATGCCTCATGATGCTTCCCTGCTTTTCCATAGAAACTAAGCATGTTTGTGTATGTTTTCTCATCAATCGGTAAGCCTAGTTCCTGTGCAGCACTAAACATTTCAACAGCCTTCTCCAGCTTTCCTCCTTGGCCATAAACACTTATCATTATATTGAATGTCTGCATGGACCGAGGAATGCCAGAAGATATCATGCGATCATATATGCTGACAGCTGAGTACAGTTTGCCTGCTTGGAAGCTGATTCAAGCATTGACTTGATAAAAGTATTATATACAACAGTGTCGAGCTCAGCTTCATCGTGTAAACAGCGATATATGATGTTTTCTGCCTCCTGAAATTTCTCTTGCTTAGTCAGGTGTGTGACAAGTATGCTTATTGTCACGGCATCTCCATTATGACCTTGATCGATCAATTCCATGAAAAGACGATATGCCTCCTCAGTTTTGCCACATCTGCACAATGCATCAACCATTGCATTGTAGACAGATCCTCCTACTGGAAACGATGTTGATGCTGTCTCAAACAGTTTTTGTGCTTGTTCCAACTGCTGGGCCTGGCCATATTGTACAATTAAAGTAGCTATTGCAGTATCATCAGGCTTGGCTCCCAATTCAGTAAGGTGTTCATAGAGGAATTTGGCCTCATCTGTACTCCCTTCCCTAGCAAATTTCATGATCAATTGGGACACACTGGACAAGCCCCCAGGTTTGTCCAACAAGGATTTCAACATCATACTAAGTGTTGAACTATCTGTTGGATTTAGCACCTTTGATGAGCTACCTTCATTCTGAATCACTTCAGTTAAATTATCCGTATCCTTATTTATACTGGTTTTGCAACAAACTTCCAACACAGTCACACATAGATCCTCATCAAACTGGAGAGCTTCCTTCCTCATTTTCAGAATGAGTGCCCTGGCCTTGTCTAGATGGCCAAGCCTCATATATAACCTGAGAAGATCATTACAGCAAAACACATCGGGCGGGCCATAATTGGAGAGAGCTCTGAAAGTATCTTCAGCAGCATCCACATCTTCCTTTGCCACATGACATCGGAGAAGAGCACTGTAGGAGAATTGTGATGGCTTTACATTTCTCGCCCTCATAGCATCCAAAACTTGCAATGCTCTATCATAGTTTTGGACATTCATATGAACTTGAGCCATTGCCACATAAGTTTGCTCATCGCTCAAAAGACCTGCCTTGTCAATCTCCTCGAACATACGCTGCGCGTCCTCATAAAGCCCAAGCTTACCATATATCCTAACAAGAATTCCATAGATAACTTCATCAGGAACAATCTTATTCTGCTCCATCTCAGAGAACAGCGAAAGCGCCTTCGAGTAATCCTCATTCTTGTAATAGAGTGTCAGGACAGATGCACATGTGTAGTTGCTTGGGACAATACTCTTAACCTTCATCTCATCATAAAGCCCCAATGCCTCTTCCCCTTTGCCATGCTTGGCACACAAGCTGATCAGAAGGCTGTATGTCGCCTCCTCCGGCACAAATCTGCGGCGCTTCATCTCACCAAATGCATCCATGGCCTCCTCCAACATACCTTCCTTGGCATATGACCCGATCACAACTGTATATGTGAACTGATTTGGGGCAACATTGGCTTCCAGCATCTGCTCCCACAGGTGGATTACCTTGCCATGTAATTTCTGCTTCTGCAGAGATGAGACCATGAAATTGAAGACCGAGATGGAGGGCACAATGTCGCGGCGGCGCACCGCGGCGTAGAACATCAACATGTCATTGAGCTTCCCCCATCTTGCGTACGCGCACAGGAGGGTTCCACATGCCACTGCGTCTGGCTCGCACCCGGCCTGAAGCATCTCAAGAAATGTCACCTCGGCGAGCTTGACCTTCCCAACCTGACCGTACAATCTGAGAAGGATTGTGTAGGCGACAACGCTCGGTTCGTAGCACAGCTGAAGCTTCATCCAGGCGAAGAAATCGCGGGCCTGGCGCCAGCCGCGGAGCTCGTGGAGCACGAAGCACATCTCGCGGAAGGTGAGCTTCGCGACGAACGACGCCATGGCCTCGCGCATGTCGGCGGAGGAGGGGCTGGAGCAGGACGCCGTGGCGCGCGCCGCGCGGACGGCGGCGACCACGTGGCGGCCGTACACGTGGCCGGCGCGGTCGTCCTCGACGTAGCGGGCCATCTGGTCCGGGGTGCGGCGGACCCACCGGGGCGTGTGCGCGCCGCTCCCTTGCCCCCGGCGCTCGCGGCGGAGGCGCTGCGCCTCGTCGTGGAGGAGGCGCCGGTACGGGCGCTGGCGCTGGGAGGAGGAGGACGACGACGACGTGCCGGATGAGAGCGACCATGAGGTGGCGGCTCCGTCGTCTTCGTAGGAGTAGGAGGAGCAGGTGATGGATACGGCGGTGGATGCGGCGGCGCCGGCGATCGCCGCCGCCATTGGAGGGTGAGGAGCG

Coding Potentia
Explanation CPC Score
noncoding -1.12211
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0324300.2 6 630290 A G
Osa06LNT0324300.2 6 632264 C T
Osa06LNT0324300.2 6 632476 T C
Osa06LNT0324300.2 6 632560 A T
Osa06LNT0324300.2 6 633722 G T
Osa06LNT0324300.2 6 633720 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
Osa06LNT0324300.2 osa-miR159a.1 Cleavage 3.5 13.593 1 21
Osa06LNT0324300.2 osa-miR159b Cleavage 3.5 13.593 1 21
Osa06LNT0324300.2 osa-miR159c Cleavage 4.5 13.593 1 21
Osa06LNT0324300.2 osa-miR159d Cleavage 4.5 13.593 1 21
Osa06LNT0324300.2 osa-miR159e Cleavage 4.5 13.593 1 21
Osa06LNT0324300.2 osa-miR159f Cleavage 4.5 13.593 1 21
Osa06LNT0324300.2 osa-miR172a Cleavage 5.0 22.431 1 21
Osa06LNT0324300.2 osa-miR172b Cleavage 5.0 22.431 1 21
Osa06LNT0324300.2 osa-miR172c Cleavage 5.0 22.431 1 21
Osa06LNT0324300.2 osa-miR172d-3p Cleavage 5.0 22.431 1 21
Osa06LNT0324300.2 osa-miR390-5p Cleavage 4.0 13.976 1 21
Osa06LNT0324300.2 osa-miR1847.1 Cleavage 4.0 17.271 1 21
Osa06LNT0324300.2 osa-miR1851 Cleavage 4.0 13.892 1 21
Osa06LNT0324300.2 osa-miR2101-3p Translation 5.0 14.466 1 22
Osa06LNT0324300.2 osa-miR2871a-3p Cleavage 5.0 18.399 1 21
Osa06LNT0324300.2 osa-miR2871b Cleavage 5.0 18.399 1 21
Osa06LNT0324300.2 osa-miR2876-3p Cleavage 4.0 19.982 1 21
Osa06LNT0324300.2 osa-miR1863b Cleavage 5.0 19.732 1 24
Osa06LNT0324300.2 osa-miR5148a Cleavage 4.5 16.699 1 24
Osa06LNT0324300.2 osa-miR5148b Cleavage 4.5 16.699 1 24
Osa06LNT0324300.2 osa-miR5148c Cleavage 4.5 16.699 1 24
Osa06LNT0324300.2 osa-miR5338 Cleavage 4.0 17.367 1 21
Osa06LNT0324300.2 osa-miR2275c Cleavage 4.0 17.422 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0324300.2 6 qHD6 Physiological trait Flowering RM8120 RM1369
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