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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa12LNT0111700.1

GATAAAACCAATTTGCACATAAACAATGTGTTAAACCAAGATTCTGGAGTGGTTACATTTCAGTTTTGTCACAGTATCATTTGGTAATTTATGCCTAATCTAGCTAGTAGAGTGACAGCACACTAGTTCGGAGGCCTAGCAATTGCCTATTAACACCTCACTCAGTTCACTGACATTATTCCCCTTTTTGTTTTGTTTGAGGAGTATACCACGTTAACATGCCAATAATTGCTGCCAATGCTACTGGTATTGTTCCAAGATGAGTAGATTGATCTCGAGATTATGCCTTCCCTCTGATCATCCACGTACTCGCGCGTGCTGCATCTCTAATTACTCCTTTTCTTGCAGTCACTGATCTCATTACCATTTCTAAATCCATCCAAGCAGTGACAGCCACCTCTTAATGCTTCAACAACAGCATCAGAACCAATAGCTTGGTCACATCCTTCTAACTTGTTTTCTAATCCAGCATCATTAGTGGCAACCAGAGTCTCCACACTTGTTGATAATGTTGGCTTTCTTGGAGGATGAGGTTTGGGGTGGTTGTGCTCACCGTTGTATACAATTTCAGCAATCCGGCCATCTGGTGTCATCTCCACCTTTCTCTTGACAGGGCATGTTGGGTGAGTGCACTTGTAGTAGCTCCGTGGGAACTCGCTCCCTTTCACTTGCTTCTGCCCATACTTCCTCCAGCTGTAGCCATCGTAGGACAAACTGTTCTTCGCACTGACATTTGGCTTCCTGACACTCTGGGACACTGTCAAATTGTCCCAACAGGCCCCCTTTCCTGTATCTGCTTTCTTTTGATCGTATGCTGTATGTGTTCCACTGTCTTCTAGCTAAAAAGTTCAGCATGTTGTTAGAAAATGACCATATGATCATGTCAAAGGTAGGTTCAAAATAATCTAATGGACAGATGTATAATTATAAAAAGCATCATTTAAAAGAAGGTGCAAAATTATGTAACTGTCAGAAAGAAAATGAAATTTCTTTCCAGGAAACAGAGAAGTTGAATTTCGTGTCGAACTGACTCTGGTTGCAGCAATTTCTGTCGATGAATTACTCAATGGGTGTGTGAATCGCGTTGCCTTTGGACGCCTTAATATAATCTCCTCCAGGGAAGTAACCCGAGGAGAATCAATAGCAGTGGAGTCTTCCTGGAGCATTGAGAAGGACCTCAATCTGGAAGAAGGCCTGGAAGCCACAGGCTTCACAGCAGCAACCTTCTTGTGGCTTTGCATATCGCACTGGTGAAATTTTTAGCACAGTTTATGTACCAAAGTGAAATGACAAAGAAAGAAGGTAGAATAACACAAAATTTATGAACACAAGTCATGGATGTGCTCCCCTCTGCTGCTACCCAAGTCCCAAAGTCTTGTGCTGTGACAGGCAGACTGGTAGATGCAATCGAAGGGTGAGAAGGAAGTTGAGTTGAAGGGCTGATAAGGAGAGGAGAAAAGGAAGATAGTTAAGGATGCATGTATGACTGTTAGGTCCGGAAGTGGTAGGTAGACTGGCAGATGCCAGATAGCTGCCCTCCTTGCTGCAGTTTACCAAATGCAAATACCAATGACTCGGCTCATCTAACATTACTAGGTAATGTACCAATTTAATCTGTGGATCACAAAAACATAAGATAAGACCATGAGCTCCAACACTGATTCAACCATATACTCAAGTAACTTGCAAGCATAAGCACAGTAGCATTGTTGCATTAACCATAAACAGCAGTAATAAAGAGTATTTGAACTGATGAATTCTGCAAAATGGATTACTACTTACTTACACAAGACCTAGTATAGTCTACATGTCCTTGTTGCAAGCTCAGGGGAAAACAATCACCGCAAGCACAGAGACAATTAAGCTCTCAAGAGCAGCACAGAATGAATCAATAGCTAGGACTGTTGGTTGCTGTTGTTGTTCTATATGGATCACAGAACATAAGGCTATGAGCTCCAACACTGATTCAACCATTTATACTCAAATAATAGGCACAATAGCATTGTTTCATTAACCATAACCAACAGTAAAGAGTATTTGGACCCCAAAATTCTGCAAAAAGATTACTACACAAGACCTGTTCTATTTGTACATGTTGTTCTTGCTGTGCTCACAGAAAACCATATATATAATATCAGTAAGAACACGAAGACTACAAATAAGTTGTGAAAGAGCAACAGCTAGCTAGCACGAATGTTGGTTGGTGGTGGTGTTGTTTTGGATGAGGGTATGGATGAGCTGCAGCAGCTGGGTCCTCATGGCCTTGACGCTGTCGGCGTTCACCTCCCTCTTCACGGCCTCCAACCAATCGGAATCGGAATTGGAATGGCGGGCGCGGGTGGGCCACCAGTTGCAGATGGCCCTGGCCACCGCTAGCACGAAGACGCCGCAGTCGTAGCCGTTTGTCTGCCTGGGCGTGGGGCCCTCGATGAGCGGGATCGCGGAGGCGGGGAGCAGCGGGCGGAGCACGGCGGCGAGGCGGCGCGCGGAGGGCAGGTTGGTGGGTGGGAGGCTGTCGTGGTGGACGAAGCGGGGGCCGGAGACGGCGTTGGAGTTGTCGAGGACGAGGAGGGTCCAGTGGGAGCCGCCCTCGGCGTGGGAGACGTCGGGGTTGTCGTTGACGGGGAGGAGGACGAGGCGGCGGGAGGCGAGGCGGAGGGGGTCGGCGACGGCGGCGACGGAGGCGGGGTCGGGGAGGTTGGAGAGGAGGTAGGGGACGGAGGGGGGAAGCAGGAGTAGGTCGTCGTCGTGGTGGTCGGCGGCGAGGTGGGCGAGGTAGAAGGCGATGATGCGGTCGTTGAGGAAGTGGGGGCCACGGAGGATGGTGAGGTCGCAGCGGAGCAGCACCACGTCGCCGTGGCTCAGCACCCGCTCCTCCTCTTCCTCGCCGCCGCCGTGTGCCATCGCCGGTGGGGTGGGCGGAGGAGAGGGAGACAAGGGGCTCGCCCTCCGGTTTAATTTGCGCGTTCAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.895306
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0111700.1 12 103374 C T
Osa12LNT0111700.1 12 103744 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa12LNT0111700.1 osa-miR5809 Cleavage 5.0 24.652 1 20
Osa12LNT0111700.1 osa-miR164e Cleavage 5.0 13.82 1 21
Osa12LNT0111700.1 osa-miR171g Cleavage 4.5 15.575 1 21
Osa12LNT0111700.1 osa-miR529a Translation 4.5 10.881 1 20
Osa12LNT0111700.1 osa-miR535-3p Cleavage 5.0 15.683 1 21
Osa12LNT0111700.1 osa-miR535-3p Translation 5.0 18.263 1 21
Osa12LNT0111700.1 osa-miR1846d-5p Translation 5.0 20.274 1 22
Osa12LNT0111700.1 osa-miR1846a-3p Cleavage 3.0 24.945 1 21
Osa12LNT0111700.1 osa-miR1846a-3p Translation 4.0 17.12 1 21
Osa12LNT0111700.1 osa-miR1846b-3p Cleavage 3.0 24.945 1 21
Osa12LNT0111700.1 osa-miR1846b-3p Translation 4.0 17.12 1 21
Osa12LNT0111700.1 osa-miR1320-3p Cleavage 4.5 13.404 1 21
Osa12LNT0111700.1 osa-miR2118c Cleavage 5.0 18.249 1 22
Osa12LNT0111700.1 osa-miR2118q Cleavage 5.0 18.249 1 22
Osa12LNT0111700.1 osa-miR5075 Cleavage 2.5 23.187 1 21
Osa12LNT0111700.1 osa-miR5152-5p Cleavage 5.0 15.611 1 21
Osa12LNT0111700.1 osa-miR5339 Translation 4.0 22.541 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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