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

>Osa11LNT0107000.2

ACAATCAGAACGTACCCCAATTTATTTCCGAGTAATACGATCACAATCCAGACAATAATATGATTCTCTAAAAAAAAAAGCATAACACATAATATTGCACCAAGGGCATTCCCCTGTTACAATCACAATCCATAAAACATCCACACATGTTACAATCTCCAGAAACAAATACAAATGTTCGAACGTTATGATGAGATGCACACTTTACTGAAAACTGAAAACATGAGGGGAGCAGAGCATTAGCCATCAGCAATTCAGGTTTCAGGACATGCCAGAAGCAGGACTGCTCTGGTTAACCAGTCCAGGAGTGTCGTTCCCAGACTTTGCACCCTTCTTCTCCTGCCATAATTCGCTTTTCTCGATGCCACAATGACAAAACAAAGCCCAAATGAGGGTTATGAACTCAGTATCAGACTTGAGATCCTTGGCGTGAGCTTCTACATTGGAACTGGGAGCAATGTGCACAATCAAGTGACCCCACACCTCAGCTAGGATCTCCCAGAGACATGCTTGGCCCTCCTTCTTGATGAGTGCATTCGCCAGTAAAGCGCCTTGTTACAATATGTTTCCACTCAGATTTACATCATCATCATGTGTGCCTGGAACAAGAGCTTTCTGCTCCTCTTTCATAAGCTTCTTGTTCGCAATATGAGTGACAATCTTTAAGCATTTCCTGAGCACACTGAACAGCATCTTGGCAGGTCTTCTTAGACATCAAAATGGTTTCAGGGAGCAGTTTGGGCTTTGCAATAAGCAGGTACATACAATACTCTGACAAGAAATTGGCCACATCATGTGCCTTCTGAAACTTGCTGGTTAAGTTGATCCTACGATCATTGGCAAGATTGATCGCACAGAGGCTTGTTGCGATGTGCCAGACCAGAATAACACGGGAGCATCTTGGTAACTCTTCAAGGCATGCCAACCAATAACTCTCTGCTCTGTCACTGACACGTGGCGATGGGAGGTCTCTTGACAGAGGATGGCCCTCAAGGTCCATGGAGCGCAGTGCTCGGATGACTGCTGCCTTCTCACTCTTGCCCACACTACTATTTCTTTTTACTTTTAGATGAACTGTACTTTTGTTTTGATTTCTTTTGAAATTAAAAGAGATCATTTTCCACACTGACATCCTTGAGCTGAATGGTTGCAGTAAGACAGACTGGCCAGTTACTATAATCCCTTCCCTATGTCCTAAAATTTTGGCAGGGAATCTGAATAATATATTCATAACGACATATTTCTGCCATTTGTTTCTGGCATTCACAAAGTGGCATATAGCGACTAGTTTCGACCAGTTAGATATGAAATACCTAGACATCTCAAACATCTCCAACATCAATATCGTGTACATGGCTCCCGCCGTGATACCTTAACTCGGTTCCTGATATTACTGAGTGCATCGCATAACGAAAACTATAAGTCAGAGAGCCTCTAGCTTTATCTAGTTCCGATTTCGGATAATACACCTTGCCGATCTTTGCATAAAGCCATGAAGCCATGCTTACCTTCACCAAAGACAGTAGAAGAGTGAAGGAGAGTGACAGAAGCCCTCTGCAGAAGACCATAGGATAACTGGTATGGAGTGAGTCCCGGAGGAACTCAACATCCAGCTCCAGGATATCGAACAGTTCTTTTCCAGCATTATCTGAGAGGATCCTCTTGCTGACTAGCTTTCTGTTCATGTGAACTGTGGCTGCATGCAGCGTTGCTCCTTCCAGCCTACACCGAAGTAACCGATACAACGCAAAGGCCAGGCTCAGATCCTTCCCCTTCATGTTGATGGAGCTTGGCAGGAAGCTATCATCACATTGCCAAATTTTGTCCAAGGTAACTTGTGACCTCAAATCTTTAACACTTAGGCCATGCCCATTCTTTTTGCTTTGCTGCGACTCTCCATAGACAAAATACTTGTATCCTTCCATAGTATCTGGGTTGCAACTTCCAGGGTTAAAGCTGCTCTCATTACCATTGGCACCCATGTACTCCTGAAGAAGTTCTGAACTCCGGCCGTTCCACAAGGACCTGGATGCTACATGACGTGCCAGAATCCTGTAGAAACACTTTAGTGCCAGAAGACTCCAAAATAACCAGAATGGGACATGCCAGAACTTAGACCCATGTGTTATATTAAGGTATGCCACAGCTAAAAGCTTCAATGCATTTCTCAGCTCAAAATATGTTCCGTAACTAGAGAGGCAATTGATGCTAGAGCGGAAGCTGACCAGCATAAGGGCCCAGACTGGGAAGAGCTGATTCTTGAAAGGTGCAGCTTGCATGGCCCCAATAACATACACCAGGATGGCATCAGACAAAGCATCTAGCAAGCTCAAAATGGTTCTTTTCGTAGAGAAGAAGAAAATGCCCGACAAGAAGAACATCACCATGTAGAGGAATATGAGGAATCCCATTATAACTCGGATTCGAAGAAAGACGTAGGTCTCCTGATTCCATTTGATGAGAAAATATGCAATAAAAGCACCAGGACTCATTTTGGTTTTCCCACAGAAAAGCGTGTACAATCCTGGGCCCTGCTTCAGCTTGTGCTCCGCAACCTTGCTGCCGTCTGCAGCAATGCTTATCCTATTAGGGCCTTGTTATTGTTTCATGACAATTGTGTGTCAGTTTAAATGAAGCTGGTAATGGATGCTCTGCTTTTGACCCAGGTGCAGGATTCAGTAGCTGCTCATGATGGATGGATCTGCAGCCTGGGAAGATAGAGACAACTCTAGGCAAAACCTTCAGCCAAGAAGAGCACCGAGATCTGGAAACTGGGCTGTTGTCATAGGCTGAGTTCCTCCTTGACCTCACTCCTAACTCCTAAGATATAGTGATCATAAACTAAGGACCACATATCCCGCGGTCTTGTTAAGTCCTTATTTTTAACACACTTCCTAAAATATGGCATTTACAGTGGCGCGCAATAGATAATTCTGGCACTTGCTGTCTTGCTGTACTCTTCATTTATGGTAAGTAGTACTGTAGTAATACTTCAACGGTGTTGGCAAACTACATAAAAGAAAATTTGAACTGTGTAGTAGCTTTCACATGTGCGGACTTGTTCATCCAACTGGATTCCCCAGAAAACTGTTGAGTAAAAAAATAAGAAACAATCATTGACTTGCACAAAACTACTGATCCCTTACCGTGATTTCTCTTAGGACCTTCCATGATTTGTTCGTCCATTTATACAACCATTCGATAATCCCATAGCATTTACTCCTACTTTCCTATCACATGATTTGACGAGAAATGCACCGCGATTAAAAAAAAAGAGGAGATCGGACGGAGCTGCAAAAAAATTTACCGTGAGAGAAACAGAGAGCTCCATAGACAACACTGTAGAGCCCCATCGGACGATGCCGATGCCATGGCCGACCAAGAAAGCATCCCCCAATTGAGCGCCAGCCACCCTCGCCGCCGGCCGCGGCCGCTGTACCACCTCCGATGTTGATCCCCC

Coding Potentia
Explanation CPC Score
noncoding -1.00818
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0107000.2 11 24097660 A T
Osa11LNT0107000.2 11 24096408 G A
Osa11LNT0107000.2 11 24096407 A C
Osa11LNT0107000.2 11 24096053 C G
Osa11LNT0107000.2 11 24096203 A C
Osa11LNT0107000.2 11 24096261 T G
Osa11LNT0107000.2 11 24096275 G C
Osa11LNT0107000.2 11 24096354 A G
Osa11LNT0107000.2 11 24096356 C T
Osa11LNT0107000.2 11 24096517 T C
Osa11LNT0107000.2 11 24097597 A G
Osa11LNT0107000.2 11 24097649 C A
Osa11LNT0107000.2 11 24097868 G A
Osa11LNT0107000.2 11 24097895 T C
Osa11LNT0107000.2 11 24097947 T C
Osa11LNT0107000.2 11 24098369 T C
Osa11LNT0107000.2 11 24098583 C A
Osa11LNT0107000.2 11 24098949 A T
Osa11LNT0107000.2 11 24098952 C A
Osa11LNT0107000.2 11 24099070 A G
Osa11LNT0107000.2 11 24099090 A G
Osa11LNT0107000.2 11 24099094 T C
Osa11LNT0107000.2 11 24099473 A G
Osa11LNT0107000.2 11 24099911 C T
Osa11LNT0107000.2 11 24100292 A G
Osa11LNT0107000.2 11 24100302 T C
Osa11LNT0107000.2 11 24100314 T C
Osa11LNT0107000.2 11 24098906 T G
Osa11LNT0107000.2 11 24100467 A C
Osa11LNT0107000.2 11 24097130 A G
Osa11LNT0107000.2 11 24100484 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0107000.2 osa-miR5788 Translation 5.0 15.243 1 21
Osa11LNT0107000.2 osa-miR7693-5p Translation 4.0 20.176 1 24
Osa11LNT0107000.2 osa-miR5079b Translation 4.5 16.424 1 22
Osa11LNT0107000.2 osa-miR399h Cleavage 5.0 15.748 1 21
Osa11LNT0107000.2 osa-miR435 Translation 3.5 15.46 1 20
Osa11LNT0107000.2 osa-miR435 Cleavage 5.0 15.456 1 20
Osa11LNT0107000.2 osa-miR816 Cleavage 4.5 13.956 1 20
Osa11LNT0107000.2 osa-miR2121a Translation 4.5 23.167 1 24
Osa11LNT0107000.2 osa-miR2121b Translation 4.5 23.167 1 24
Osa11LNT0107000.2 osa-miR2863a Cleavage 5.0 15.685 1 21
Osa11LNT0107000.2 osa-miR2905 Cleavage 4.0 21.562 1 21
Osa11LNT0107000.2 osa-miR5079a Translation 4.5 16.424 1 22
Osa11LNT0107000.2 osa-miR5339 Translation 4.5 19.405 1 21
Osa11LNT0107000.2 osa-miR5803 Cleavage 4.5 13.811 1 24
Osa11LNT0107000.2 osa-miR1861o Translation 5.0 23.722 1 22
Osa11LNT0107000.2 osa-miR1861a Translation 5.0 23.722 1 22
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