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

>Osa10LNT0081900.1

GAAAAAGAACACCGAAGCCACCGATCGAAACAGCCATTTTCATTAGCCGCTCTGCGTACACATACATAATAGAGAAAAGTACAGTACAGGGCAACCAGGAGATAATCGATACAGTTCGTTCGTACTGGCAGCCAATTTGACCACAACCTGCTCAAGAATGCTTCCTCTCCCATTTCCCTTCTCGACGCTCCCTGCGTTCTACTACAACCTGCCTTGAGCTTGAGGACGACGACTTGCTGCCCCCCCGTGGGCCATGCCTCGTGCCAGCTTCCAAAGCCGCCGCTGATTCTGGATCTCCGACGCTGCTGGCGTCACCACTTCCCTCAGCATTCTCCTCATAATAATTTCCTCCTGTGCTAGTACGCTCGTCACTCGTAGTACGCTCTCGAGGTTGCTGCAGTATTGTGGGAAGGTTGCCTGAAAATGATCTTGTCGCAGACCCACCGGCCTCAACCCCTCCACCTCGGCTCCTTCCTTCCTGCTGTCCCCTACCGTCATCCCTTTCACGGTATCTCTCCCTAGACCGGCTGTTAGTATTGGCTGAAAACTCCCGCCTTGATGACCGCCCCAACTCAACTTGATCCAATTCTCGTTGAAGCTCTCTCTGAGTTTGTTTTTCTCTTTCCATATCGAGGTTAAATTGCAGTTCCCTAGAATTAACGCGCTCAAGATCCAGTTGTCGCTGTCTTTCGATTTCACGTTCCATCTCATGAGCCCTTTCCCTGTCAAGTTCTTGCAAAAGTTCCATTTCCCTTGAACTAGTCTCCTCCAAGTATTTTTCACGAGTATGTCGGATAAGCAGCTTCTTTTGTCTGCGTGCTATAATTTCCTCCCTGAGTTTGGACCTTTCCAAGGACCGTATATCTTCCTGAATTTGCTGGAGCTGCTTATTAACCTCATTACCATCCTTATAGTATGATGACATGTCCGGAATCATGGTGTCCTGGGGATGTACAATAAAGCTGTGAAGTGCTTTCTCATTTTTAACAATCTCCAATTCGATCTCTGCTTCTTCAAGTTCCTGATATTCCTGATCAGATCTTGTTGAGAAGAACTCAAAGTATGATTCAACAGAACTCAAAGAGGACAGCACCTGAAGAATCGATTCACGGATGCCCTTAAAATCAGTTTCAACTGGTTTCGCAGTAGATTCCGTGAGAAGTTCTTTTACGACAGTTTTAGCATCAGATTCACTTCTTAGTTGACACAGTGCTCGGCAGAGATCTTTCTCCATATCACCAAAGCATCCAGGTATTGATGTTTGCATATTTTCCAGTTTTCTCCAAACACATTCAGGTATTAAAGCAATATCTTCAGGAGCAGAATAGAGACACGCCCTTGAAAGCAACAGCAAAGACATTCGTGTCAAATACCCCTGTTCTATTGCATAAGAAAATTGTTCCGCACCATTAAGGATGCTGTTACTGGATCCAAGAAAGGACTGTAGATGATTTCTATCAACAAATGGAATGTATTCAGTAAGCAAAGCCAATGCATGCTTCCTTAATAACATAGAAGAATCATAGAAAGCCAATGCTGCTACTCGGTCCCAGGTATGAGTAACCAAAAGGGATGTTACTGTTGAACCAGATGAGAGTGAATTTTGCTTATAAGTAGTATATTCAGAATCAACTTTAGTTGTGCTCATAATAATCCTCCCAAGTTGCTGCAATGCAACAGAGCGCTGTTCTGGTTCAGCATGACTCAACAATGTGCAGAAAAGATCAATCAATGAATTCTCACTGTTCTTAAGGCCTTCAATTCCATAAGAAACCAATATTGATAACCATATCTCTGTCTGAAGCCTCCAAGATATCCTGGGTGCATGAGAGCAGAGGTGTTTCATTGCAGAAGACATGACATTAAGAACATTATCCCAAGCAAGAATATTTGGAAGCTTAATCATATAATCGAGCATAACTGATGCCACCTGCCAGCACTGCTTCTTCTGATTTACTAAAATGGTTTCTGCGAGGCCTTGGAGAGCACTCTCCCAGTGTTTTTGGGAAAGATCAGTGGATATTTCAGTACCAACCTCTTGTTTGATGCTACTATAGATCATACCTCCTTCGGCAATAGACTTTAGGCATTTTGCATACAGCAAACATTTTGCAATCGATAAAGATAACCTAGAGGCCAACTGAAGGTGCCATTTCCAACTGCCCTCAATAGATGGTGCAAGGTTTGATACTAACCTCTCCAGGGCACCACAAAATTCTTTAATACAAACAGTATGTGGGGAATCAACTCCCTTTGAATTTTCACCATTCTCATGATATTCTGTGGACCTCCTCTGTACCTGTGCTACACTGGCCTGTGCTTTCTTGTTATCCATGGTGTCATCTGGACTTGCGGAGTTAGCAAACTCTGTAGACTGGTTTCTCTCAGAAAGGACATGCACACCAAATAATTCAATATTCTGAACTAGTATAGTTTCACAACCATCAATAAATGCCTGAAAGCCTTGTAGATAACTACACAACAATGATGATGGATCAGAACTGCCGAAGTCTACCCATACTAATAATGAGCCTAATATCTCAATCCTCCTCTTAAAGGACAGATCAGGAAATAGCGAACCCAGAATGAATATGAGAAAGGGCACCTGGTTCTTATTGCCAGGTGTATCCTCTGATTGTTTACCAAACTGGATTGTTTCAAATAACTCTTCAAAACAAAGTAACTCAAAATCACTGCATTCAGTAATATCACCTGATACATTTCCATTATCAGTACTCTTCCTTAAGAAGTGTGAGATCATTGGCTTCATTAGGCACAGCACAGAATCAAGGAAAGCTACATCAGTGTAAGAAGCTCTACAAAGTGACACAAGAATGTGCACCATCCGTGGCATTTCAGGAACAATAACTTCCAAGTGCTCAGCGACAATTGACTCAAGTAGGTAGAAAACAACAGCCTTTGCCTTAGCTGCAATGTTTCCTTTTAAACTATTAACTCCGTTTGCAAATGCAAGATGCTCCCTAATATTTCCAAGATAAGGCCACAGGCACATTTCTGAAAACCAACAAAGAACATCATGCACTGCACTTTTTGGGAGACATTTTAATTGTAACCCAACAGCTTCCAAAATGCTTTGGCCAAATGCATCAAACTTTTTGCTCATACTCGGAAAGAAGAAATGCAGTTCAGGAAGTAAAATCTGAAACAATCTCATGCTTGGTTGGTCTGACAGCAAAGGTTCCTTCTTAAGAAGCACATAGTTATTGCAACCAGATTGTTCAATTTTAGCAGACTTGGCCTTCTGAGTAGTAACACCACCCATCAAAGAAAGTTCATCGGTGAAAATTGACAGCAAAGATGTAAGCTGTGAGAAGTCAGAGGCAAGAAATAGCTGCTCATTTAAATATTCCTTGGCATAACGGGACACTGCCATCCATCCAAAAAATCGAGGTAGTGGACTAGAAGACCTGGAAAAATCTGATATCTTATGTATCCATGCTGATGGAGGAACCAGACTTTTAAAACGGAAACCATCTCTTTTAATGCTGACAAGTTCTCTAGTATTATCACTGCCAGACGAAGCAAGAACCAGCTTCTGGAGCAGTGCCCAACGTCTTCGTAGATAATGTAGTTTTACTCTATCCAATTTATTATTCCTTGCATTAACGGAATTGTAAAGACATACAAGTTTTCCATTGAGATCTTCGGCGGATTTCAATATGATATCGATCACATTCTCTGGTGGACAAAATAGATCAGTTGCTGAGTGCAACAAGAACAACAAGCTCTGGAGGAGAATTTCGTTAGGAGAGTGTCCTTTCCTTTCAAATTGTTTCATGATAAAGTGACAAAGCATAGCCTGGTTCTTTCTGACCAAAGTTACAGCATCAGCAAGGTGTCTAGCCTCTGGTGAAATTTCTATATATTGCTTGCCATCTTCAACATCATCTGGAAAAGGTTTCCCATCAGGTATCTTTCCCTGGTATTCAAAATCATATCTTGCAGCTTGCATGAGTAAATCCAGGACCGCTTTATCTCGTTTATTCTCCAAATTATAAATTTTCATGAGATCAATATCTTTAGCACGCAGATGTTTCGCCTCAGAGAAACAATTTCCTTGGATCAATTCTGCATGAATACGTTCAATTTCATCCAAAGACTCCGAATTAGAATGGAAATCCAAGAGAAAGAGTGGATTAACATAGCATTCAGCAGCTAACAGAAAAGCATCTATTCCAGCATTATGCCCCTCAACTGTAGGTTCTTGTTGTGTGCATAGATTCAGTGCTAAGCGCTGAAATTCTAGAGCTCTTAATTCACAGTCCTGATAGTTCACCAGCTGCAGATAATCAGCATGTGCATCATAGTAATCAGCAGCAAAAATATTATCTAACTGAAAAAGGCCAGCTGGTAATTTTCCATTACTTTTTGTGTCCTCTGGGAAGTTCTGGTCCAAATCTGTACTTATTTTCTCATGCTTTTTTTCTTCCAAAGTCTTTGTCAACTCAGATTGCTCTAATTCTTCTGGAGCAAATAAAGAATTGCACTGTTCAAGAATATCTTCCCTGGGAGTTGTTTCAGATGTATCACGCCCATCAGCATCTTCAGCACTGCAGGAGTGCGGTGGACAGTTTGGAACTATCAGAGATATTTGATCAATCTCAGGCATCGAACTTTTGCAGAGGTCTATGTCAGGAGGGAGTGGCATATGCGGATCCAAGGTAGAGAGAATAACACTTGTGGCAACAGCACCACGACGCCATTCAAGTTCTAAAGAAGGGAGAACAGCAGGCCTCTTCACTGCTGTACGAATAATATTTAACGAAATATTGCAAGCGCTTGCTTGCTTCTCCAAATGCACAACAGACACATCACCAAATGCCATTGCATCTGTCATAACACTTACAGAAGGATCAATAAAAGGATCTAGCATCTCCAGAATGAAAAGTAACTTATGTTTGACGTCTTTATATTCTGTGAGAACATCATCCATATGGCCAGATATGGCCAATGCAATATACTTCAGTGCTGCACGAGAACGAGTAAGAGATTGACCAACTCCCTGGATAATACCCAGGAGATCCTCCAGAAGTTCAATGGCAAGGTCTACCTTTGCCGTGATCATGGGTACCCACGGTGATAATGGTCCCCTGCATAAGTCAAGCAAAACACAGGCTGCTTTTGCATGTGATGACAGGTAGGATGAAAGATAACCAGCACAGGCTCTGAGAAGAGGATGAAGAACTGATGATGACATTGACATTGTAGCAATCTGAGAGAGAGCTTTATGAACATTTGGATGATTCCATTGGCTAAGACAACCATCAATCTGTTCAGTAGAACCAGGGCTAAGTGGAGGACGAAGTGCTGGAAGCAGAGCTTGAACAAGTGGTAAGACAGACCACATGTCTGAACCTTTCTCAGCAAGCTTGCAACATAACAGAGGCTGTGATGAAGCTGCATATAGTATATGAAGAATGCCTTCTTCAACAGCAGCAATATCCAAAATGTTCAGAATAGAGGCATCAAAGCAATTCTCCGATAAGTTAAATTCATCTCCAAACAAACTAGAGTAGTCTGTACAAAGTACTTGGTCAGAAGCATCATCTAACAATGGATCGGGCTCCAGAAGTTCTTGCAGGACCTTTGATGCTTTCAGGCAAACAATTCCAAGGGCTCTGTCTCTGTGTGCTTTCCTTAAGAGCAGTACGGCTGTTTCAGATCGAAATGCCAGAAAACAAGCAGGCTGAACAGAAGATGGACTCCGTGATCTCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.907507
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0081900.1 10 23204854 T C
Osa10LNT0081900.1 10 23196361 A G
Osa10LNT0081900.1 10 23197662 C T
Osa10LNT0081900.1 10 23197687 A T
Osa10LNT0081900.1 10 23198451 C T
Osa10LNT0081900.1 10 23199559 C T
Osa10LNT0081900.1 10 23200493 T G
Osa10LNT0081900.1 10 23202094 T C
Osa10LNT0081900.1 10 23202713 C G
Osa10LNT0081900.1 10 23202749 G A
Osa10LNT0081900.1 10 23203996 A C
Osa10LNT0081900.1 10 23204580 A G
Osa10LNT0081900.1 10 23205864 A G
Osa10LNT0081900.1 10 23197689 T 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
Osa10LNT0081900.1 osa-miR5532 Translation 5.0 12.165 1 22
Osa10LNT0081900.1 osa-miR812r Translation 4.5 16.917 1 24
Osa10LNT0081900.1 osa-miR5798 Translation 5.0 13.007 1 21
Osa10LNT0081900.1 osa-miR5820 Cleavage 5.0 17.747 1 21
Osa10LNT0081900.1 osa-miR2873c Cleavage 4.0 15.85 1 21
Osa10LNT0081900.1 osa-miR1440b Translation 5.0 14.658 1 21
Osa10LNT0081900.1 osa-miR6248 Cleavage 5.0 9.513 1 21
Osa10LNT0081900.1 osa-miR396a-5p Cleavage 4.0 18.197 1 21
Osa10LNT0081900.1 osa-miR396b-5p Cleavage 4.0 18.197 1 21
Osa10LNT0081900.1 osa-miR396c-5p Cleavage 4.0 18.197 1 21
Osa10LNT0081900.1 osa-miR164d Translation 4.0 15.851 1 21
Osa10LNT0081900.1 osa-miR164d Cleavage 5.0 10.426 1 21
Osa10LNT0081900.1 osa-miR171c-5p Translation 3.0 17.301 1 21
Osa10LNT0081900.1 osa-miR417 Cleavage 4.5 8.338 1 21
Osa10LNT0081900.1 osa-miR437 Translation 5.0 14.192 1 21
Osa10LNT0081900.1 osa-miR395o Cleavage 5.0 10.291 1 21
Osa10LNT0081900.1 osa-miR395o Cleavage 5.0 11.152 1 21
Osa10LNT0081900.1 osa-miR1425-3p Cleavage 4.0 11.967 1 21
Osa10LNT0081900.1 osa-miR1861c Translation 4.0 13.116 1 22
Osa10LNT0081900.1 osa-miR1861e Translation 4.5 13.116 1 22
Osa10LNT0081900.1 osa-miR1861g Translation 4.0 13.116 1 22
Osa10LNT0081900.1 osa-miR1861k Translation 4.5 13.116 1 22
Osa10LNT0081900.1 osa-miR1861m Translation 4.5 13.116 1 22
Osa10LNT0081900.1 osa-miR1866-5p Translation 4.5 15.03 1 24
Osa10LNT0081900.1 osa-miR1868 Cleavage 4.5 16.157 1 24
Osa10LNT0081900.1 osa-miR1882a Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882b Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882c Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882d Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882e-5p Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882f Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882g Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR1882h Translation 4.5 21.757 1 24
Osa10LNT0081900.1 osa-miR2090 Cleavage 4.5 19.284 1 22
Osa10LNT0081900.1 osa-miR1863c Translation 4.0 18.32 1 24
Osa10LNT0081900.1 osa-miR5078 Cleavage 5.0 17.526 1 21
Osa10LNT0081900.1 osa-miR5144-5p Translation 4.0 21.185 1 21
Osa10LNT0081900.1 osa-miR5144-5p Cleavage 5.0 16.052 1 21
Osa10LNT0081900.1 osa-miR5337a Translation 4.0 15.353 1 21
Osa10LNT0081900.1 osa-miR5506 Cleavage 4.5 18.699 1 21
Osa10LNT0081900.1 osa-miR5521 Translation 4.5 16.567 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