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

>Osa06LNT0360300.2

GCGTGTTATGAAAAAAAATATTCAGGTAATGTTCATTCAGCTTCTGAGCTTCAGCTCGACTTCTGTCAGCCATTTCATTAATCAGACTTGTTACCAGACTGATGCATCACAACCCTTTCCGACATTGCACTGTCTGAATGACGTGCGTGTAGATGGTTACAGATTGCACATTTCAACTTGCTTGATGACGCCGCCCTGCAGCTTTGTCTGCGAATAATTTTACAGGCATGTCGATGCAACTATGGGAGAAGTTCGATAGAGAAATGGTAGTAATCTGCAACAATAAAACATCTGTCCCCAAAATCAGTACTCTGTCTGGTTTAGTGGCAAAAGGATGCCTTCTTTTTTCCCTGAACTCCTAAAGCATATACTCCTATATAAGTTAAAAAAGAAGAGAAAAAAGAAAGCCAGAGAACAGGCCATTTTACAAAGAGAGATAGAGAAGAGTGATATGATATCTGCAGCCATCATCTGATTTTTTTTCTTTGAACATTTGCCGTATCCCCTTCTGGCCAGTCAGACAGGGTGTAGAAAATGTCCCTTGTAACCAGCAGCCTCCTTGACTCCTTCGTTAGGGACTTGCAGGCTACACCTAATGAAAAAAAGAAAGTTAATGCAGGAGCAAACTATCCAGCTAAGGATGCCATAGTACTTCTGAAACTGTTGAGATTAGTTAAATCACTCCTTGGATTAGTACTCTCTATCTTTGATGATCGGAATTGTTCCTCTTAGCTTGCGGCACTGCCTTTTGAGCTCCTCGTTCTCACAACGACAGACATCTAGTTCTTGCAATGAACTCGGAAGGCCACCCTTGGGCAGTGAACAGATGGCTGGACACCAGTCGATCTCTAATATCTTGAGGCCGACGAGTCTGTGTAACCCAGTGGGGAGGGACTGCAGCTTCCGGCAGGAGTAAAACTCGAGGTCCTGGAGGGAGGAGAGGAGCAGAAGGGCCTCACTCTGCTCCTTGGTGATGCGCTCCACCTCATGATTAAAACCAATGGTTAGCTTGGTGAGTGATGAAGAAATGAGGCTGCAGATTGGTGGTGCAAGGACCCTTGCAATGTCATCCGTTTGAAGCTGCTGCAGCCGCGAGGGGTCAGACCTGACGAAGAATTTGGGGGTCATTTGGATGCGAAGGTCTGTGAGTTGGCCATGGTCGAGCAGAGAAGACAAGCCCTCACCACTTAAGTCCATACATTTCCATATGGTTAATCTGGTGAGAGAGCTGAGGTTTGAGAGGGGAGCAAGAGTCTCCATGCCTCTCACATCACTCAGATACATCTTTTGAAGGGAGGATGGAAACGGGAAACAAGACAAGGAGGTCGAGTAGTAGGAGGAGAGGAAAGTGGGGCAACCCCAAATAGAGAATGCTCGTAGGGAGTGCAGGCCTTGTAATCCTCCTCCTATGCCTCTTAAGCCTCCTTCCATGCCATCTACAAGAGAATGGATCTGCAGGATCAGCTCTGGGATTTCGCTGATGTTCAACTCCTGAAGTTGGTGAGGCAAGAGCAATAGTCCTGCTTCAGCTGACACTTTCTCATCCTCTCCTCTTGGTTGTTGCTGCTCCAGTCCGAAACGAGCATCCTCCAACTTATTACCACAAGGTGATGATGACGATGCCAACATTGTTGTCATCTGCTTCCCCAGCACACCAAGCCCTCTTATCTTATTACATCTCCTTGAAATAAACATGGAGAGTTTGGGGAAATGAGATAGAAACAACGTCAATTCCTTCCCGCTACAACCACACTCAAAGATCTCCAATTTCTCGATTGGAAACTGGTAGCTGACAGTGTTCTCAGATTCAAGATGTGACATGACATTGCTTGAGTCAGATATAGTGAGTCTCCTCAAACATGATAGCATTAGGAGGTATTCCAGCGGCAAAGGAGGGCATTTCTTCAAATCCAACTCTTTCAGATCAGTTAGATTACCAAAAACCAATCTCCTCCAGAATGCACCATCTAGATGTTCATCCTTTCCCTTGACTAGCATGCATAATTCATATTGCTTATTTTTTGAGTAATCCAACTGCTGAAAATCCAATCCAACTCCTTCAATCAGCGCACGGCATGGAGAGCCTCTCCAAGGAATGGGAGGGAATGATGACAGCTTTGGACAATTAACAATCTCAAGCTCCTTTAGTGTACGGAGTTGGGTCAAGTTCATCTCTTGCTCCGATCGAGGGCATGTGGAATGTGAAAATGGCAACTCCGTGAGTTCTGGACAATCTCTTATGATGAGCACCTTTAGCAGAGAGAACACAAAGCAAGAATCATTTCCAACCCATTTTGCTAGTCTCTGTATGCCAACAAGCTCTAACCTTTTTAAATTCGGAAAGCTCCTCTCTGTTGTACAAACCAGGGATTCTTCACCATGCTCATTAATCAACAACAACTTCCCTAGAGGAGGAAATTTGTTCCAGTCTACACCATCAAGACGAAGAGTTTGCAAGCCTTTGATGGACAAGTTAACACCCAACCATGAAGGGCAAGTAGTGCCCCCACGCCCATTAATGTGTAGCTCCCGAAGATTGCTATGTGGTTTAAGACTTTCAAGGATATGCTCTTCTTGTAAAGAATCCTTTGTCAAACGTTTAATATCACAATCTAATATCAACTTGTGTAAGCGACTTTTGTTTGAAAGTTCTGCTTCCTCTGGTGCCTGCGCATTTTCAAGATTATAGATGCCCAATGACCCTTTTAGGTCTTCCAACTGCCCCAGCTGTCTTAGTGCAAATGCCTCAACTTGTCTTTGAACTTCAAATCTCCTTAACTCTTGTAAACATTTTAGCTTTCCCACACTAGCAATTTCAGAGTGAAGATTATCATTTGGGACAAGAAAATGCCGCATCCTTACAAGGTGATTCATATCTCTTGGTAAACCAAAGTGACCACTGCATTGTCTCACATCAAGGATCCTCAGGTGATAAAATCTTGAAATAATGTTGGACAGACTTAGTTCAGGAAAATATCCCTTATTAATCCTTAAGTAACGAAGATGAACAAGATTTGAAAAGTTGTGCAACATATTCTCCACAGCATAAGATGCTACAGACAACAAGATGACACGGAGGGCTTTTGCTTTACTTAACAAATTACCAAAAGGAATGACAAAGCTTCCATTGTTTTTTCCAAATATCATTAGAGAGTGTAGCTTTTCGACATCAAGCCTCTTACTTAGTGTGCCAAAATCCTTCTTAATATTTTCAAAAGTTGCTCTGTCGTTTACGTCCATGTCATCTATCACAATAGATAAGTGCCGTATAGATGGCGGAATTTGCATAGACATTACTTTAGTATTACTTATAGAAAGATATTCATATGATGAAACCTTCAATGCTAACTCATGTAGTAGGTCATGCATAGTGTAGTAAGGTGACCCATCTTCATTCACATCTTTTATGAAAAATCCATAATTAACCAAATCATTCAAATATCTCAACCCAATATCTTCAATTGTTTTGTTTTCATCCTGGGAATGTAAAATGCCTTGCCCTATCCACAAGTGAATCATCTCCTCACTATCAAACTTGTAATCTTCAGGGAACAAAGCACAATATGTGAAACATTGTTGTAGATGGAAAGATAGATAGTCATAGCTAAGCTTCAAAGCTGGCATAATATCATTTTCACTAGTTTGTGATTCCCATTCCTTACTTTCTAGGACCCTCATCCAATCATCCAAATCAAGGTGATTTCTCAGCAATCTACCCACCGTTTTTGCTGCCAAAGGAGAGCCCTTAAGTTTTTTCACTATCTTTTCTCCTGTCTCAAGTAAGTTAGCATGATCATCTATTGATTTGTCATCACCAAAAACACATGCTTGGAATAATTCCCAGAACTCTTCAGGTTCTAGCCCTTCCAATTGTATTGGTCGATCAAATGTTTTCACCATTTCTGCAACCACTGGAAATCGAGTGGTGACTAGAATTATGTTTCCCTTTGTCATTGCTTTTCTGAGGGGAGCTAAGAACTTTTTCCACTCATCCTCATTATCACACTTCCACATATCATCCAAGACAAGAAGAAGCTTCTTAGATTTCAATCTTTGCTCAATTGAATCATCCATGTCGACATATTTCTCATCATCCTTGAGTTTAGGTATCCACTTTGAGATCTCTTCTTTCAATCTATACAGATTGAAATTGAGAGAGACGCATACCCAAACCTTAACATCAAAATGGTTATGTACTTCCTTGTATATGTGCTGAGTGAGAGTTGTCTTCCCTATTCCCCCTGGACCAACAATTGGAATGACGGTCAAATCCTTGTCACAGTAATCACCCCGAGTAATGTCCTCAATAATTCTACTTCTATCACCCTTCCTCCCATAAAATTCAGGGTCTATAATCCCTGAAGTAGTTACAGGACGATTCATAGCAACGTTGCTTGGATGAACTAGCGTTTGCCCTGGTTTCCTTGAAAATTCAGCATTGATACTGATGGCAATGCATGATTCCAACAGCTCTAGATTAAGGATTGTAGAGACTTTGGCACATACGGGCTTCAATTGTTCGACGATGTGCTTCATTCTTGTGGACAGATCCACCCTATCGAACTTCAGCTTTGGTGTTTTCATGGTAGATATGTGCAAGGCACCGGAGTCATCACAATTGTCAAGACCAGGTGCAAAAGGGAAGCATGGAAGGTGTTTACCAACGAGATGGATGGTGCTCTGAGCACTGCAAGCGAGGATGCGCATGCAGCCGCTGCCAGCAACAGCCTCCTCTTCGTTGGCGTGGCGACTCGCTTCCTCGTCACCACCGCACGAGCAAGAGGCAGAGAGGTACCTTCTCTTGATGTTTCTGGCAGTGTGGTGAGCGTTGAGCACAAGGCCAAGGAGACAGCCGCTGGCATGCTCATCGGCGGCCTCGTAGGTGCCATCGAGCTCGTCCTGGATGCGGAAGTAGTCGAGCTCGTCGAGCACGTCGTCGGCATCATAGGCGAGGCCACGGAGCTCCAGGAGCAGCTGCTGCAGCGCGGGGTTGCTGGTTTCTCTGCCACGGGTGTTGTGCAGCATCCCCTGCGCGTAGAGCAGCTCCATCTTGATGGCGCCGACGTTTGGCCCGAGCTCCGTGCTGGCCGCCCACGCCTCCACGAACCCTCCCGACAGCGGGCTCAGCGCCTTGCCAACCACCCACCGCGCCGCGTTCACGGCCGCCGACTCCATTGATCTGTCTGGTCTCTACTCCGCTAGCTAAGCTGAGGAGAGTGGGAGGGATGGAAGAGCTGTGGACTGCGAGAGAACAAAGCAGTCCAGGAGTAGTAGAGAAGGGAATGGTGAATAGCGAGCAGACAGTGAAGTGAAGGACTACCAAACCACGGCAGAAGTATTGTTTGTTTTCTGAACCCTCTGTTCGAACTTTACCAAATGGTGTTCTCAAAAATGGATTTAAAAAAACCAAAGTCGTCCTGCTCTTCTTGAATCTGATGCCATTCCGTGCCATTTGGAAGATAAGAAAAAAACTAAACGTCTAATCAGCCCCCAAAACCATAATTAGAACGCAATAGTAAAGGTACAGGCGGTACAGCCAATGGATTTACTTAAATCTGTTGCGATTGCAAAGGTGCATAATGCCAGATTCGCCACTGTTCATTCAGTAAACTACCGGGATAGAGCAATTTGCCTGCATGTGGGATGTGGCACAGAGGAAGAACAGATCTGATAAGCAACAGCCTGTGCTGTATCAGTGATCAAAGTAGGCATGAACAGAAACCTGCAAGCAACCAAATGGAAGTAACTGTAGTGTAGATGCAGAGAGCTTAAGGAACATACGCTTCAAAGCGATTTGCGCTCTGGGGGTGCAGGCACACAAGAAGAGTAGCCTCACGTACATCGTGGCCGGCGCAGCGGCGGCGATCGTGTGGAGGCGCGTGTGCTCGTTGCCGGAGCAAGGCCGGCGGCGGGAGCGGAGCCCCTCGCCGACCGCCCACCCGCCGAGATTCTCCGTGTCTACCACTCTCGAGTCTCGAGTGAGTCTCCGATGGTCGAGTCCAACCCCAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.302788
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0360300.2 osa-miR5528 Translation 4.0 7.197 1 21
Osa06LNT0360300.2 osa-miR5537 Cleavage 4.0 22.599 1 22
Osa06LNT0360300.2 osa-miR5825 Cleavage 5.0 12.534 1 24
Osa06LNT0360300.2 osa-miR5837.2 Translation 5.0 11.545 1 21
Osa06LNT0360300.2 osa-miR6254 Cleavage 5.0 14.68 1 21
Osa06LNT0360300.2 osa-miR166a-5p Cleavage 4.0 11.583 1 21
Osa06LNT0360300.2 osa-miR166e-5p Cleavage 4.0 11.583 1 21
Osa06LNT0360300.2 osa-miR171f-5p Cleavage 4.0 10.506 1 21
Osa06LNT0360300.2 osa-miR815a Cleavage 4.5 7.197 1 21
Osa06LNT0360300.2 osa-miR815b Cleavage 4.5 7.197 1 21
Osa06LNT0360300.2 osa-miR815c Cleavage 4.5 7.197 1 21
Osa06LNT0360300.2 osa-miR1428a-5p Cleavage 4.0 14.192 1 21
Osa06LNT0360300.2 osa-miR1849 Cleavage 5.0 17.647 1 21
Osa06LNT0360300.2 osa-miR1853-3p Cleavage 3.0 4.258 1 22
Osa06LNT0360300.2 osa-miR1853-3p Cleavage 5.0 11.08 1 22
Osa06LNT0360300.2 osa-miR1866-3p Cleavage 4.5 23.24 1 22
Osa06LNT0360300.2 osa-miR1871 Cleavage 5.0 14.778 1 24
Osa06LNT0360300.2 osa-miR1876 Cleavage 5.0 16.708 1 24
Osa06LNT0360300.2 osa-miR1876 Cleavage 5.0 21.86 1 24
Osa06LNT0360300.2 osa-miR2098-3p Translation 4.0 24.43 1 20
Osa06LNT0360300.2 osa-miR2098-3p Cleavage 5.0 15.181 1 20
Osa06LNT0360300.2 osa-miR2098-3p Translation 5.0 13.52 1 20
Osa06LNT0360300.2 osa-miR2118a Translation 5.0 23.298 1 22
Osa06LNT0360300.2 osa-miR1863b Cleavage 4.5 23.986 1 24
Osa06LNT0360300.2 osa-miR2928 Translation 4.5 23.843 1 20
Osa06LNT0360300.2 osa-miR5161 Cleavage 4.5 20.267 1 20
Osa06LNT0360300.2 osa-miR5486 Cleavage 3.5 14.528 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0360300.2 6 nan Morphological trait Root RG653 RG433
Osa06LNT0360300.2 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
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