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

>Osa02LNT0165100.1

CTCTGTGTTTACAAAGTGCACCAATAGCACTCCTTACAAAAATCTTGACAAAACTCAAAACCCTAACTAAACAATCAACTCAATTGCTCTCAAAGCGATACTGGGAAGCCTCACGCTCCCTCTCTATTTATACATGAGGTAGGCAGCCTAAAGCCACGAACCAAACTCATACTAGAAGTCCTAATCCCCATAGGAAACCTCCTAGTACAAGAAACAAACTTTAAATAACCAATCATACCAAATTTGGACTCCTTCCAAATTCGACTCCGCATCCCATACGCACACAATACCTCCGTCGTATGCCATATGGAATCTTCACCAACCACGTGCATCAACTCTAACCTAAGTATCCTGCATGATATCTGACCACCACGGACATCGTCTTTCCACCAAGCTGACTCCCGATCCATCACCGCAAATACTCTCCCGAGGCATCGAGTCACCTACATATGCAATAAATAAAGAAACCATATTCCGATACCAAGCTATCCCCAACTTGACTCATTGTTAGCAAACAACAGTATCATATATGTATAGTATCCATCTAGAAGCCATAAACATGAAACAATCACAGATATCCAAAGAAACAACCCGAAACCAAAACCGACACAGCGTCGGCCGGTCAGACCGCGGGCTGGCCGGTCTGACCATTCACATAGCGCCGGTCTGACCGGCAGCACCTGCCCGGTTTGACCGGACCCGACAAAACAGCAACCCTGTTCATTACGTGAAAATCAATCATCTTCAAAACCACTTCGACAATAATCTCCAAATATCAAAACCAATAATCACAGATGCCAATTGTTCATCACATAATAAGAATCAAAACACACGTTCATCTTACAATCTCCCCCTTGATGAACACATTGGCAAACCCATCAAAAACATTTTGTTGTTTGGAAAAATAAAAACAAAAGTGGTAAAAAGCTGGTAAAAAGCACACTTTGTACAAATGTACACATCGTGCTCAAAAATCCAAAAGAAAACTTCTCTCACTTTCCCGTGAATCAAAAAACATGCTGTTCTCAAAAACTCTTCTCTTCTCTCCCTTTTGACAATGATTTCATCAAGCATAGGAATTATGTTTATTAATCTTTAAGAGCTTAGCATACATATAGCATATCAAGTCATGTGTTGCAATAAAAAGAAGATGAACCCATCTATAATATAACAAGCATGCATTAAAGTATAATCATGAACCGAAGATTTTACAATTAAGTTTGAATCAACAATCAAAATTCATGATTTCATACGATTTATAATGCAACATCTTTACAAGCACATAGGTTGAAGAATAAACACTAAACATATATACCTATTGCATTTATCACTCTTTCTCAAATTAGCTTTAGCACAAAACAACCAAGAGAATTTTTTAACTTTTTCTTTTCTTGAGCCTTTTTGCTTATTTTTTTCTCAATTATTCCGGGTACGTCCCTATCGTCAAGACTGTTTCCAGGGATTCGGCACCCATTATTTTTGCTCACATCGAATACGTCCTTGTCGTGAAGACTGTTTCCAAGGATTCGGTATTCATTTTTTTCATTTTTATTCTCTATGCACAATGAGCAATTACAAAGCTATTTGAGGAATAATAATTCAATAAAGCATTTATAGATCAAACCATATGCTAGCATCAATATTGCATATTTGCTTAATTCAAGTAGAATGTAAGTGTCATGCATCATCTCCCTTAAAAGCAATATCTAAACCTCATAAAAAGACTAGAATACATACAAGCTATGCTAGAGACAAATAAACCTTCATAGTATTGCTAGCATGCACAAGAAAATACCATATGTATGGAACAAAGCTCTTTTTTTTTTAATTTTTCTCATTGTCATATTTTTGCTTGATAAAACCATGAGGTACGAAAAACTCCCCCTCAAACAATGCCAAAAGGATTCACGAAAAAAAACACAAACTCCCCCCTCAAATTAACCTCTAATTCTCCCCGAAGAAAAATCAAGAAGAAATCAAAGATTTTGAAAAAGACATCCAATTGCCAATGAAACCACCAAGATTCTTATGAATTGATATTCAACCACTCGTATAAACCAAAACCACTACCTCAAACACTAGCACTTGAAAAGCTAATAAACGAGGAAGTAAAACCAAAGTTATATCAATCAAAAGTAAATTGATGTTACCTTGAAAGCAATCGTCATCTCAACATTGAACGCTCATGGGGAGTATGCCATCAAAATACCTATGAACAAAAAGATGTCGAGGCCTCCGTGTTGGGGTTAGAAATGTAACTACCCCAGGTAACCACGTACCTAGAATGCCACACCAAAATACACTCAAAAACTAAGTCCTAAAATTATTAGAAATTTCGGCAAAATCTCCCCTAAAAATACGGACATCACGACAGGCAGTTATAAGAAAGGTCAATACCGATATAAGCCACACAATCCAAACCATCCTAGCTCCACAAATCCCACGTGAAAAATAAGGATCAGAACCTTAAATGACCTTTACAAGTTCTATGCAAAACTTTTGCTGAGCAAAAAATAGTCTAAAACTAATTTCAATTGTGTGCAATAATAATGTGTAGTCCAAGGGTGCTACTCCCGCCCCATGCCGATCGATGTCATTAGGTACCTTAACTCCTTCGATACTCCGACTCAACTCCTCCAACGTTGGAACCCTTCACACCTAGCAGTACTAATGTATAAGAAAAACGAAGAATTTGGAAATATTCACCAAATTCCCCAAATTTCCCTTCTTCTATCAAATTTCCCCTTCTTTCCTTCCTTCCTGTTCTTCTCTGCCTTCTCTCCCTCCTTCCAACGACCGGCTGTGGACGACGACGGCTGTGGCGACCGGCGACGGCTGCACCAGCGGCGGCGCCGGCGAAGACAGGAATAGCAGCGGCAGCGGCAGAGCGCACGAGGTGCGGCGGCTAGGGCTACAGTAGCGATTCTCCTGTTTTTTTTTTCGTTTGTTT

Coding Potentia
Explanation CPC Score
noncoding -1.08216
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
Osa02LNT0165100.1 osa-miR5797 Cleavage 3.5 8.636 1 21
Osa02LNT0165100.1 osa-miR2873c Cleavage 5.0 12.181 1 21
Osa02LNT0165100.1 osa-miR5512b Cleavage 5.0 8.582 1 21
Osa02LNT0165100.1 osa-miR7694-3p Cleavage 5.0 14.406 1 22
Osa02LNT0165100.1 osa-miR437 Cleavage 4.5 11.626 1 21
Osa02LNT0165100.1 osa-miR1866-5p Cleavage 3.5 8.771 1 24
Osa02LNT0165100.1 osa-miR1866-5p Translation 5.0 8.156 1 24
Osa02LNT0165100.1 osa-miR1882a Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882b Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882c Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882d Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882e-5p Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882f Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882g Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR1882h Cleavage 2.5 15.323 1 24
Osa02LNT0165100.1 osa-miR2095-5p Cleavage 5.0 6.327 1 22
Osa02LNT0165100.1 osa-miR2866 Translation 5.0 12.242 1 20
Osa02LNT0165100.1 osa-miR2868 Translation 4.5 12.505 1 20
Osa02LNT0165100.1 osa-miR2922 Translation 5.0 14.534 1 20
Osa02LNT0165100.1 osa-miR5512a Cleavage 5.0 8.582 1 21
Osa02LNT0165100.1 osa-miR5524 Translation 4.0 19.263 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0165100.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0165100.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0165100.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0165100.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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