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

>Osa02LNT0158400.2

TTAGGATAAAAATGATTAGTTTTATTTTACAAGTTATGTTTCCAACAAATAAAGTGTAACTCTGATTACATTTATTTTAGCCAGACTGGCCCAAGAGTAGGCTAAGCAAATTCATTAAGATTATGAGATGGTGTTACAAACTAAGCGTCCACACGAAGTTGTCAAAACCGGTTACAAAGAGCGGGAGAGAAAAAACTACAAAAGGAATAATGCCAATCGTTTTTCGCCTACCATGAAGCCTGCCTCCCTCCAGATTGTGATTTCTTCTTTGATGTCACCAAAGAGCTGCACAACCATACAACTTGCTGAGACAATCTCTGAAGAAGAAGAGTGTACCAAAAACTTTTCTGAGATAATCTCTGAAGCTTCTCCTTGAAGCCATCTGCCAATCAGCCAAGTCTACATTGAGGTCACTGGGAAGCGGAAAGCCAACATTCACCTAGCTCCTGAGCAATCTCCAAATCCTGTTTGTGAAAGCACATTGAACAAAAAGGTTGGGTGTCATCTTGAAATGTCAGGTTGCATAGGGAGCAATTCGCCTGATGAGGCCACCCGTCTGTTGTTTTAGAGCCATTAGACAATCAGAATATGAAGGCATAAAAATACATAAAACGGCATGTACTTCGGAGTATACTCTTATGAAGCTATATAAATTAAAGGATGCGACCACACAAATGAAAATTGAAACCGGATCTAGATCAAAGCTTATCGCAATGCAGTTAATAAGCTGAACATATAATTTACTTCAATACTCCAGCATTTACTATACAAATAGCTCCTAAATACCGTGCGCCAAACAGTGAAATGCCATGGTGAAACATGATAGGATTTTACCAAAATCTCCAGTTGGCCACAATGTCAACCTGTATTATAAACAATAGAAGTAAGCCAATATATTCAGATGCCTTATAGCATTAACAGATACTTTTTGATATCATGATTTCTCTTATTGTTATATATCAGAAACACGTTATAAACCTAATTTACAGTTTTAGTAAAGTAGGGGAACAAAAAAAATCTGACACTTGCATGTATTACATACAGTTTTGACCTTGGTAGCATGTTAATCTGCAAATCTGAACATTATTTGCCACAAATTATGTATATTTTCTTTCCAAACTTAAACAAAACCTGAAACACCATGATGTGATATTCATTGGTAGGAGTACATACTGGTTCTCAAACTTCCTCAGTGCCACTTTTTTTTAAAAAAAAATAGTATTGTACATGGCACCTGGGTAATCTGGCAATAGTTATTGGACAGGACAGATAATTTGAAATTGCTTTTGAAATCTAACCACCCAATCAGTACACCGCAAAATAATATTACAGGTTGTAGTCCGGTACCTAGAATAGTAGCAGAGTGCCGGACTGGGAAAAACCAAACAAAGAAGATATATTCAGAAATACACATATGATCTATTATAATGAAGCAGCAGACCTAATGTATAATAACTTCTAGATCACCTCGATATCTTTTTCTATAAAATGATCCTAATGCTCACTGTAAATAGGTGAATATGGGTTTGGAATCTTTTATTCCTAGGGGAAATATCGAGATAAAGATTTGGAAGATGAGAATCACCTTGGATTTATGCATATCCTTGAAGCGAAGGGGCACATCGCAGTGATCAAGAAGGTAGTCGGCCATCATTTCGTTCCTACTTGTAAATGTAAGATGTGATGACAGGAAATATAGCCAAGAAAGCAAGAAAATCAACTTCTAAAGTGAAATGGAGAATCCAGTTTAATAACCTATGTAATTTGTACAAAAGACACATGATTCCCCACTATGGGAGAGATATTACCAGTGCAGGAAATTAATTGAATGGATTAGCATTCAGAGGGAATCGTGTGATGGATTGGCAGGGATAGTCAACATTCAGTGAGGAATTAAACTGTAAGATGGACCTCGGCTCCGGCGGTGGATGGAGAAGAAAGTGGCTCCGGCGAGGATGCGGCGGCGTGGCGGCAGTACACAGGAGCGAGGAGGAGCGAAGTCACATTCCAGCAATTTTTAACTGATGGCAATACCTCGAACCTCCTCATCTCAGCAAGAAACATATCAAGAGATGGCTTGTCAGTCCTCACGTCTAGATCATCCCCCATGACAACATGGTACATCAGTGCAAGCATCAGTCTTGTTACAACAGCCATTGGTATTCTATCAATTTCATTTGAAAAAAATAATTTCCGGAGGGGAAGATATGTGGTGCATTTAGGGAACGGAAAGAATCCCCTACGATGGTGGATCAGACAGTGGCCTCGTTGGCAGAAGAGTCCAGATCCTCTTACAGAGCAGCGGAGAGGTCCGTGGACTCTCTGTTGCTGAGGCAACTGGCCGGATCTGCTGGGCGCCTTAGCGAGGGACCGGCCATTGCATCCGGCTTCGGGGAAAGAGCTCCATGCGTGAGGTGCCTTGATGTGGTGGCATCGGCGGGGGAAGGCGACGACGCAGGGCTCGACTGTGAAGGGGGATTGGAGAGCGAGCGTGACAGAGGGATGGTTGCCATCCGCCTCTCCCTCTTCACTCTCCCCACCAGTCATCTCCCGCGCGACGGCGCCTCCTCGCCGCTGGGATGGGGCCGTCGGGATGGGGGAGTCCGGTATGAGGGATGGCTGGATCTGTGACGGCGCGGTGGACAGCTGGCCGGGACCGCGCGACGACGACGACGACATGGAACCATCGGCGACGCGGTGGAGGAGGAGGCGGGATGGGGGGGATACTGGAGGGGTCGGGACCGCGCGATGACGACGGCGGCCTGGAGGGAGGAAGCGTCGGGAGGCGCAGCGCGCATCTGAGCAGCGCGAGGAGGCGCGGCGGCGGAGTCATCGCGCGGGGAGAGCGTGGGGGCGTAGATAGCGCGGTGGATTTGTGTGGTGGTGGGATGGCGGAATCGGTGATTTCGCTGTTGGATCAACAGATCGGACGGCTGAGGACAAAGATGATTGGGGGATGATTTGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.94586
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0158400.2 2 11739476 T G
Osa02LNT0158400.2 2 11738770 T A
Osa02LNT0158400.2 2 11739881 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0158400.2 osa-miR167c-3p Cleavage 4.5 20.18 1 23
Osa02LNT0158400.2 osa-miR535-5p Cleavage 5.0 13.184 1 21
Osa02LNT0158400.2 osa-miR810a Translation 5.0 16.999 1 21
Osa02LNT0158400.2 osa-miR2099-3p Translation 5.0 20.748 1 20
Osa02LNT0158400.2 osa-miR5157a-3p Cleavage 4.0 14.78 1 24
Osa02LNT0158400.2 osa-miR5157b-3p Cleavage 4.0 14.78 1 24
Osa02LNT0158400.2 osa-miR5492 Cleavage 4.5 7.331 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0158400.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0158400.2 2 qCTB2a Resistance or Tolerance Cold tolerance RM324 RM301
Osa02LNT0158400.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0158400.2 2 tgw2 Morphological trait Seed RM290 RM550
Osa02LNT0158400.2 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
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