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

>Osa02LNT0181600.1

TAATGGTATGCAAGGAAAAAGATGCTAAAATCGCTATTTTATCCGGGCTTACATGTCGTATATAGATTACATACACATAATAGTAGAAAATATCCTAAAAAGCATCGAAATGGAGAACACGGGTACACGCTTCACCCTTGTCAAAAGTTCACATGATACATCACCTGTAATGTAAATAAAGTGTATTGCTCAGATATACAAGTCAGATATATAAGGTATAGCTGAGATAAGAAAAGGAGAAGCTCTTTCGATAAGAGGCAAGCATAAAATCGATGCAAAAAGGAATTGCTTGTATGGAATATAACTATATAGTTCAAACAAATTCGATTCCCTACTGGTCAAACAGAAATGCATTAGTATCGAGCACTACAAGCTCAATGAGTACTACAAATACTGAAGACTAACTTAGCTTCCATGTGACAGGGGGATTTCACTTGTAGTTAAAGTTGTAGTTACAAGGCAAAAACTTGCAATAGTTCCCAATGCTCACATTCTAAATCTTGCACTATCCATTTAATAAAAAATGCCTTGTACATAGAAGAAATAGCTATACAAATCATATGCTCAAACAGATGCTAACAAATCTTACAATAAGAAAGGGGCATGTCTCCTGTACAAAAATGCAAAAGGCATCCCAAAATAAATGTTTCTTGACAATCAAAAAATACCTCTCTGTACCTCACAATGACCATAAAAGTCTTGCCAATCAAATAAGTGTGTCATTACTCATGATCAATACCTTTTTTAGGGGTTAGGACGGTACTATTTGGTGATAGACAGGAGTGTGTTATTCTTTCGGTCGAAGAATAATGTTATATGCTCATAGGTTTATGCCAATTCATAACCAATAACCAGCAGCATCTTCCTTCTAGATTTGTACTTTAGAGTTTAGACAAAATAAAAGTAGTACTAATGAGACCACCTTTATTTCATCTCTTCCATTTTACCTTACAGCTACTTGGATTTTATCTCGAGGGCTTGAGTTTTTAATCTCTGAACCAGAATAAAGTAACACACATATAAGCTTATAGCTTATACTCCATATATGCAATTTATGTAAGATAAGATGAGTAGCCATCTTATGTAAAATGAGCATATCTGATCAGCAAAAGATAAGAAAAATCAACTAAAATGCCACAGAATGTTTACTCAGTGAACAGGAATATATAAACAGATAAAAGTTCTATTATAAGTTTTATAAAATTTTATAAATTTTATAAACTCAAACGAACATCATCACCTAATTAAAACTAGGTGGAAGCACAAGGGTAAGTATGATCAGAATGAGCCTTCCCAGAAGCTGCAGACAACGGCGACCGACCACAACATCATCCACTCCCCGACTCCTCGGGCCGTCAACAATGAAGTATGCAAAATCTGTCTGACAATCTTCACGAACAAATCAAGCATCATATCTGAGAGGGATTTGCAGGACTAATCATCAGATCTGGAAGGTATTTGCAGCCATAAGAGGAGGGGCGAGCAGGGGACGCGTTGTTGGCCGGTGCTGCTCACCCGTCGTCGCTGCGACGAGGCACTGCGGAGGCAGTCGGCGCTTGGGCAAGGAAGGGGCAGCAGGCGCCAGAGGAGAAGGGAAACAGGGTACGGTCGCCCTCACCCGAGACCTGACGCAGGGACGAGCCGGCGAGGAGGGGGCGGCGAGGAGGGAAGGGGTAGCGCCTGGAGTGGGAGGCGCCGCCGGCTCATCTTGAGGCCGGATTTGGCACCGCCGAAGCTGGGGACTGCCGGATCTGTAGCACCAGCGGCGGCGGCGGCTGCGGCGGCGGATGTTGGCTATGCGGCGGTGGTGGCGGCGGAGGATCTCGGTGACGCACTTGTGGAGGGGAGACGGCGAACTTCGTGGGCTATCGCCGAAAAAAAAAAGA

Coding Potentia
Explanation CPC Score
noncoding -1.17786
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0181600.1 2 29716130 T C
Osa02LNT0181600.1 2 29716766 C T
Osa02LNT0181600.1 2 29716934 T C
Osa02LNT0181600.1 2 29717235 A G
Osa02LNT0181600.1 2 29718544 A G
Osa02LNT0181600.1 2 29718772 C T
Osa02LNT0181600.1 2 29717675 A G
Osa02LNT0181600.1 2 29717756 C 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
Osa02LNT0181600.1 osa-miR156j-3p Cleavage 4.0 21.399 1 22
Osa02LNT0181600.1 osa-miR398a Translation 5.0 22.869 1 21
Osa02LNT0181600.1 osa-miR398b Translation 4.0 22.869 1 21
Osa02LNT0181600.1 osa-miR1432-5p Translation 5.0 12.266 1 21
Osa02LNT0181600.1 osa-miR2864.1 Cleavage 4.5 22.897 1 21
Osa02LNT0181600.1 osa-miR5509 Cleavage 5.0 19.637 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0181600.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181600.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181600.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0181600.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0181600.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0181600.1 2 AsS Resistance or Tolerance Other soil stress tolerance RM318 RM450
Osa02LNT0181600.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181600.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181600.1 2 qER-2a Physiological trait Eating quality nan nan
Osa02LNT0181600.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0181600.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0181600.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0181600.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0181600.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0181600.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0181600.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0181600.1 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