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

>Osa02LNT0181400.1

GCAGAAACTCTCTGACCTTCCTACTGATCCAACTAACCCGCAACTGCAAGGCTGCAACGCAAACGTCCATAATATGTACTGTTTTTTTTCCCTCCCTCTTACCGCGTCATAGACAAAATGTCCGTGCAACAGCGATCGTGACTCCATCCGGAAAGAAGAAAAATAGTAGGCCGGTTTGTTGCTCGGCATGTCACTGTATAATCTGCAGGCGAATGGCTATTACCTCCACATTAAAAAATTGGAATCCTGAAGGTTAGAACATGTGCTGGTGTGGCTCCAGTGATGTTTTTGTCTCTGTGCAGAAGGAACGGGCTAACCCGCAACTGCAAGGCTGCAACGCAAACGTCCATAATATGTACTGTTTTTTTTCCCTCCCTCTTACCGCGTCATAGACAAAATGTCCGTGCAACAGCGATCGTGACTCCATCCGGAAAGAAGAAAAATAGTAGGCCGGTTTGTTGCTCGGCATGTCACTGTATAATCTCCACATTAAAAAATTGGAATCCTGAAGGTTAGAACATGTGCTGGTGTGGCTCCAGTGATGTTTTTGTCTCTGTGCAGAAGGAACGGGCTAATCTCTCGTCATACCGATCGGCCGGTCAATGGTCAATTTTCATTTGCTCCCAGCGTTGCGCCTTCCTCTATCCCTAAAGTGTCTGGATTAGGGAAATTCCTTCGCATGGACCCTTCTGCGAAGCCTGCTGGATAGGCATTATCTTTCGAGGTAGCTCTCATCTGGAGTCCGGACCTGGAGGTGCCTTTCACTGCTCTGGCCGGCAAATCCTTGGTACGAGAACATGAATGTACCATAGCCCAGAAATTCAGCAGGTTTTGTAGTTCTCTAATACAAATTGCTTCTCTTCTTCTTGAGTTAAATGTCAGGTACTGCCTCTCAACTAAGAAGAGTTGACAGCTTGACATGTTTATGTCCAAGGCATCACTTGAGAAATTACCTTGCTTCACCTGTGTCGTTTATCTTTACCTCTGAATACAAATAGACAAGCCCCCTTTCATTTTGTGATTACATGACACACCTTTTAATTAATACTGGGGAGATTGGTAAGCAACATCAGCAATAATTTGAATTATTGATTTTTTAAGTAAATAATTGGAACAAAGATGAAAATTAAAACATGTAGGAAAACTACATTTCTTATTAACAAAACAGATAAAAAGCACACAAATTGGATCAAAGTATTAAACAACTCGAACCAAGGTGGTGGTCTGGTGGAGATGTACACTCCACCGAGTTAAAATTAGTTCTACCGAATACCTGGTATAGTCCTGCTTGTACACTTTCAGTACATTTTACTGAAATATCAGGAAGACTGATCAGTAATCCTCACAGAACATGAATCAGTTGTACTTATTTATTCAGAGTCCATTTAAACTGAGCAAAGAACCAACTAGTAATGTGCAACTGGTTGATTTATATAATAATAAGAGGCAACAATTTCCCTTGTGAACACAACTGAATTGTCTCAGTTTAACTAAGCCTGTGGAGTCATACCTTTAGGAAGTCACCATAAATGATGCAACCAAATCTGTACTATTTCATATGAACAGGAGAATAAAGTCAGCATGGCATATTTAATCAACTGATTTCTTCAATAATGAGGTACCCACACGCGTAATTAATTAGATTTCTCTCTGAGCAAGTGTTTCAGTGATATAGTATTTTTGTCATCTAACCATAAAACTTAAAAAATAACATACTTTCAGTGATTCCATCCAATTAATCCCGCTCAGTTCAAGCAAAATCACAGCATACATGACAAACACTTGTTTTTTTTGCAAAAGGTCTCTTCTGAAAATAATTTATCAAGAAAGGTCAACAAACCAATGAAATGAAGATGCACATCGATCAAAAATGACTAGATCACCTGCTTCTTTTGATTTCGGTATCTTGATGGCTTGGCATCAAGAAAAAGCATGTGACTGGTGTCATTTTTTTTATTAAAAAAAACAGTAGTCTATGGTAGTTGGTTGCCACAGTGGTATCAGGAGGAAATATGGTAAAAAGTTCTGCATTTCAGTCTTTCAGTTGAAAAGTGTTTTAGAGCCCAGTGCACTCACTTCTTAAGAGCTGCCGATTTACTGCTTCAACAAGATTAACATCGTTGAAGGGTTGAATCATACAAAAAAAACAAGGATAAGCTTGGCTACTTTGTCATCCTAGTCACCTAATTATTATAACACTGCTCAGACATAAGAGCTGCAAGCGTATGCAGCTTGTGTCACAATTGTATCACGAATAAGCAAGTAGTCAAATCAATCTTATATGGCCAATTAGCTTTTGTCCTGTGCATTACCTAATGTCTCGTATATTAGAAAAAAAAAAGAGGATCTTATCATCAACTACCATTGAAACAGCAAATAGCCACGTTCGATTATACCAAACTCAAAGTTTCATAACGGACGTAGCTAATGAGCAGTTGAGTCCAGCAACCATTAAAAAGGCCATGCTAATTTAGTACTATTCATGTCAATTTGTAGTTAAATGCGTCCAAGCAGCAGAGGAAATCAACCCGCCGCGAGGCACAAGTCAATGTCGCGACATGCCACCAACCTGAACAGCGCGATACTGCCGAGCATCACATCCAGATTTTATGCAGTCCAACGGAAGAAATTGCTGAGATAAACGCGTGATTCTAGAGTGAAAGCGCAATACCTGAAAACGACACTGGAATTTGATCATTTGAACCGCTGGTCACACATCGATGCCCAGCCGGGCAATTCGACGAACACCGCAGGGGCATGAAGAGGCAGAGGAGCAGCGGCGTGCGGAAGAGATGAGAGACGAACAAATCCGCGGAGAAGTTGACGCC

Coding Potentia
Explanation CPC Score
noncoding -1.27185
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0181400.1 2 29524220 C T
Osa02LNT0181400.1 2 29524820 T G
Osa02LNT0181400.1 2 29526041 G A
Osa02LNT0181400.1 2 29526077 G C
Osa02LNT0181400.1 2 29526232 T A
Osa02LNT0181400.1 2 29526940 G A
Osa02LNT0181400.1 2 29527059 G A
Osa02LNT0181400.1 2 29527473 C T
Osa02LNT0181400.1 2 29527681 T A
Osa02LNT0181400.1 2 29527703 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
Osa02LNT0181400.1 osa-miR5817 Cleavage 5.0 17.957 1 24
Osa02LNT0181400.1 osa-miR5516b Cleavage 5.0 15.473 1 21
Osa02LNT0181400.1 osa-miR1437b-5p Cleavage 4.5 12.654 1 21
Osa02LNT0181400.1 osa-miR1437b-5p Cleavage 4.5 18.972 1 21
Osa02LNT0181400.1 osa-miR7695-5p Cleavage 5.0 21.121 1 24
Osa02LNT0181400.1 osa-miR169f.2 Cleavage 4.5 12.615 1 21
Osa02LNT0181400.1 osa-miR418 Translation 4.0 11.203 1 21
Osa02LNT0181400.1 osa-miR396e-5p Cleavage 2.5 15.692 1 21
Osa02LNT0181400.1 osa-miR1431 Cleavage 4.5 21.169 1 21
Osa02LNT0181400.1 osa-miR444d.3 Cleavage 5.0 10.87 1 21
Osa02LNT0181400.1 osa-miR1847.1 Cleavage 5.0 11.208 1 21
Osa02LNT0181400.1 osa-miR1847.1 Cleavage 5.0 21.547 1 21
Osa02LNT0181400.1 osa-miR1878 Cleavage 3.5 19.822 1 24
Osa02LNT0181400.1 osa-miR396f-5p Cleavage 3.5 16.041 1 22
Osa02LNT0181400.1 osa-miR396g Cleavage 2.5 15.692 1 21
Osa02LNT0181400.1 osa-miR396h Cleavage 2.5 15.692 1 21
Osa02LNT0181400.1 osa-miR396d Cleavage 2.5 15.692 1 21
Osa02LNT0181400.1 osa-miR2919 Cleavage 3.0 16.965 1 19
Osa02LNT0181400.1 osa-miR2919 Cleavage 3.0 19.556 1 19
Osa02LNT0181400.1 osa-miR5507 Translation 5.0 20.102 1 21
Osa02LNT0181400.1 osa-miR5516a Cleavage 5.0 15.473 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0181400.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0181400.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0181400.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0181400.1 2 nan Physiological trait Eating quality RG139 RZ58
Osa02LNT0181400.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0181400.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0181400.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0181400.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181400.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181400.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0181400.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0181400.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0181400.1 2 AsS Resistance or Tolerance Other soil stress tolerance RM318 RM450
Osa02LNT0181400.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181400.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181400.1 2 qER-2a Physiological trait Eating quality nan nan
Osa02LNT0181400.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0181400.1 2 nan Physiological trait Eating quality 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