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

>Osa02LNT0181000.1

GTGAAACAAACGAATTACGTGCTCAACATCACTTCAGTCCAAACAGCCTTGAAGGCTATAAATCGTACTCAGACAGTCGATTTTACTGGTATCCAAATACCCAACTGCAAAACTTTGCCAGTTGATAAGTATCACGTGACATAATATTATATATTTACGCAGTGAAGCCAAACATAGGCGTCTAAAAGACAATCCATTTCCATTAAGCAAAAAAAAGAGACTTGTGTTAACTATTGTTGGGTTCATCGAGAACTGATATTTCAACGTACATATATACAACAGCCAGATTTCATTATTTTGATCACCTTCATAATTTATATATACCAACGTACCAAGCACCCAATGGAATTATGGAAACCAGTGCAATGCTTTCTATGGCAGTTGTCGTATGAGGTGACCACTGAATCGCCGGTATCTCACATGACCTCGTCTTCTTGTACGTAGAGGCCACCGTCCGTCTCGATGGGCATAGAAGGCGGGGTTCCAGGAGGAATGCAGGCAGCCCCGTTAGGGCCTGCCTGATCACATAATGCCTCCGCGTCCTGAATTGCCCGGTCAAGATTTATCTCGCCACTGAGCTCATTGATGAACTTGAGAAGGGTGTCGAAATCCATCTGCTCTCCTATTATCCGCGACCGGTACCTTTTCAGGATCGCGACGCATAAGTAGAGGTGGAAATGTTCTGACCAATAATGTGTCCACAGAACTTCCCACAGCAGCATGATTTGATCGAAACTGAACTCCCTTTTGAATTGTATAAGAACCCAACGAAAACAGAAAAAGTAGTTTAAGCAGTCGTTCTTCCGAAAATAGTTATGTAACTGAGGATCAAGAAGCTCCACGAGCTTGGATAATGCAAGTAACTGAGCATGCATGCCATTCTGATCACGGTTAAAATTGGCTCCTAGTCGTTCCATCAAAATTGCAAAGCACCAAAATGACTCAGACTCATCCTCCATCACATAAAGTATAGGTGCCAGAAAATCACTCATTCCTTGGCAATAGCCAAGGTCGAAATTATAGAAGGAATACGTCAACAGGATATCCCGTAGCACAAGAACATTTTGATTGTCATCTCCTTCATAATATGGAACTGATCTATCTGTCCTCACCACATCTTTGTCGATAAGGCCTTTTCTTTCCCTAAACTTGGTAAATCTTTTAGCTTGTGTGGACGAAATACTCTTCCACTGGGATTTTATGGCTTCATATTCTGTTCTTTTCATGACAGCAAGATATTCCCTCTCGGCATATGTTGAATCGTATTCATGATACCCCAACAGGAATTTCCAGACCTCTTTTCTCAGAACATGGTCAATCCCTCCATAGAAAACCTTTTTCCTCAGCGCCTTCGAATCCATAACTCTACCTTCAGGATCTAAGAAGGATCTCCACTCATCAACACTCAACGGTTGTTCTCTTGGTTTTCCCCACGCTAGAATTTTATTAGACTCCATTGAATCTGACAGCAAAGAATCCTTATCTGGTGTTATTTGCTGATCTTTGTACTTATCATTTGCTCTGTTGTCCAAAACATATTCTTGCTGCTGCCTTCCATAAGTATGACCACCACTACTGTGGTTTTCCCGAAAAAGACTTGACGTGGTATCTCGTGCAAACTTTGTAACCAGAGAAAATTTCTCCAGTACTTGGATAGAAAGATCACGACCCGGATCATTCGATCTGTGCTTTTGCTTTGAGACATATTCAGTCATGCTAGAAGATGCCCCATGTTTGGCATCACTCCCATGTCTGGCTTCATCAACTGAACTAGTGAAACTGAGTGAGTTCTGTCGTGACATGGCATTTGCTACGGTGGCAACACCAGGAAGCTCCAGTGATGACAAACTTTTCTGTAGAGGATCTTGAAAGTCGTTGACAAGAAATACATTAGGATCATCGTCCGACCTGATAATAAAAACATGCTTCTTTAGTGTCGCAAACAATTCACGAAGCCCACCATTGTAGAAATAGAATGGAGGAAAAGCCAATCCTGATGAGAGAACAATGATTATGTACTCGAATCCAAATGTCGGGGTGTGCTTACGGATGAAGCGTACATCACTTAATGGCAAGGCCTTTATAGTGTACAGGTTTCTATATTTTTCTATTTCCATGGTAGCTGAATTGCTTGATAAAGAATCAACTCCCTCATTTGGCTCCCAACTCAGGAACAGGGAGCCCTGCTGCAAGTAGAGGCGCAGCTTCCCGCTGATCCGGCCGGAGCCATACTGCGTCGGGTGGATCGTCACACGCTCCTTCTCGTACACCACATCCACCTTCGCCGTCTCGCCCGACCCTTGATCCACCAGATCGCTCCGCATCGCCGAGTGACTGGAGGACGCGGCGGCGGCGGCGGCGTAGTCGGAGTCGTCGGAGAGGTCGTGGAGGTCCGGTGAGCGCGGGGTCCCAGCCTCGGCGGCGGCGGCGGCGGCGGAGGCTTCTTCTCGACGCATCGGCGGAGGGTAGGGTCTCTGATCGGCTTCTGTTTGGTTAACTCGGATTTAACAGCAAATCCGTCGAATTATCATATAGTAGGCTTTTTCTCCCGATGCAACTCTCCGCACATGCATTTGCTTTAGGCTAGCGTAGATACGCCAAATGAAAGTGAGCACATGCTGCAAACAAACCGTCTCGAAAGAAAAAGAAAATATCACAACAGAACAGAAC

Coding Potentia
Explanation CPC Score
noncoding -1.24903
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0181000.1 2 29373043 A C
Osa02LNT0181000.1 2 29374079 C T
Osa02LNT0181000.1 2 29374669 G A
Osa02LNT0181000.1 2 29375522 A T
Osa02LNT0181000.1 2 29375562 A C
Osa02LNT0181000.1 2 29376310 A G
Osa02LNT0181000.1 2 29376339 A T
Osa02LNT0181000.1 2 29376525 G A
Osa02LNT0181000.1 2 29378028 A C
Osa02LNT0181000.1 2 29378571 C G
Osa02LNT0181000.1 2 29380646 C T
Osa02LNT0181000.1 2 29380676 A G
Osa02LNT0181000.1 2 29381508 A C
Osa02LNT0181000.1 2 29373313 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
Osa02LNT0181000.1 osa-miR5807 Cleavage 3.5 14.246 1 24
Osa02LNT0181000.1 osa-miR5815 Cleavage 5.0 9.858 1 24
Osa02LNT0181000.1 osa-miR5833 Cleavage 5.0 17.551 1 21
Osa02LNT0181000.1 osa-miR166a-5p Translation 5.0 18.399 1 21
Osa02LNT0181000.1 osa-miR166e-5p Translation 5.0 18.399 1 21
Osa02LNT0181000.1 osa-miR1857-5p Cleavage 4.0 17.314 1 21
Osa02LNT0181000.1 osa-miR1428e-3p Translation 5.0 17.913 1 21
Osa02LNT0181000.1 osa-miR2106 Translation 5.0 17.923 1 21
Osa02LNT0181000.1 osa-miR1862f Translation 4.0 8.504 1 20
Osa02LNT0181000.1 osa-miR1862g Translation 4.0 8.504 1 20
Osa02LNT0181000.1 osa-miR5149 Cleavage 5.0 20.721 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0181000.1 2 nan Physiological trait Eating quality RG139 RZ58
Osa02LNT0181000.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0181000.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0181000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0181000.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181000.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0181000.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0181000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0181000.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0181000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0181000.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0181000.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0181000.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0181000.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0181000.1 2 Hd7 Physiological trait Flowering R3393 R2511
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