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

>Osa02LNT0192300.1

CGCAAACTCCTCGAATCATAACTACAGACATGACAGTAAAACATAATACATGATAACAATAGTCCCCGCAAAAAAAAAAAACAATAGCATAATATACATACATATAGGGTAACTTTGGCAAACATGACCAGCATAGTACAATGGAGAAGATAGCAGCTGGCAGATTATTATGGGATTTTTTGACACATAATTACAACCATCATAGGCAGGTTGCCAAGAAACGAAGAGCTTTAGCTATGTAGGCCCTAGCTTCAGCAGTAGAACATGACCCTCTTCACACTATCCTTCAGAGCAGGAAGTGGCTTAACAGCTGCACCACCAGGGGCCCGAGTACGTGATGTTGATGAGCCAGAAAGTGGCCCACGTACACCAGGCCCACTAACGACAGAGCTGCTGTCAGATGTATCTGGTTCCATATAGAAACGAGCACGGAAGGCAGCCAGATGAGCATAATAAGCAGGTGGAACAATTGATACAGAGCGAGTGCACCTTGCATAGGTGTAGCAAAGGTTGTTGGTAAGAATCTGCAATGCATCAGCTGTGAAGTTGTTTTCATCCCACAAGACATGATAATGAGCTGGACGACTAGTACCCTTAATGCCAGCATGGCTACACAGGTAGAAGTCAAACTCAGTTGGATGACAGATCTTTGAATCTACAACCGTACCAGGGAGTATGTTCCCGCTCCTGTCAACTGAGTTCTGATCGTTGTGATTATGTGCAAATAATCTTGTGTGGTGACGTTTCTGAACCACAATGAAAGTCACCTTTGGTTGGTAATTTGTCTCCAGGGAGGCACATGCTTTTCGGATTGCATTCAATTCATAAAGTAGAACTTGGTAAAATTGGCCTTCACTAACGCCATCCCTGTAAAATATTATTCGCTGGGGCTTCTCACCAGTTGATCTTTTGAAGGATATAAGCAGCTCACGGATCATGCCACCACTAACTGTTCCTCTCTGTGGATCCTGCCAGATTTTATATAGATCTTCTATCAGCTCTTGTCGGTGGGCTTGAGCAGAAACCAACCCAGCATACTTTGTCACCTCAGGCCAATCTTGGGAGGCTACAACAGCAGCAATTGAGGGACTGCTGTCCTCTCCAGGATGAGGATGGGTAACATCAGCACCAAATATAATTGTAGGTCTGTCGGTTACCAGAGGAATACGCCTTGACACAGCATCCACCAGCACAGTGTTCCTGCCCCCAACCTTGACATTTATCTTCAGAGCAAGATTTGCAAGAATTTGTTTGTTCATTTTGAACACCTGCTTCGTGCAACAGCATTGTGAAACTATTCCAAGATCTATTTCACACACGCGCTTCAAATCACCATAAAGCGAGCCATTGTTATCAGGTAGTATCCCAATAAGCAAATCAAGTTCCCTGCGCTGGGGTCCAAGAACGTTCATTGCATCATGATACCTAGCTTTTAGAGCACGCTCCACTTGATCTGGATGTGCATTTAGTGGTGGAAGAATAGGTTCTGGAGCGAAATCCATTCCTGAGGCTTGACACATCAGAGCAAGTTCATGGCAGAACCCACGAACAACACTTTCCTGCACATTACGGGCAAAATTGACGCACATCCAGCTTCTGACTTTACCACCATTTACCATTTTCTTGTTCATCATATTCCATTGACCAACTCTTGGTAAGCAATCCTTCTCTCGACCAGTCTCATTGTACTTAAGCCGTGGAGCCGGTAAAATTCGTGCCTCTACTGATGCCAGACGATCACTTATCTTAATGCCAAACTCTTTTGCGTAAGGATCATCCTGATAAGCGTTATGTTTAACCATCTTAATAATATCACGCTCCCGATCACGTGGGTGTTGGCATGTCTCCTCCAAAAGAGCTCTTATCTGATTCTGATTTAATCTCTTGGAGTATCTCTGTCCTTCCACTATTTTGCAGACCTCCATAGGCAGGTAATTTAATCGCTGAACTGTAAGGCATGGAAGGTAGGTGTGTTGGATGGCAAAGCCATATGTCTCTTGAAAGTACTGTACAACTGACTTCACTGTGCCTCCTTCATCAACAGGAAAAGTTAGCTCACGAGTTGGCTGAATTGTCAAACCAGATATCCGGTACTTCCGCCTCATGTTGCCACGGTGGGTAACTTCCACCTTTACTCCTCTCAAGGCTTTCTTGATCTTAACACGTTCGGCATCAGAAAGCGGCCTTGAATGGATGTCAGAATTCAATAGTTGTGCAACAAAATCAATAACAGGTAACGGCTCAATGAAAGCTGTAGCTGACATATCAATATTCAGTGATAAGCCCATCTGAGTAGGCCGAATGCTCTGGTAAAATCCACGCCAGCTTTCCAATCCCTCACCAAGGGGTTGCCTCCTACCCAAGTAAGGCGAAAAGAAGGAACGTCCAAATGGCGCATATCTTGCTGATGGTAGCTCTCGCAGCACAATATCAAGAACTTGCAGTGCCTCCTGTGGAGCTTCTGCGTGCCTCCCAGCTAAAAACAACTCAAGCCGGTGAAGGTCGGCCCGTGCGGCGAACTTGATTACTACTCGGAAAGTCCTCTGTCGCCTCTCAGAACCAGAACCATCATCGTCGTCAAGTAAAGTGATCTGAAACTCCTGTGAAGTAAACGGCAATGGGCCAGCCGTGTATAAGCTCTTTCTACCATCATATGCAGGCAGCCTCCCACCCAGATAAGATGCCTTGTACAGATTTACCAGCTCCTTGATCACAGCTCGGTTAACAATGCGTGATGTAACTTCTGGAGTGATGGAGACCTTGGCTTGTCTTGGACGGGGCGGCGGCGGGGGAGTAGGAGGAGATCGATCGATGGATGGAGAGTTGCAGCTGCAGCTGGCAGGCAGCGAGCGAGGCCGGGCCGAGGAAGGAAGAAGAC

Coding Potentia
Explanation CPC Score
noncoding -1.27938
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0192300.1 2 35761333 A G
Osa02LNT0192300.1 2 35761584 T C
Osa02LNT0192300.1 2 35764415 A C
Osa02LNT0192300.1 2 35764513 C T
Osa02LNT0192300.1 2 35764674 T G
Osa02LNT0192300.1 2 35764786 A G
Osa02LNT0192300.1 2 35765747 A T
Osa02LNT0192300.1 2 35768193 A C
Osa02LNT0192300.1 2 35768370 C G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0192300.1 osa-miR169a Translation 4.0 17.989 1 21
Osa02LNT0192300.1 osa-miR396c-3p Cleavage 2.5 23.579 1 21
Osa02LNT0192300.1 osa-miR169b Translation 4.0 17.989 1 21
Osa02LNT0192300.1 osa-miR169c Translation 4.0 17.989 1 21
Osa02LNT0192300.1 osa-miR169e Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169f.1 Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169g Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169h Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169i-5p.1 Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169j Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169k Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169l Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR169m Translation 4.5 17.989 1 21
Osa02LNT0192300.1 osa-miR396e-3p Cleavage 4.5 11.972 1 24
Osa02LNT0192300.1 osa-miR1860-3p Cleavage 4.5 18.435 1 22
Osa02LNT0192300.1 osa-miR2867-5p Translation 4.0 24.581 1 22
Osa02LNT0192300.1 osa-miR2879 Cleavage 4.5 18.593 1 24
Osa02LNT0192300.1 osa-miR5152-3p Translation 5.0 21.105 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0192300.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192300.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192300.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192300.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192300.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192300.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0192300.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192300.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192300.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0192300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0192300.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0192300.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0192300.1 2 nan Morphological trait Seed C747 C1445
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