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

>Osa04LNT0287800.3

CAAAACCTAAAGCCATCTTTTTGTTGGTTTTATCAACACGATCTTCCAACTATGCAATAATACATAAGGTGCCCTCCTAACTCTCCAAAGTGGAAAAACATACAAGGTACCCTTCCGAAAAATATATTGACGACCAATCAGAGAGAACAAAACAGGACAGGGGAACACCTCCAGCCATCCAAATATTTACAGTCACTTGTGTGCGTGTTACTCACTCCCGAATCAAGTGTCTGGTGTATTCATTTCGCTGGATACCCAACCAGGTACAACAACAGCAACTCGCTCGCCCGTTGCGCATACCCCCGCAAGCAGCTGCAGGCCTCAATTTCCGGTGCTTTCAACAGCTTTCAACTCGGGCAGGTAGGCAGGCGGGCAGACAATCAGATCACTGGAAAACAATCTCGCTGGAAGAAAGAAACGCCGGGACTGTTCCTGGCGCTCGCTCACTCGGTGCGGCAACTTAGCCTTCTTCATGGTACACGAAACTTGGGCGGCGGAGCTCCAGCCATCTGCTCTTTTTTTTCCTTTTCAAGTCCTTGTTTTCGTGTATGTTTATACTAGCTTCGCGGTTCTTGCTTCATATGAGAGGTTTGCGTTACGCCATACGAAGGAACCATTCTGTCCAGCTGAAGAAGTGAACTCAGATGGTCTTCGTTTACTTGCACTGGCAATTGGGGCATCTGGCCCATGATACCAGGCGTCTCGCTCATTCTGCTTAAAATATTTTTGAAGTTGTTGTTTGTCCGAAAAAAGAGATCCGTGTTCTCTCCCGTCTTGAATGTTTCGATATTTGTGGCGATTTGGTTGAGTAAATGATTGTTTTCTTCCAGGAGATGCTGTGTTGCACTATCCACGACAGGAACTTCTACATAATGGAACCAGATGAGTGTTTTGGGAGAAATAAGACATCATAAGATGCATGCAGTTGCATTGCATGAGATAGTTGTAGGTATCTAAAATGATAATGAAACCCAAGGTGTTTTATTACATTATGTTCCTAAAGTTTACGGTGAAAGATAATGAAAGGATGAAAGGCAAACACAAAGAATATAAACAGGAGGGTGCAACGCAACACCCTTTTCCTTTACTATGGGATGTATGAACCTTTCCTCCATCATAGACCTATAAACGGACAAAACTACATGATCATCAAATACAGCAACCCCCATTCTTTTGCAGTTGTGGATTTCTAGCATCCGATGATATCAGTAAGCTTGTATCACGAAATAATAGTAAAGCTAACAATTGCTATTTTCCAAGGTATTTCACAAGAAAAAAACAGTTTCTAAAGATGTTACCAAGGATTCATAATCATATATAAAAGATTGCTTAGCATGGAAATTGGAAACACTGCTACTTGCTTGTGTTTTGTCCTAGATCTTTCTTGTATTTGCACGGGGATCTATAGGTGACACAATCTTAATACAGCATGCGCACCACATAAAGGCATCTGAAGTTTGCTTCCAGAGGATGCTTCTACTGACTACAAATGTAGTAAGCAGCCTCAAGAACACAAGCAATTTGAGTTTGTTAGGAATTCTTGGAAGAGCATTAAAATCTACTCATATGGTATGTATATGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACACACACACACACTTAATGTTAGCCCAACAATGTAAGTGTGTGAACCACGTTTCTATGATGAAATTAAACAGAGGGAAACACTGAGTCTCAAGTTGTTTTTTTAACATGGGTCTTAAGTTTTGATGTTTACCTCACTATCTAACAGACCTAAAGTTTTCACAATTTTAGAACACACTGTGGGTCAAACCTCAAACTTGTAGTACAGAATAAAGATGAACTAAAACAGCTGAACAGAAGAAAGCAAACATATAGATGTTAATGTTATTGCTGTGGTCTTGCCTTCCTTAGGAACCTGACATTGCTGATTTGTATGTTGCATCGATATTGAGAAAGGGGTCACAGTGTTTGCAGGTGCCAGGTGAAAATTAGCCATGGAGGCAGATGCAACCATCTTGTCCTGGATTGGCTTCATGTCTCTTATCTTTTTCCCTGTATAAAATCCATCAGGTTTCTTCCTTCTATCTTTACTCTGTAACAGTAAACGAATGTGAGCAGAATACAGTGCATGAGCTGCTATACTAATGCAAGCCAGTAAACAAATAACCTGTTGGAGGAGCAATGTAAGAGAAAACAATGCATGCAGCAACAGCTAAATATCAACTACATGCATCATGGTGGCTATTTCCAAATTTTACGGGAGGCACAAAAGCTTTGTACATTTTGGTATTAACGGGAGTAAACAAACAAAGTAAACAAAGTATCTATTTCCAGTCTGAAACCACAATGAACAGCTTTGTATTAAGAATAAAACAAACAAACAAAGTGTCTATTTCAGCCAGGGCAGGTCATTATTATGGCCTTAAATGCTGTGTATACTTGATATGCCTGTTGGAATTGATCGTTTGCTAGAACTTTAAAAGCTGTATACTCCAAGTTACAATACGGGTGTGTTTAGTTCACGCCAAAATTGAAAGTTTGATTGAAATTGGAATGATATGACGGAAAAGTTGGAAGTTTGTGTGTGTAGGGAAGTTTTGATGTGATGGAAAAGTTGGAAGTTTGAAGAAAAAGTTTGGGACTAAAGTCAGCCTACATCTAGAATGTAATTGGCAGATGGCAAATTATCACATCAGTCACAAAAGGAAATAAAGGATTATAAAAAGTAAAATTAAATATATGAAGCGCTTAAGCACCTCTATCAAAAAGTCAAAAGAGCAATGTGGTGAGGGTGCTAGGTGGTGTCAATTTTGGTCTTCAGTGTACATCTGACTTAATTTTTAGCGAAGTTAAGAAGTTCTTCTACCCAATTTGCACATGACCAGAATCAACATATATGTTAACAAGGAAACAGAAGAGATAATGTGACATTTGAAAAGAGTAACTTAACTGTAGCCCACCAACACCGCAATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATTTTTATGTACTTCATGATATTCGGTTCGCGAGCATATCTCACAAGCCCTTCCTTCAGTGTGTTCAGCTCACGGTCATTCCAATCTGAAGGCGAACCAGTGACGAACTTGTACTTGGGCGCCACCGTGCTACTGAACGCATCCCCCGACGAGCTCCTCGACGGGCCGGCCACCGATGCGTTGCCCAGCACACCGGTGTTCGGAGAGACGAACAGCCCAGCGCTGCTACTAGTCCCGTTCATGCTCCTCGGGGCCATCACCATACCGGCCGCAGCGCCGGCGCCACCGCCCAAGTCGCTGTTAGATTGGAAGGAGAGCATGTGATGGTTGTACATCGAGGCCGTGATCCCCTGATGGAATCCCATGCTGGAATCGGCGGCCATCTCACAGAAACAACCAAAATTCTCGATCTAATCCTCCATAAACACGCCCCAAATCCTCAGGGCGCTCAATTTGGATCAAACCTGCACAAATCGAGCCAGGAAAAAAATCTCACCCAATTGAAACGAAACGAGTAACTGACAGAGAACGACTTTTTTTTTTCAGCAGAGGATCGAAAAGCTCGACGAATCCCACGAACTCCAGCACGATCACCAAGGGAATTCCTCCCTCGAGAGTCGTGCACGCGTCACACTCAGCTTCGCATTCCCGACTCCCGAGGAGGATCCGATCGAGAGGCCCT

Coding Potentia
Explanation CPC Score
noncoding -1.13047
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0287800.3 4 34347104 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
Osa04LNT0287800.3 osa-miR5528 Cleavage 4.0 9.017 1 19
Osa04LNT0287800.3 osa-miR5812 Cleavage 4.0 11.69 1 24
Osa04LNT0287800.3 osa-miR160a-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.3 osa-miR160b-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.3 osa-miR160c-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.3 osa-miR160c-3p Cleavage 4.5 11.136 1 21
Osa04LNT0287800.3 osa-miR160d-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.3 osa-miR395f Translation 4.5 14.81 1 21
Osa04LNT0287800.3 osa-miR160e-5p Translation 5.0 20.913 1 21
Osa04LNT0287800.3 osa-miR166k-5p Translation 3.5 11.336 1 21
Osa04LNT0287800.3 osa-miR444a-5p Translation 4.5 16.112 1 21
Osa04LNT0287800.3 osa-miR1429-5p Translation 5.0 17.019 1 21
Osa04LNT0287800.3 osa-miR1850.2 Cleavage 4.5 18.792 1 21
Osa04LNT0287800.3 osa-miR1852 Translation 5.0 18.699 1 21
Osa04LNT0287800.3 osa-miR1874-3p Cleavage 4.5 16.926 1 24
Osa04LNT0287800.3 osa-miR2871a-3p Cleavage 4.0 6.036 1 21
Osa04LNT0287800.3 osa-miR2871b Cleavage 4.0 6.036 1 21
Osa04LNT0287800.3 osa-miR2878-3p Cleavage 4.5 10.562 1 24
Osa04LNT0287800.3 osa-miR1863c Cleavage 4.0 18.338 1 24
Osa04LNT0287800.3 osa-miR5499 Translation 3.0 10.331 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0287800.3 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0287800.3 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0287800.3 4 nan Resistance or Tolerance Drought tolerance RG143 RG620
Osa04LNT0287800.3 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
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