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

>Osa06LNT0356100.1

CAGAACACGTTGCAGATAAAAGTGTCCATGTAGCCAAAGGATGCATTACATATAAATTTGTGTTGTCCCTTCCATTTCGTACCGGGAGAAATGCAGCCTAATTTTTCTGCTATATTACACAGTGAAACCGCATAGTCGCGGAGACAAAAACAGAAAACCTGACAGGTAAAAACATCGGTTTTGCAAATACAGAGTTCTCCAGTAGGTCCCCCTGTTCTCTTTTCGCATGCTACATTATCTTCAGACCTCATTATCTAAGGTTATATATCTTCACACCTCATATCCAGGATTAACCTTCTGTTGCACATCTCCATAGCTTTCCAACTCAAGCATGTCCTCCATGCCTCCCAGGAACAATGGCAGCCTCTGGTGCAGCTTCACAGGCTGAATCGAGAGGATTCTGCTCTTGCCATCTGAACCCCTGCCCCCTGCCTGCTCAGCAAGGAAACTCAGAGGATTTGCTTCATAGACCAACCGAAGGTGATCCCTGGGGTTCATGGCAACTCCACCGTATATCAGCGTCCGGTGGAAATCAGCAACCAGCGAGCACACGTACCGTGCCGAGTACTTCTTCGGATGCTGTCCCTTGCCTTGTCTGATCGTGTCAATGTACTTCCTTAGGCCCTCAGGCCAGTCGAAATACCGCGCATCATTCACCGAATATATCTGTCCTCTTGGGGGTATTTGGATGGAAGGATGTGTTAGAACAAATTCTCCAGTCAAGTGATCCAAGGTGAAGCCATGGGTACCTGCACCGAAGCTGATACAGAATATGGTGGCAGATGAATACAGCACATACCCCGAAGCGACAAGGTGAGTGCCGCTTTGCAGTGAATTGAGCTGAGCTCTCTCCTCTTCAGGTAGATGGTCAAGCTCTGCCAGCCTATTGTATATCCCAAATATTGTTCCGGTGGGAATGGATACCTCAATGTTGCGAGAACCATCAAGCGGATCCGTAACAACAACATACGGGCTGTCGTTGGAAACCCAAATGGGGAGATGATTTTCTTCAGAAGCCATCACTGCAACCTTTCCAGATCTTCGGAGTGATGACAAGATGATCTCATTCTAAATTGAAAAATATGTTAGTCTTGATGTTGTTGGAAGCTATAATGCAAGTTAGTAGCATCAGACAAACAATAACTGTTTTTTTTTGCAAATAGGAAGTGCTTCTGTTGATGGTTCACCACAAATGCAAGTAGTATTTTGTTGAGAATGCAAGAATGAAAATGTGGGGAAAGTCTCTTGTGTGCACTTTGCACAACTTACCTCAAGTAAACTTAATTAGTAAATGAACATTTTACACTCCAAATGAGTGCTACTCCAGCTGCTAAGCGTATGACTGAGATGTGATAACAATCTCACAAAAAATGGACCTATTCTTTTTTTTTTAAAAAAAAGAAGAAGGATGAAATGCATGTAGATAGATGCGAGAACCAGAATGCAGACAATAATAACCCACGCAACCCTGACACTGCACGCACCGACAATTCGTCGAGCGGCTTGGGCGCGTCCCGCCCGGCCGCCACCGCCACACCACCCCCCGCCTTCCCCCGCGACAGCTCGGCGTTCCCGGGCGACGCCACGAGCGCGGCGATGCGCTTGCACGCGCTCTGGACGTGCGCCACGAGGACGACGAGGTCGTCGGCCGCGCCAGCCTGGCCCATGTACTCGAGCAGCGTGGGCGGCGTCTCCGCCGCCGCGGTCGCCGCGGCCATGCCGTCGGCTGCTACGGCACGCGCCCGGGAGACGGGCGAGCGGCGCGCGAGCGGCGAGTGGCGGAGGAGGGGGAGGAGGAGGGCGCGAGAGGGAGGCGGCGGTGGCGGGTAATTTGAAGTTGGCGGGAGCGGAGCGCGGTGGAGGGGGAGGAGGGAGAGAGAGGATAACGGCATAGTGTAGCCAG

Coding Potentia
Explanation CPC Score
noncoding -1.14731
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0356100.1 6 27429612 T C
Osa06LNT0356100.1 6 27430065 A G
Osa06LNT0356100.1 6 27430580 A C
Osa06LNT0356100.1 6 27430593 A T
Osa06LNT0356100.1 6 27430595 A T
Osa06LNT0356100.1 6 27430596 A T
Osa06LNT0356100.1 6 27430796 T C
Osa06LNT0356100.1 6 27430866 A 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
Osa06LNT0356100.1 osa-miR5807 Cleavage 5.0 9.515 1 24
Osa06LNT0356100.1 osa-miR6256 Translation 5.0 15.087 1 22
Osa06LNT0356100.1 osa-miR172d-5p Cleavage 4.5 17.939 1 20
Osa06LNT0356100.1 osa-miR1853-5p Translation 5.0 22.166 1 24
Osa06LNT0356100.1 osa-miR2103 Cleavage 4.5 9.834 1 22
Osa06LNT0356100.1 osa-miR5503 Translation 5.0 17.763 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0356100.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0356100.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0356100.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0356100.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0356100.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0356100.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0356100.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0356100.1 6 nan Morphological trait Culm/leaf RG653 RZ140
Osa06LNT0356100.1 6 nan Resistance or Tolerance Blast resistance RG778 RZ682
Osa06LNT0356100.1 6 ppl6.1 Resistance or Tolerance Drought tolerance RM3 CDO78
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