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

>Osa02LNT0148400.1

CCATGATCTTGATAATTAACACAACACACAATTACACAGAACATATTACATGCATCCTCAAAATAGATAATCTTAATTAGCATTTGGGCATCATCATCAAGCATATATATGATCGATGCACCACAATACCACAAGATCATCCTGATTAATGCCGCATTAATAATAATTTACCCCCTGTTGCTACCAATTATATATCCATTAATCCATGCATGAACTCGAGCTGTAAAACTTATTTAGCCACAGTTCGATCGATCGAGCACGAGCCAATTTAATTAATTTCCTCTGCTGTGATTAACTGGTTTAATTAGTTAATTAACTCATTAATTAATTAACTAATTGTGATTACCCGTAGGATAGGTTCCTCGTCTGAGCTCCGGCCATCACCGACGGGCTCCCCAGCTGCGGCGGCCGCCGCGGCGACGGCCTCTCCAGCTTCGACGCCGCCGCCGCGACGTCGTAGCCGCCGCCCTTGCTCCCCGTCGAGTCGCCGGACATGATCGGCTTCGTCTCGTAGACGTCGGCGGCGAGGGAGTCCATGACGTCGATGCCGCCGTCCATCATCGGCGGCGGCGCCATCTGCAGCTGATGATGGCCGCCGCCGCCGCACTTCCCGGCCGGGTCGTCGTCGTCGTCGTCGTCGTCGACGCCCCACATCATCGGGCTCTTCCCGGCGCCGCCGTAATGCCTCGTCTTCGCCGCCGTCTTCCCCAGCGAGCCGCCGCCGTCGCCGCAGGCGAAGAAGCTCTCCATCGTCGACGCCGGCGGCTGCTGCTGCTGCAGGTCGAGGTGGCCGCCGCCGGCGCCGCCGTACATGTGGAGGTCTTGCAGGGAAGGGAAGCCCATGGAGCACACGTCGAGCACCGCCGCCTGGTGGTTGCCTAGGGATTTGTACCCCGCCGGGCCGCACGCCACCGCCGCCGCGACATCGCCGGCGGCGAGCGTCTGATAGGCTTTCTCCAGGATGGACTGCATGTACTTCCCCTGCGCTTCGATCCTCATCTGCAGATGCTTCTGCACCTCTAGTTGCTCATGTAGCCTTCTTTGCACCTCCATCTGCATTCTGATGGCATCGTTCACGTTGCGGTCATGGTTCATGCTTCTGCCCATTATGCCTGAAGAAGATGCTGCGTTTCTTTGCATCTCCATTGCCGCGGCTTCCTTAACTGAGTGCTCGCTGAACTCCTTGTGCGGTTGCTTCCCTAACCTGAATTTCTGGAGATGGCTCTTGAGGTGGTAGAGGGTGAGGCCCTTCACTCCCATCACCCTCATGATCGTCTTGGGCGTCGCCTTGTCGGGGCCGCCGAGCTGGGTGACGGCGTCGACGAAGCGCTCGTGGAGCTCCACCGTCCACCGGAGCCGCGGCTTGGGGTCGGTGGTGAGGACCAGGCCGGAGTCGCCCTGCACGCACATCGCCGCCGCCGCCCTGCCGCCGCCGCCGTCACCCGAGCTCACCGCGGCGCCGCCGCCGCCGCCCTTCTTCGAGCCAGGGAACATTCTTCTATGATCTCCTCTCTTCTTCTTCTCTCTCTAGATCTCTCTCGAATTAATTCTCTCTCTCTATAATAATAATAACTCTCTCTACCTCGTCGATCCTTGATCCTGCCCGATTGGAGACGACAGATTCAAGAACAAGGAATAGGGTTCGCTCGCTCTTCCTCTCTCTCTCTCTCTATCTATGGCTTGATCACACTTGTAGCTCTAGCTTGTGCTCATATGCTCTTTAGTCTCTCTCTCTCTCTAGATGGGTTTCTCTCTCACTCTCTCCTCTTTTGCTTGGGGTGATGGCTTTGCTGCTTCTTCCTTTTTTTTTGTCTGTGTGTGACACAAACTTTCTCTTTCTTTGTTTCTCTCTCTAGCTAGCTAGCTAGCTAGCTAGGAGTCTTCTGCTACAAAGCCCAAGGGTGATATTCTCTATCCTGGCCGGGAAAAAGCCACCAAGGCCGACCCCAACTCCATGCCTTCAACCCCTCCTTTAATTTGCCAAAAGATGAGAGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.719654
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0148400.1 2 4058910 G C
Osa02LNT0148400.1 2 4059521 G C
Osa02LNT0148400.1 2 4058310 T C
Osa02LNT0148400.1 2 4059211 G T
Osa02LNT0148400.1 2 4059965 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
Osa02LNT0148400.1 osa-miR6248 Cleavage 5.0 5.413 1 21
Osa02LNT0148400.1 osa-miR166a-5p Translation 3.5 18.042 1 21
Osa02LNT0148400.1 osa-miR166b-5p Translation 2.5 18.042 1 21
Osa02LNT0148400.1 osa-miR166c-5p Translation 3.5 18.042 1 20
Osa02LNT0148400.1 osa-miR166d-5p Translation 2.0 18.042 1 21
Osa02LNT0148400.1 osa-miR166e-5p Translation 3.5 18.042 1 21
Osa02LNT0148400.1 osa-miR166h-5p Translation 2.5 18.042 1 21
Osa02LNT0148400.1 osa-miR171i-5p Translation 5.0 11.702 1 21
Osa02LNT0148400.1 osa-miR530-3p Cleavage 2.5 20.206 1 21
Osa02LNT0148400.1 osa-miR530-3p Translation 5.0 19.32 1 21
Osa02LNT0148400.1 osa-miR1858a Translation 4.0 16.503 1 21
Osa02LNT0148400.1 osa-miR1858a Translation 5.0 8.943 1 21
Osa02LNT0148400.1 osa-miR1858b Translation 4.0 16.503 1 21
Osa02LNT0148400.1 osa-miR1858b Translation 4.0 12.962 1 21
Osa02LNT0148400.1 osa-miR1858b Translation 5.0 8.943 1 21
Osa02LNT0148400.1 osa-miR1862d Cleavage 4.5 12.746 1 24
Osa02LNT0148400.1 osa-miR1858a Translation 4.0 12.962 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0148400.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
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