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

>Osa08LNT0398800.1

CATGAGAAGAGAACAGGATAGGCCACATGCTAATGCACAACTTCACATGTTTGGTTCTGACATTGCAAATCTCACAATAACTATACTGGGAAAATTTTGCTACATGTTACAGTCCTAAGTTCATCTAGTCCACCTGATGGCTGATGTTCAGAACAAAAGAAAAAAAATACACAAAACATGAGCAGTTTATTCTTGATTACCTCAACCTGAGACCATCAGCAACCTAATCATCAGCTGATTACATGAGTATGATCTTTGACAGAGACAGTCAGGACTAGGAGCTGGTGGCCAAGAAACTAATGCTTTACAATGGTAGTAACAAGCCCTGCTTGAACATGGGAAATGTTCATAGAATGGAGAATTTTTTTCCCCGGATCCATATCAAGCTCTGGCAGTTGAGTTTGTTGGTGATAGGCCAGTCGGTGAGTTGCATGTGTCAGGATCCCGTTTGCCCCTGGATCTCTTCTTTGCTTTGAACCTGGACTTGGCCATCAGCGTGTCCACTGTATTTGCAAAATTACCTATCGCCATTGCGATCAGTAGGACTCCACAGACCACAACCTGCCACTCAGGGACGATGCCTGTATGAGCAGTACGAAGAAGTAAAAATCCAACGTAACCCTCAAAACCCTGCAACAGAAAGAGGACAGGGCATAGTAGCAACAATTGACCTTCAACACCAGCAGTCTCTCCCCACACAACGTCCATTCTTCTAGCCTTTCCTAAAGCAATCCGAGTATATAGTCTTTGGCGTTGATATCTGTTCTGCAACATCATGGCGAAACCTTGCATTATGGCCCAGCACAGAAACAGCTCGACGCCTCTCTGTTTTCGAGAACAATCAGGTTGTCCCTTTATCTCCCATGTTAGACTAATAAGAGACATCAGCATGGCACAATAGTGATGGCACATCCACCAAGGACGGATATCACTTCCATTAACTCGTAATATGTTCTCTCGCAGAGCTAAAGTTGTATACAGAAACAACAACCAAGCCTGGTATAGCTGAACTGGCAATACTGGGAAGCATCCATTCCATAACCATGACCGGAGTACCAACAGAATCATTGGGAAACCAAGAAAAAGCAATGCAGTCCCTGTAGCTATTATACTCTTCCTTCACCTTGAGCTGCACCTCCTTCCTCGGTGCCCGCAGATTTACTGGTCCCAGGAACATCTTCAGGAAAGTACCTTCCAAGCCCAAAAACCAAAGCAAAAATATCAGAATCCCACATCGCCAAAAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.984661
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0398800.1 8 3022703 T C
Osa08LNT0398800.1 8 3023580 T A
Osa08LNT0398800.1 8 3023594 T C
Osa08LNT0398800.1 8 3024579 T C
Osa08LNT0398800.1 8 3024589 C A
Osa08LNT0398800.1 8 3024688 T C
Osa08LNT0398800.1 8 3025335 A G
Osa08LNT0398800.1 8 3025583 A T
Osa08LNT0398800.1 8 3025840 T C
Osa08LNT0398800.1 8 3025123 T G
Osa08LNT0398800.1 8 3023257 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
Osa08LNT0398800.1 osa-miR156j-3p Cleavage 4.5 13.675 1 22
Osa08LNT0398800.1 osa-miR169d Cleavage 4.5 10.599 1 21
Osa08LNT0398800.1 osa-miR169n Cleavage 5.0 10.599 1 21
Osa08LNT0398800.1 osa-miR169o Cleavage 5.0 10.599 1 21
Osa08LNT0398800.1 osa-miR2905 Cleavage 5.0 20.124 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0398800.1 8 nan Resistance or Tolerance Other soil stress tolerance C390 C1121
Osa08LNT0398800.1 8 qDTH8 Physiological trait Flowering R1943 R2976
Osa08LNT0398800.1 8 qPL8 Morphological trait Panicle/flower R1943 R2976
Osa08LNT0398800.1 8 qCTB8 Resistance or Tolerance Cold tolerance nan nan
Osa08LNT0398800.1 8 cl8.1 Morphological trait Dwarf RG20 RG885
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