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

>Osa08LNT0401400.1

CCGCATTATTAGAAGTAATAATAGTATGCTGCTATTTGCAAGATGTTTGATTTGTAGCAAATTTATCATGCAATTTGCTGGGTGTCCCCCTTCTTCTGAGATGTAAAATAACATGGCCAGACAAACCCATACCGCCGTCTCGTGTTTGCTCAATATTTGCAGTTAAAACATCAACGATTTTAACTGGTAAAACTAAACAGTTTGCTACATGACATCTGAATACTGGATCAACATCATACTGCGTCGCTACAATATATCTACTAGCCTGAAGAGATCTCCGGTCAGTCCTCGTCCAGCAAATCAAGAGCAGGTATTCGTCGAAAGCGTCCTCCATGCCTTTGGTCTGATGAGATGCTGGGTGATCTTGCCTCAATTCTTCTCTTCTTGGGTGTGGAGTATTCTCCTGTTATTGATTCAAAGAGCTCTCCCATATTCGCCAAGTTGGGCCTCTTCCTGTCAGCCTCCTCTTTCAGGAAACTTTCTCGGATGATTTTAAATGCTTCCTTTGTTGCATATGGCAACCCCGTCTTTGGGTCACGGTATTTGGCAGGAAGTCCAGTTACAGCACAAATAGATTTCTCTGGATAAGGAGCTGAGGTTGTACAAAGTTCTGACCCAAATGATGCCCCGTTGATGAATTCCAAGCGTGACTCCCCATCTCTTGAGCAAAACCGAATCGTAGGACCCTCATAAACAGCTTTATGAACAACGGCTTTTTTCTTAACCTCCTCCTCTCTTGCCAATACACGTTCAAGATTTCTCAGGTTGATGATCTCTGTTTCAGCTGCTTCCAACAGCATCTCTTCTTGTGTCATACGCTTTTCTTCTCCCTCCTTTTTCTTCTTAATAACAGGCTTCATCGTTGCTTCTTTCTCAGCACGTATTGCCTCCCTCTCAGCTTGTCTGACGATGACAGATGTTCTAGTTGATTTCCTGATGGTCTTTTCACCGGTCTCCAGTTCATCAGGAATGTCTGTTTGCTTAGATGGACTTTGCTGATCTGAATACTTGTCAGTTTTGGAATCATCTTCCAGCTTTGGGACCACCTTCTTCTTCTTCTTGGCATTGATTTTTTTCATAGTCTTCCCAGGGAATATGAGTCGCTTTTTGATAGGTAATCTCTCACGTACTTCCTTTTCCGGTTCATCATCAGGTTCCGACTCATCTTCACCAAAATCACTGTCGAATTCATCACCAGCATCCTGCTCTTCCTCGTAGTTGTCATCTTCTTCATCCTCCTTGAGGGCGTCCTGATTCCAGAAGACCTCGTCCTGCTCAACCTCATCTTCGAGGAGCTTGGTTATCCTCTTCCCACGGGTGGCACGAGAGGCGCGGTCGAGGAGGACGGGCGGATCCTCGTCGGCGAGGTCGGCCATGGCGGCGGCGGCGGCGAGACGGCAAGAAAGTCAACGAAGAAGCAAAGGTGGGCCGCAGCGCACGTCGGCGGAGGCGGCGGCGCCGGCGAGGAAGGCCCGCGTGGGCGGCGGGTTGGCGGCGGCGGAGGTGGGCGGTGGCGGTGGCGGTGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.648561
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0401400.1 8 5402296 A G
Osa08LNT0401400.1 8 5402309 T C
Osa08LNT0401400.1 8 5402403 C T
Osa08LNT0401400.1 8 5401326 T C
Osa08LNT0401400.1 8 5402405 C G
Osa08LNT0401400.1 8 5401850 A T
Osa08LNT0401400.1 8 5402868 T C
Osa08LNT0401400.1 8 5404447 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
Osa08LNT0401400.1 osa-miR5542 Cleavage 4.0 14.449 1 21
Osa08LNT0401400.1 osa-miR535-5p Translation 5.0 8.082 1 21
Osa08LNT0401400.1 osa-miR2106 Cleavage 3.5 20.103 1 21
Osa08LNT0401400.1 osa-miR2919 Cleavage 3.5 4.019 1 19
Osa08LNT0401400.1 osa-miR2919 Cleavage 5.0 12.237 1 19
Osa08LNT0401400.1 osa-miR2921 Translation 4.5 17.154 1 24
Osa08LNT0401400.1 osa-miR827 Cleavage 4.5 18.57 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0401400.1 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0401400.1 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0401400.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0401400.1 8 nan Morphological trait Panicle/flower RG333 RZ562
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