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

>Osa08LNT0397700.2

AATCTCACTTCGATTCAATGGTCATCCCAAATTGCAAGTCTCAGGCTCTGAGCAGAACAAATGCCAATACAAAGGCCAAAAAATCAACTTCAGTTCAAGAAAACTCACATGGATAAGGATCAAGAAATTCCACACACAAACCAGCAACACAACTACTAGGTAGCAGGGTAACACAAGAAAAATATCACTAGATATTTGAGACAGTAACATTCTTAGATAGATCAGAATTTCCGTCTTTTGTCACATTCAGAGGTCATAGTCCACCCAAAATATCAAGAATGATGATGATCCACATGATCCAAAATTCCAAATGCAGCCTGCATGAATCGCTTGCACAGCTCTGGATGATATTTTGGGTTGAGGATAGATTTGTCTGTCAGAGCTTTCCCGTATGCGACGCCAAGTGGTAGAATTAGCTAGTAAGCAAGTTCTTTCTTTCCATTACGTGGATGAGTGCCTGCAAAACTCATGAAGAAGAGGCTGACTCAGGCTGAGCAGTCTGCGGCCTTGGTCTCCTGCTTGCTGGGGGTCCATCTCTTCGCCTTTCATACCGTCTGCTTTCATATTTGGATGTCCTCCGCTCTTTTGGTTGGTAGGTTGGGTAAGTGCATGGAATTATCTCTCCGTTTATGTATTTATCACCCCCGTAGTCTTTGTTCTTGACATCGATGTAGGAATCAGGAAGCACCCACAGAACGCCGGGTAAACCCTTGAACTTCTCTGATGTTTCCTCGTCGACAGTGCACTGGAAACCAGTGTAGGTGGTTGTGCTGAAGGCATACATGTTCTTCTTGGCTTCCTCCATGCTGCCAAGGACGGTGGCGAGGGTGTTGAGGTAGGTGTCGATCATCTGCTCCCGCGTCGGGGCGGGGTCCTTGGGGAACTCCATCACGATCAGCCAGTGGTTGTAGTCGCACCCGGGGAGCAGTATCGTCTCCCTCTGCTCGCTCCCCGTCCCCGCCCCCGCCGCCGCGGCCACCACCGGCTGCCTCGCCTTCCCGCTTCCTCGCACAGCCAGCGTCGGGAACGCCGCCGCCGCGGCGGTGCGGGGGAAGAGCGCGGATGGTGCGGCGGCGGAGGAGGATGGCTTCGGCGCGAGGGCGAAGGCGAATGCCTGCGCGGCGGCGGCGGCGGCGGTGGTCGGGAAGGAAGCCATGGGAGGAGGCGCGAGAGTGGGGAGAGGGAGAGGTTTACGAGTTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.97196
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0397700.2 8 2178371 G A
Osa08LNT0397700.2 8 2178541 C T
Osa08LNT0397700.2 8 2179523 G T
Osa08LNT0397700.2 8 2180126 G A
Osa08LNT0397700.2 8 2179506 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0397700.2 osa-miR160a-3p Cleavage 4.5 22.295 1 21
Osa08LNT0397700.2 osa-miR160b-3p Cleavage 4.5 22.295 1 21
Osa08LNT0397700.2 osa-miR160c-3p Cleavage 4.5 22.295 1 21
Osa08LNT0397700.2 osa-miR159c Cleavage 4.0 12.516 1 19
Osa08LNT0397700.2 osa-miR159d Cleavage 4.0 12.516 1 19
Osa08LNT0397700.2 osa-miR159e Cleavage 4.0 12.516 1 19
Osa08LNT0397700.2 osa-miR160f-3p Cleavage 4.5 22.295 1 21
Osa08LNT0397700.2 osa-miR437 Cleavage 4.5 16.22 1 21
Osa08LNT0397700.2 osa-miR1428b Translation 5.0 22.605 1 21
Osa08LNT0397700.2 osa-miR1428c Translation 5.0 22.605 1 21
Osa08LNT0397700.2 osa-miR1428d Translation 5.0 22.605 1 21
Osa08LNT0397700.2 osa-miR1428e-3p Translation 5.0 22.605 1 21
Osa08LNT0397700.2 osa-miR1859 Translation 5.0 19.906 1 22
Osa08LNT0397700.2 osa-miR2092-5p Translation 4.5 7.063 1 21
Osa08LNT0397700.2 osa-miR2873b Translation 4.5 13.652 1 21
Osa08LNT0397700.2 osa-miR5075 Cleavage 4.5 24.815 1 21
Osa08LNT0397700.2 osa-miR5523 Cleavage 5.0 18.136 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0397700.2 8 nan Resistance or Tolerance Other soil stress tolerance C390 C1121
Osa08LNT0397700.2 8 qDTH8 Physiological trait Flowering R1943 R2976
Osa08LNT0397700.2 8 qPL8 Morphological trait Panicle/flower R1943 R2976
Osa08LNT0397700.2 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