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

>Osa06LNT0360200.1

GACAACCATAGGTAGCACTCGCAGGGGGTACACGAGAGCTGCCGCTGCTGCACAATCCACTGGGTTCAGAGTACATAATAGTGACTGACGAATACATCAAAAGACCTATACAACTCTCGGTAACAACTAACAAGCAAACTGAAACTGCGATGCACACTTTCAAAAGCTCAAACCCAGAAAACCAAGTAGTCCTTCAAACATGGATTAAGAAGACAATCATTGTTTGCAGTTTTGCACTGTCTGCACTTTGCACTACTTTCAGTCAGGCACCCAAACTAGCAGTAAAAGAATACAGAATCTACAGCAGGATGCATTGCAGATTAATTTGTGGTAGAAGCAATTGCTGGCTTATCGTCTTTCTGTACACCCAGTTTATCATGAAGAGAAATGTTATCTGGAATCATTGCCGAGGCAGATTTCGCACCAGAAGTCGTCAGTGACATACCCTTCTGAAGAGATTGATCAAGACTGCTGTTGCTTTCAGACAAATCACCATCAGGTAGGCCCTGCAGTGATAAACCGAAATATAAGAGAAGTTGTAATCAATGCTGCCCAATTACTTTGTTCAGAGGGCACAAACAGTGTAAGCTTTGCCTTCACCCTTTTTTTTAGAGAAGTTGCCTTCACCCTTGTGAAGCACGGCATATGTATGAACTATTGTAACGGGAAAGAAAATAGCAAGCAGTTGTATTGTACAGATTGTGAAAGGAAAAAGGATAAAGAAAAAAAAAAGAAGAAGAGAAATATGCATACTAGGTTGCCGTGAAATTTCTTCACATCTGGGAATGTTGGGAAGCCCATTATGGCATCACCATGAAGCATATTTTGTGAATTCAGCTCATGAAGCATATCAACCGTGAGACATATGTCAAATTCATTTGCCTGGAGTAACTCATCAATGAATTCCTCAGAGATATTCGGGAACATTAAAAGGACAGATTTGGTCAAAGCAAGTGGATCCATATCATTTTCCTCGCACATGGAAGGACGGCAAGCTCTAGCAGAAGGATCGTTCATCGAGGATGACTCTGCTTGTCTCTTAGAATCATTGTATGTGAAAAGACTTAGTGAGGAAGGTATGAAAGGACTGGCATCTGGATTCAACTGGGACCGGCCTTCCATTGTTCTTTGTTGAACAAAAACTCGTGAAGTTCAAGAGAGGAGTTCAGTTAAAATCTCGAGATGATTGGGAGGCGGCGAGGAGGAAGTTGGTCAGCCGCCGGCGGCGGCGGGGTGGGTGCTCGCGTCGCGCGCCGTGGCCGCGGTGGTGCTCCGGCGAAGTGGGAACGGGGAAGAGATGGGATAGAGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.985333
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0360200.1 6 29810928 G A
Osa06LNT0360200.1 6 29811007 G A
Osa06LNT0360200.1 6 29811092 C T
Osa06LNT0360200.1 6 29811114 A G
Osa06LNT0360200.1 6 29811122 A G
Osa06LNT0360200.1 6 29811288 A G
Osa06LNT0360200.1 6 29811768 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0360200.1 osa-miR416 Translation 4.0 16.201 1 21
Osa06LNT0360200.1 osa-miR1853-5p Cleavage 5.0 21.764 1 24
Osa06LNT0360200.1 osa-miR1866-5p Cleavage 4.5 17.725 1 24
Osa06LNT0360200.1 osa-miR2118a Cleavage 3.5 23.033 1 22
Osa06LNT0360200.1 osa-miR2275a Translation 5.0 12.565 1 22
Osa06LNT0360200.1 osa-miR2275b Translation 5.0 12.565 1 22
Osa06LNT0360200.1 osa-miR2866 Translation 5.0 23.453 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0360200.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0360200.1 6 nan Morphological trait Culm/leaf RG653 RZ140
Osa06LNT0360200.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
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