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

>Osa03LNT0238100.1

CGTTACAATCATCAGAAGGTGAACAGGCCCTTTCATTGCGTACTTCGCTGAACAGGAGCAGCAGCAGCTACTGCGTTGGGCATATAAGTACAAGAAAATAGACCAGCCATAAAGTAATGTACTGTCCCCAGTTAGATGGGGAAACTAGGAGAGGATTGCTCAACATCTCGTACAAAAGGCCTAAGAGACACTCCAGTTGCAACTCACAGGAACAGTGTGTATCATAGTCAGTGAGTGCATTGCAAATGATCACATTTGGTTTCATCAGAGCAAGCTCATCAAAGCGGCACAGTATGCCTAGATGCTGCATAAACTGGGGAGTACAGCTACCTACACGGGGCTTGATGGACGCAAGAAGCATGGCGGGTGGTCCTGAATCCTGATGAATTTGGGGGGCACCACGAGCTACAGGGAGCTTGATGGATGCAGGAAGCACGGCGGTTGGGTTCATGGCGCCCCGAGAAGCCATCGCTCAGTCAGGTATCTTGCTGCGTGCGCTCCAAAGCAGACTCCGAAGCAATGGGCCTTTGAAAACTCCGTCACAACTCTCAGTGCTACAGTATTTGAAGAGAGAACAGAAATTTCAACAAAGAATATAACAGATGACGGAAACTCCCAAACCATCATTGCCATGAGAAATAACTTGAAGTAGCTTGAAATGATGACGGCTAACAGAACCTCCCTATACCTTCTAATATCAAAAGATAGTTTTAGGATAAATTGCACTTCCAGGAATAACATGGTCATAAATACGATGTTCCCTAACAATGCATCGCCCAGAACCTTGCTGCAATTGAGAATCGCTGAGAATATGTTTATGGAAGAATCCCCATCAGCTATGTTGCCTCTTGAAAAAGATATTCTGAATGCATCAAGAACAAGATGCGTCAGAATGGACAACACCAGTACTCCCTTGTCAAGTGATGAATAAATCCTCAACTTATTAAATAGAAGATGACGATATGCTCTTGTCTTGTGTAGAATCAGATCAATCAAGATTATCATGAACTCGCACTCGATGTAGGGATCAGCAACAGCCTTGCAGGTATCGCATTTCATCAAACGGATGTTGCCCGGGGAGTACTGCATGTAGAGCGTCTTCACACGCCGGCCACAGCCGACGCAGCGCGGCCGCTCCTCTTCTCCTTCCTTGGCGTCTCCCATCAAAGCCGAAATGCCCAACCCCAACAAGGAATCGATCCCTGCGGCGAGAGCCCCGACAGGGGAACCGCCTTACCCCCGTGCGGCCGCGGCGGGTCAGGGAGCCGGGGGCGGCGCCGCCGGTCGCCGGGCTGCGGCTGCGGCGGCGGCTGGGGTGGCGTCGCGTCGTCGGTGAGC

Coding Potentia
Explanation CPC Score
noncoding -1.09543
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0238100.1 3 32553485 A T
Osa03LNT0238100.1 3 32552535 A G
Osa03LNT0238100.1 3 32552742 A G
Osa03LNT0238100.1 3 32553380 T 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
Osa03LNT0238100.1 osa-miR5543 Translation 4.0 11.829 1 21
Osa03LNT0238100.1 osa-miR5819 Cleavage 4.5 23.37 1 21
Osa03LNT0238100.1 osa-miR5516b Cleavage 3.5 18.365 1 21
Osa03LNT0238100.1 osa-miR1853-3p Cleavage 5.0 18.948 1 22
Osa03LNT0238100.1 osa-miR5516a Cleavage 3.5 18.365 1 21
Osa03LNT0238100.1 osa-miR5521 Cleavage 4.5 20.016 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0238100.1 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0238100.1 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0238100.1 3 qPES-3 Morphological trait Panicle/flower G249 G164
Osa03LNT0238100.1 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0238100.1 3 QSn3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0238100.1 3 nan Resistance or Tolerance Drought tolerance R1618 G164
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