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

>Osa03LNT0239800.1

CAAGTTGGTTATCATCGAGACAAGCTGACACAGTTTTCTGTTCTGAAATCCACTGTGAAGCAAGACAACAAAAAAAATAAAGGGGGAACAGGTAGTTGCCTGCCAGCATGACACTCTGAACTGCACAACAGTGAGTTACATAACACTGTCTTCAGCATTTGCAGTAACAACAAAATGTATCCAACTAATGGCTATTGGCAGTTTGGAACACACACCTCACCCAAAATAAACAAAAGAACTGTAAAACCATCTAAGCTCACCGTCTGCAAATTTGTCAAATCCAAACCAACTAGACCGGGTGAGTCTACCAAATGCGAAATGTTCTATAAACTGCAAGCATTGCAACTCTTCTGGCACTGACCGGGTGCATCTTCCGTTCCAATCATGTAGACTGCGTTGTTATTGCATTCACCCGATGCAGCCCAAGCCGCGCAATTCTCGCTCAAATCAGAACATTCTTCACTTTGCTTCATGCTTGATGCATTGTCGTAAGACCGCACATGAATCCACTTTGGCGCAGACCATTTCTCGCCCTCTATAACTGGGCAGCTTCCATGGAGGCTAAGCGGGTCTGGTGTGCCATCAGGCTGAAGATTAAAGAACAGCACAGAATCACCCTTCACTGCTTTCACTGCCAAGCCCTTTTTTGCACAGTCTGAAAATGAATCATCTTTAGGTTGAGATTCCCACCCCTCAGCATTTGGGAAGACGGTTTCACCTCCTTTCTCAACAGTTGATAGATATGTCAGCACCGTTGCATAACGGTGACCGCCCTGCAGTTGATTGACTTTGTCTTGAAAATAATCAAAATGAGGATCATATTTTTGTCCGTTCTCGTATCGGAGTATCTGAATGTTCTCAGCATTCTCTTGCGGAAGCAGGGTCCAAGCTGCAATTCTCTCCTCAATACCGCTAACAACAGGGTCCTGTTGTTTGTCCAAGAACATGCCAGAGCTGGTGCGCACTTCGCTCATAACACTCTTTCCCGACTCATTGTCTGCCACCATGGACCTCTTCAGCTTCTCCTTCCCCAACTTGACAAGGTGGTCGCACTCATCATCTGAAAGGAAGCCCTTGTAAAAAAATATCCTCGGTTTCCAGGAGATAATGGTGACGCTGGACGCATTGAACGGAGGCGCCGCGACGACGACGGCGACGTCACTAGCACCGCCCTTCTTGTCGGGCCATAAGAACACCGGGACGACGGCGGTGACGGAGAGGAGAGCGAACAAGACAAGAAGGCGACGCATCTCCATGGTCTAGCAACTAGTAGCAGCGATTCTGGTAATGGAACTGAACTTGCAACCTGACCTTCCCAATCCAAGATCAAATGGCTCTTGTTTC

Coding Potentia
Explanation CPC Score
noncoding -1.13153
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0239800.1 3 33520392 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
Osa03LNT0239800.1 osa-miR156j-3p Translation 4.0 21.41 1 22
Osa03LNT0239800.1 osa-miR319a-3p.2-3p Translation 5.0 15.368 1 20
Osa03LNT0239800.1 osa-miR319b Translation 5.0 15.368 1 20
Osa03LNT0239800.1 osa-miR167e-3p Cleavage 4.5 11.15 1 21
Osa03LNT0239800.1 osa-miR167i-3p Cleavage 4.5 11.15 1 21
Osa03LNT0239800.1 osa-miR1428a-5p Cleavage 5.0 9.101 1 21
Osa03LNT0239800.1 osa-miR5075 Cleavage 2.0 15.842 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0239800.1 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0239800.1 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0239800.1 3 qPES-3 Morphological trait Panicle/flower G249 G164
Osa03LNT0239800.1 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0239800.1 3 QSn3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0239800.1 3 nan Resistance or Tolerance Drought tolerance R1618 G164
Osa03LNT0239800.1 3 Qbp1 Resistance or Tolerance Insect resistance R1925 R2443
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