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

>Osa03LNT0197600.2

GTTGAGGGGAATGTTGTCTGGTCCGAGACCTAACACCGGGCGGAATGGCGGATTCAGCTGCAGCTAAGCAAGCTAGGTGGGGGGTTTCGGACCAGGCTTCATTCCCCCCAACTCAACTGTTTAGTTCTTCGGCTTCGGCACAAATCGGCGGGCGACACTGCCAGCGTGAAGCTTCTGCAGGTAGGACGATGTTTGGCCGTGCAGCCAGCCGTCCGTGCTCCATCCACCATCACCATGCATCGATATATATCTTCCATCTCGCTCACTGATTGACAAGAAGTGTACTTTATCCATACAACCAAGGAGGTCAGCTTCAGCAAGCAGAGGAGGTGGGCGAGTCATTCCAGAATCAAGCGTTAAAGTTGTTGGAACAAACTGCAAGGTCATCAACTCCTCATGAACAATGCTATTAAAGAACCAATTAATGTAAACTAAAGGAGGAATGGCAACCCAAGACTCACATTGAAGCTTCAACACAAAGAAGACGCTTCTCAGAGCTTAAAAGTTAAGACTATGTCACCTCTGTACATAAGATCAAGTTGTTTCTATTACTGATTGAAATACACTTTCTCCTACTCTTGTTTACCAGATTTATTAGTGGAGCAAAGTGTTTAAAGAACTAAAGAACAAGCAGAATTAGAGGTATAGGATATGTAACATATTTACATGTCCTGTATGGATACTGCCTATTTACACGTTTGCAACACCTATGAAACAATAGACGATTCCAGCAAGGTTTGAGGATGCTCACAGCAAGAACAACGCGCCCTGATGCATTGAACTGTTCACCAGCAATGTCAATTTCCACAGTTGTTTCAGCTCCAACTGCAGGTTGGGAGCAACAAGCAAGGAAATGGCGAACAACAAGCTCATACAATTTCTGGACACAAGAAGACAAATATGAAGAGTTTTATTACACACTTGTAGAACATAAGAAATACTGCCTTTAAAAAATATTAAAAATGCTATAGTATCTGCTATATAGGAAAGACACATACTTTGTGATTATCAGTCCAATTTGTTTCCCCAGCTGAAAATTTTGTTGGATGAATAGGAGGATGTGCCTTGTCATCGTGACCACCATTGCTGGGGTTTCTCCAAAGTCTTGCTTCAGGA

Coding Potentia
Explanation CPC Score
noncoding -1.21193
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0197600.2 3 3489236 A G
Osa03LNT0197600.2 3 3491074 A G
Osa03LNT0197600.2 3 3493129 A G
Osa03LNT0197600.2 3 3494783 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
Osa03LNT0197600.2 osa-miR5540 Cleavage 5.0 15.274 1 21
Osa03LNT0197600.2 osa-miR166i-5p Cleavage 4.5 10.961 1 21
Osa03LNT0197600.2 osa-miR2093-3p Translation 3.5 18.126 1 20
Osa03LNT0197600.2 osa-miR5160 Translation 4.0 13.386 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0197600.2 3 qHEJ-3 Morphological trait Shoot/Seedling RM175 RM22
Osa03LNT0197600.2 3 S34(t) Physiological trait Sterility nan nan
Osa03LNT0197600.2 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0197600.2 3 qTA3 Physiological trait Eating quality nan nan
Osa03LNT0197600.2 3 qDEF-3 Physiological trait Flowering R518 C721
Osa03LNT0197600.2 3 rn3 Resistance or Tolerance Drought tolerance RM231 RM175
Osa03LNT0197600.2 3 dth3.1 Resistance or Tolerance Drought tolerance RG104 RZ329
Osa03LNT0197600.2 3 qtl3.1 Resistance or Tolerance Drought tolerance RM7332 RM545
Osa03LNT0197600.2 3 qFDN-3 Physiological trait Flowering RZ329 RG348
Osa03LNT0197600.2 3 nan Resistance or Tolerance Drought tolerance RG348 RZ329
Osa03LNT0197600.2 3 nan Resistance or Tolerance Drought tolerance RM231 RZ329
Osa03LNT0197600.2 3 nan Resistance or Tolerance Drought tolerance RM231 RZ329
Osa03LNT0197600.2 3 nan Resistance or Tolerance Drought tolerance RM231 RZ329
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
Osa03LNT0197600.2 osa-MIR166c 100.0 121 5 125 3.12e-59 224
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus