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

>Osa03LNT0231200.1

TTAAATAGAACTAATGTTACCACTTACTTTACGGTACCGATACAATTAACTGTCGTTCACCTTAAAGAATGTGTAAGAAAGGACAATATTGTTCACCCCTTCCATTTTGGGGTCTGTCTCAAACTCAGGATCGATGTAGAAGAACACCTGAAGAAAAAAGTTCACATACAAAGTTGGAATAAGTGTAGACAAACACCAGATAACTAACTAGCCATGCATTTCATCGAATGCAAGTTGAATTTACCGGCATGTCAATCTGCTCCCCTGGAAGAAGTGTTTGCTCCTCAAAGCAAAAACATTGTATCTTATTGAAATATATTGCAGCCTTCATAGGAGCTACGTTATATGTGGATACACCAGTTATTGGAGCTGAACTACGATTTTCAGCAGTATAAAATGCAAGAGCACTTTCACCAGGTTTAACCTTCACTTCTCTCTGTGTTGGAATGAATTTCCACGGCATTCCATCAGCAACGTCAGCATTAAATTGGACAATTATCTCTCTTGAAGTTGTTGTTCCGTCTCGAGCATGTCGTGAGATCTTCTCCTCCACACTCTCGCGGCGCTGGACGGTGCCGCCATAGCCGGTGGCCTGGCAGAAGCGGCGGTAGAGCGGGACGGCGGCGTAGGAGGCGCCGACCATCGCCGCGGCCACGCCTAGCAGGTACGCTAGCGTCCTCCTCGAGCTCTTCTCCCGGCCTGCCGCCGCCGCCGCCACCGCCGCGGCGGCGGCGGCGGAAGAGGAGGAGGAGGCGGACGAGGCGAGCCCGCGGCGGAGGAAGGCGTCGGCCGCCGCGGGGGGGGAGCGTCCCCGGAGGAGCGAGAGGGAGAGGCGTTGGTGGAGCCTGGCCAACGAAGGCGGCGGCGGCGGCGGCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.827633
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0231200.1 3 29100972 A G
Osa03LNT0231200.1 3 29101336 G A
Osa03LNT0231200.1 3 29101933 T A
Osa03LNT0231200.1 3 29102089 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0231200.1 osa-miR5812 Cleavage 5.0 15.689 1 24
Osa03LNT0231200.1 osa-miR171d-5p Translation 4.0 19.251 1 21
Osa03LNT0231200.1 osa-miR171e-5p Translation 4.5 19.251 1 21
Osa03LNT0231200.1 osa-miR5144-5p Cleavage 5.0 15.374 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0231200.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0231200.1 3 qRFWd3-2 Resistance or Tolerance Other soil stress tolerance C944 C746
Osa03LNT0231200.1 3 nan Morphological trait Shoot/Seedling RZ403 RZ630
Osa03LNT0231200.1 3 qRFWw3 Resistance or Tolerance Other soil stress tolerance C944 C746
Osa03LNT0231200.1 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0231200.1 3 nan Resistance or Tolerance Drought tolerance C136 R1618
Osa03LNT0231200.1 3 nan Morphological trait Panicle/flower RZ448 RZ403
Osa03LNT0231200.1 3 nan Resistance or Tolerance Drought tolerance C746 RZ448
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