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

>Osa06LNT0498400.1

GATTTCAACTGAAAAAGTTATCAACAACAAAGTTGAATAACTCATCAAGATCTATAACTTTTATTTTTGTCATTTATTCATCTGATAGTGATAGTAATATTGTTCACAAAATTGACATATCTCTTATCTGGTTTTATAAACTATACACATATGTAAAATTTATGAACAATGTTACTATCATTTTATCAGATGAAGAAATGACCAAAATAAAAGTTATAGATCTTAATGAGTTATTCAACTTTGTTGTTGATAACTTTTTCAGTTGAAATC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.7491
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0498400.1 osa-miR821a Cleavage 2.5 13.651 1 24
Osa06LNT0498400.1 osa-miR821b Cleavage 2.5 13.651 1 24
Osa06LNT0498400.1 osa-miR821c Cleavage 2.5 13.651 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0498400.1 6 qGT-6 Physiological trait Eating quality RM276 RM121
Osa06LNT0498400.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0498400.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0498400.1 6 qPSP-6 Physiological trait Flowering R2171 RZ144
Osa06LNT0498400.1 6 qPHw6-2 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0498400.1 6 sd6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0498400.1 6 qSFWd6 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0498400.1 6 tns6 Morphological trait Seed RG138 RG64
Osa06LNT0498400.1 6 tns6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0498400.1 6 sd6 Morphological trait Seed RG138 RG64
Osa06LNT0498400.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0498400.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0498400.1 6 S5 Physiological trait Sterility RG213 C235
Osa06LNT0498400.1 6 qRS6-1 Morphological trait Shoot/Seedling RZ667 RG424
Osa06LNT0498400.1 6 nan Resistance or Tolerance Blast resistance C1478 R2171
Osa06LNT0498400.1 6 gp6 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0498400.1 6 qGY6-1 Morphological trait Seed RZ667 RG424
Osa06LNT0498400.1 6 qLVBTL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0498400.1 6 qLVBSL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0498400.1 6 qTL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0498400.1 6 qSL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0498400.1 6 qHD-6-1 Physiological trait Flowering RG424 RZ667
Osa06LNT0498400.1 6 nan Resistance or Tolerance Lodging resistance C1478 R2171
Osa06LNT0498400.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0498400.1 6 nan Morphological trait Panicle/flower RM276 RM121
Osa06LNT0498400.1 6 nan Physiological trait Source activity RM276 RM121
Osa06LNT0498400.1 6 qPH2-6-1 Morphological trait Dwarf RG424 RZ667
Osa06LNT0498400.1 6 qTN2-6-1 Morphological trait Culm/leaf RG424 RZ667
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
Osa06LNT0498400.1 osa-MIR821a 89.455 275 1 274 2e-94 342
Osa06LNT0498400.1 osa-MIR821c 83.209 268 1 266 2.61e-63 239
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus