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

>Osa06LNT0338700.1

CGTAAGCAAATTTTATGAGCATCTTTCCCATCCTTGAAAAGGTCTCACAAGGTACTATGAGGTACGAGGTACCATTCATATCCAACTGTCCATTACAAAGGGTATGATGGGAAGTAAAATCTCGACATCAAGGTGGGATTCATTCAACGTAGCGCTGCTATGGAGCTTGCCATTTGTGTTGCCGCCGATCTCATTCCTACTCGCCTCCTTCCAGATTGCTCTGATTCGTTGAGCTCGTCCACCGACCTATCGAGCTCGCCCGTCACGCCGCCCGTCGTGCTCGAGCTTGTCCGCCTGTGCACTCGAGAGTCGAGCCTGCTCGTGCTTGGAGCTCCTCCTCTGCGGCTTCGTGCTGTCTTGATTCCATAATAGCTTGGCCAATGAATTTAACCTGGCCACTGGGAGGAAAGGAGGCCGGTGGGGGCGGGCTTGACATTGGTCTTGAGGATCTGAGAGGCGGCGGCGTGGCAGCGGCGGTCGGCGAAGCGGCCGCGACGTCTGTCTTGAGGACTTGGCGGAGAGGAAGCCGGCGGTGGCGGACTTCGAGAGGAGGCCGGCGGCGGCGGTCTTGGGCGTGGAGGAGGCGCTGGCGGTCGGGGAGGCCGGATCTTGAACCGGGAGGCGGCGGCGGTGGTCGGGGAGGCCGGATCCATGAGGGCTCGTGGACGACGAGGGAGGAGGAGGCCGTGGTCGGTGAACCGGGAGGGCGACGGCGGTGTCGAGGAGGACGAGGCGGCGGTGGCGGCGTCGAGGAGAAGGAGGCGGCGGTGGCAGTCGGGAGGCGACGGCTTGGAGGAGGAGGAGGAGGCGGCGGCGGTGGATGTGAGAGGGTGATAGAGTGAGAGGCGGCGTCGGCGGTGGATCTGAGAGAGTGAGAGGCAGCGGCGGTGGAGGAGGAGGAGGCAACGGCGGCGTCGAGGAGGAGGAGGCGGCAGCGGCGGTGGATCTGAGAGAGTGAGAGAGTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.888117
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0338700.1 6 9805316 A G
Osa06LNT0338700.1 6 9805385 C T
Osa06LNT0338700.1 6 9805769 G A
Osa06LNT0338700.1 6 9805774 T C
Osa06LNT0338700.1 6 9805782 G A
Osa06LNT0338700.1 6 9805821 A G
Osa06LNT0338700.1 6 9807446 A G
Osa06LNT0338700.1 6 9807831 C T
Osa06LNT0338700.1 6 9807951 T C
Osa06LNT0338700.1 6 9808020 T G
Osa06LNT0338700.1 6 9808117 T C
Osa06LNT0338700.1 6 9808527 G A
Osa06LNT0338700.1 6 9808565 A G
Osa06LNT0338700.1 6 9808580 A G
Osa06LNT0338700.1 6 9808647 T C
Osa06LNT0338700.1 6 9808724 C T
Osa06LNT0338700.1 6 9808754 A G
Osa06LNT0338700.1 6 9808793 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
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0338700.1 6 qNFGP-6 Physiological trait Source activity RM136 RG456
Osa06LNT0338700.1 6 qSF-6 Physiological trait Source activity RM136 RG456
Osa06LNT0338700.1 6 gp6 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0338700.1 6 qRS6-1 Morphological trait Shoot/Seedling RZ667 RG424
Osa06LNT0338700.1 6 qGY6-1 Morphological trait Seed RZ667 RG424
Osa06LNT0338700.1 6 qLVBSL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0338700.1 6 qLVBTL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0338700.1 6 qSL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0338700.1 6 qTL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0338700.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0338700.1 6 qHD-6-1 Physiological trait Flowering RG424 RZ667
Osa06LNT0338700.1 6 qPH2-6-1 Morphological trait Dwarf RG424 RZ667
Osa06LNT0338700.1 6 qTN2-6-1 Morphological trait Culm/leaf RG424 RZ667
Osa06LNT0338700.1 6 nan Physiological trait Flowering R2171 R2123
Osa06LNT0338700.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0338700.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0338700.1 6 Pi-2(t) Resistance or Tolerance Blast resistance nan nan
Osa06LNT0338700.1 6 qSPN-6 Morphological trait Panicle/flower C235 G294
Osa06LNT0338700.1 6 qPHw6-2 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0338700.1 6 qSFWd6 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0338700.1 6 qSPN-6 Morphological trait Panicle/flower C235 G294
Osa06LNT0338700.1 6 gw-6 Morphological trait Seed C235 G294
Osa06LNT0338700.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0338700.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
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