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

>Osa05LNT0318200.2

CTCTGTTGCTCCGGATAAATTTAGCCGGAAATTTGTTGGAAGGACAATACTGTGTTCTGCGTTTATACAGTTTACAGGACTTGCAAGCTACTAAAGGTTGGTGCCTCCATCTAAAGTTCTAAACACCAGCACGGTGCTGGTGCAACTCTATAGAATGCAATTGCTCCTGGGGGTTCAGAATCTCAGGAAAATCCAAACAACTAAAGCATAACAGCTGCCAAGAGAAGAGATCCACTAGAGCTCCTCAGCCTCACGGTATTGAGAATGAGCCGCAGCAAGGAGAGCAGCGCCAATGCCTGACCCGTCCTTGGCGAGCTTGATGACAATGGTGGAGGACACATCCTCCCCAAGCATGTCCCTCAGGGTGCTCTCCACGCACTCGGCGAAGATGGTGTAGTGCTCGTAGAGCCCACCGTCGACGGCGATCACCGTCCTCTGCTTGTCGGTGTTGGGGACGTCGCGCCCAAGCTTCTTCAGGATCCCGTGTATCCCTGCAGCAGCAAGGTGAGCGGCGCGTTTCGCAACGATGTCGCAGACATCCACCACAAGCCTTCTTGTTTTAAGGGAGGTGTTTTGGACCCCCAGGATATCTTTCAGTTTCGCTCCAACTGTTCTGAGATCAGGTGATCTGTCGCAGTGCATCATTGACATGTATGGAGTCCTGATAATAAATGGAATCTTGAGTTTTGGTGGTACTTCATCACCAAAAAGAGAAGCTTCTTCAGCCATCTTTAATAGGACTCTACGAACAATTTCTCCCAAATACATGCCAGAGATCAACTTTTCGTAAACCTGTTCACCAGGATTCAAACTTTCAGCATCTAATGCTTGATCAAATTCAGTCAAAGGAAGATGGGATGACCTGAAGTTCCCCCATTCCATATTTATTACCATATCTCCTGACTTCGGCAGGAGGTCATGCCATTTAGGAATTGCATTGGCACGTTCCACGTATGCTGCATTAGTACCTGTTCCCAGTATAACAGCAGCAATGACATCATTATCATCATATCTCCCACCAGCCAATGTCCCTATAGTATCATTTATCAATGCTGTGACTTTCATATCAAGCCCCTGGCGTTCAAGAGCCTTGGTTAATTCAGTCACAACATCTTCACCAACCTGACGTTTCATCAATCGAAAAACCCTTAGTCCAATTAATAAGAGTGCCAGATGCAATTGAAGTTTGCTTTACTGGGAAAGAGAACGTAAAGCCAAGTTCTCTCTGCCTCCCCTCAGCAAGATGAAAGTCTTCACCCTCTGAAGCAACAAATTTTGCTAAAGAAGAAGCAATAAAATCAAATAGTTCATTTGAACCACCAGTCATCAGATGCGGAGGAATTGAAATCTCGTCATGTTCTTGCTTGATAACTCTCCCTTCCTTGCCACCTAATTGAACCCGTAAAACACGGAAATTTGTACCTCCAAGGTCAAGCGCATAAAACACCCCCTTCTCTTCCCCGGAAGGGAGGGCGTCGACGTAGCTGATGATCATCTTGAGTTTGCTCCCGCCCTCGGAGGCGAGCCCGGCGTGCATCTCGACGGCCATCGCGTCCGCCACCTGCCGCAGCCGCCCCGGCGGCGCCGCGCACCGCTCCTCCAGCTCCCGCAGCACCGCGTCGGCCCGGCCCCACCGCTTCGCCTCCCGCAGCTGCCGGCGCACCAGCAGCGCCACGCCGAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.921771
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0318200.2 5 26419318 A C
Osa05LNT0318200.2 5 26419579 A G
Osa05LNT0318200.2 5 26420797 A G
Osa05LNT0318200.2 5 26422359 G 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
Osa05LNT0318200.2 osa-miR5820 Cleavage 4.5 13.591 1 21
Osa05LNT0318200.2 osa-miR5820 Translation 5.0 16.455 1 21
Osa05LNT0318200.2 osa-miR5079b Translation 5.0 13.228 1 22
Osa05LNT0318200.2 osa-miR172d-5p Cleavage 4.5 21.622 1 20
Osa05LNT0318200.2 osa-miR1852 Translation 4.5 16.422 1 21
Osa05LNT0318200.2 osa-miR2878-3p Cleavage 2.5 20.419 1 24
Osa05LNT0318200.2 osa-miR5079a Translation 5.0 13.228 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0318200.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0318200.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0318200.2 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0318200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0318200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0318200.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0318200.2 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0318200.2 5 qGT5-1 Physiological trait Eating quality RM538 RM480
Osa05LNT0318200.2 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
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