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

>Osa01LNT0012500.1

AGCTTGAGCCTTAGAAAATCTTATTGGCATGAGTATACCAAATTAGTATAACAATATTCACAACAATTTCAGATCACATTCTCTATCGAATATCGATCCCATAAAGATTGCATCCCACATTCCTTTGAATTCTAGTGAATAACAAGGGACCAAAAGCATGCCACATTCCTCTGAATTCTAGTGAATAGCAGAACACCAAAGAAGCAATGCTGGCATAAACAAATCTTCCGGTTCTCTTCTCTCTCCTTTTTTTTAATAAATCCCCAAAGGGACACGAATAGCTTGTTTGTTAGTCCAAAATATTTGTGCCAATTGTTTGTTTTCACTCTGCCTTTTAGCGCCTAGGCAACTTTTCTATTTTATCAATAGAGTATCAGGGAAAGCTTCTTCAACTTCAGCCAAGTTATTACCAATTATTTCTGCCCCAAGGGCATCAATCTCATAGCGCACCTCCTCCATGTGCTCGTTTATGCTGGTCACTGCCTCTTGAACACCTTGTATGGCCTCTTTAAGAGCACCATCATACTCAGCATCTGCCTCTGCATCCTCCGTGCCAGCAGCCTCGGTTATCTCTTTGACATGCACACAGACATGTTGAGCCATATTGCTTGACCTGCAATCTGCATGGTTCACCAGGCGTTCCGAAGGACGACCAGCTTTCTTCAACACCTGAATTCTTGCCGTCAGATGCAACTTCTCTTTCTCGTGTGCCTGCACATCCTTCAGTAAGTTGGCAAGATCGCCACGACAAATTTCTGGCGTTGATAGGAGGGCTACCATTTCGAGAACCTATAGGGAATAATATGAAATATATAACTTTGTATGATAAAAGGAGATGAGTCAGGTGATAACTGCCTAACTTGTTTCGAGCAATCATTGAACTCCGCCGTAACACTCGCGCATAGTTGTTGAAAAGCTAATTCACCTCCATTAGCCATGTATTCAGAAAAACCCCTTCGGAGCGTGGAGTACGCCTCGGCGCGGCGCTGCTGCACGGCGAGGAACCCGCGGAGCACTCCGGCCACCCTCGCGTTGCTCCGCCCGCCGCCGCCGCAGTCCATGGCGTCGCTGCCCTCAGCGGCAGCCGCCGCCGGAGGGCACTCCGCCATCGGGTCGCCGCTGGCGCTGGCGCTGACGCTAGCAGGATCCATCTCCGCCACGCTACGGCCGCCTCCGATCTCTCCCCCCTTGATCTCAGCTCTTCACGAGGTGAGCGAGATTTTTGCGTGCTCCGGCCGGC

Coding Potentia
Explanation CPC Score
noncoding -1.16798
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0012500.1 1 9058127 C G
Osa01LNT0012500.1 1 9058512 G A
Osa01LNT0012500.1 1 9059290 A G
Osa01LNT0012500.1 1 9060316 A G
Osa01LNT0012500.1 1 9060669 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
Osa01LNT0012500.1 osa-miR6251 Cleavage 5.0 13.084 1 21
Osa01LNT0012500.1 osa-miR1861o Translation 5.0 11.933 1 22
Osa01LNT0012500.1 osa-miR530-3p Cleavage 2.5 17.088 1 21
Osa01LNT0012500.1 osa-miR1847.2 Translation 5.0 18.751 1 24
Osa01LNT0012500.1 osa-miR1854-5p Translation 3.0 24.806 1 21
Osa01LNT0012500.1 osa-miR1861a Translation 5.0 11.933 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0012500.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0012500.1 1 An9 Morphological trait Panicle/flower nan nan
Osa01LNT0012500.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0012500.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0012500.1 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0012500.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0012500.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0012500.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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