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

>Osa01LNT0001100.2

GAAACGAAGAAACGACGAGACATAAAAGTCACAATCACCGAACCGACTTTGTATCAGTACAACGTCAGAATCCACAACGTTGGAATAAAGAGTGACCAACATAAAAGATAAGACAACTAAAATTCTTTTCACGCGCCAAAAACCAATTCAACTAGTGCCGCTGGAGTTTAATCAACGTTGCCACCTTCAAGGGCTTTCTGGCCATCTTGCCGCTTCTTGTCATTAGGTTCAGAAGAGCTACGGTGATCATGATGGTGATGGTGGTGGCGGTGGTGGTGACGATGGTGTCCGGTCTTGTGAGGCCTTTTACCATTTCTCACCTTTTCATATTCACCGGCAGCTGCATCATCGGATGACTCCTCCAGGGAGCGACTCCTACGGTGCTTATGGTTGTTGGAATCTGATGTTGCATCCTCATCGCTTGATCTATGATGTTTCTTATGTCTTGACCTGCCCCTCTCCTCAGACTCAGACCCTGAGTCATCACCAGATGATCGGTGGTGGTGGTGCCTGTGACTCCTGGAACTGGAATGGTCCTTCTTGGAAGATCTCCTCTCTTCATCATCGCTGCTATAGTCTGAAGCATCAGAATCAGACCTTGATGAATGTCGGCGATGCTTTCTCCTGTGTGAGCGCTTCTTCCTTCGATTTTCTTCTTCAGACCCACTATCATATTCATCACTATCAGTATCATCGCTTGAGTCTGAGCTTCTCCTCTTTGATCTGCGCTTGTGCCTCTTGGCTTCATCGGAATCAGAGTGACCGTGTTTCCTGTGCCTTTTGCGGTCCTTCCTCTTCCTGTGCTTCCGATCACCATCACTGTCGGAATCACTTTCAGAGTCTGAGGAAGAATGGCCCCTCCTTCTGTGCTTTCTTGACTTAAGCTTCTTTTCCTTTGCTTCAGCATCAGCTTTTGCCTTCGCTGCTGCTTCGAGCTTTTGCTCCCATTTCAGTGGGGCTTCTTTCTTCTCAAGGATTCTCTTCTTTTTCTCTTCAAGCAGCTGTAGGAACTTCTTGGAGTCCATCCCGACAGATCAGCTACAGACTTAAAACCTGTAGGGCCGTGAAATGATGCAAGGAGGTGCATCTTGTCGTCCGTAAGCTTCAAATGTCCAGAAAAGATCCCTCCTTTTTCCCCTTTTACTGAGCCGATAGTTCACTGGATTGGACGGGAGACGCCGCCGCGAGGGGAAGAGAAGATCTGGAGCAGCCGCCGCGTCGAGGAAGGAGGAGAGGGGTAAGGCGGCGCGCGGAGGAGGAAGAGAGAGAGAGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.504907
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0001100.2 1 1168900 T G
Osa01LNT0001100.2 1 1170376 A T
Osa01LNT0001100.2 1 1170631 A G
Osa01LNT0001100.2 1 1171025 T 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
Osa01LNT0001100.2 osa-miR169f.2 Cleavage 4.0 16.88 1 21
Osa01LNT0001100.2 osa-miR2097-3p Translation 4.5 15.04 1 22
Osa01LNT0001100.2 osa-miR2097-3p Cleavage 5.0 24.084 1 22
Osa01LNT0001100.2 osa-miR5076 Cleavage 5.0 23.559 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0001100.2 1 yd1a Morphological trait Seed R753 C161
Osa01LNT0001100.2 1 nan Physiological trait Eating quality C161 R753
Osa01LNT0001100.2 1 nan Physiological trait Eating quality C161 R753
Osa01LNT0001100.2 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0001100.2 1 n+p1a Resistance or Tolerance Other soil stress tolerance C161 R753
Osa01LNT0001100.2 1 n+s1a Resistance or Tolerance Other soil stress tolerance C161 R753
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