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

>Osa07LNT0390400.1

GAACAGCAGAACCTCACATAATTCACATTACGAAAAGGCTATCAGAACATCAGCGAACAAGTTCTCGCAAAACATCACTCTATAGAAGTGCACATAGAATACAGAAATCAGCAAGCTCTCCTTAAAGCATAACTCTAGCAGGCCATCGATAATGATGTGGCATTGGCACCAAGGGATGGTGCTATCGATACACTACCAGGCCAGACTGGCAAGTTGCTTGCTTTGGCATTCCAGAATGCAACTCATGGCTAGTTCCTTCAGCTGTTCTTCCACAACTTCCATGGGAAGGGAGCCATCAACAACCTTCCATGTTGAATCACGAAGTGAATGGTAATGCTCACCAACTTTCTTTTGGAATTCAATTTTTTCATATCTCTCACCCCCATAGCCTCCTCTTTCAGCTGCTTTCTCTGGTTGTACATCCAAATATACTACAAGATCTGGGGCTATAAGTCCATTTTCAGGAGCCTTGCACCACTCAATGTCAAGTCCCTTGGCAGCTGAAAATGCCACTCCAGAATAAGAATAACGATCAACAATGAGAGTAGTTCCACCAAGTAGCTTTCTTTCCATCAAAGCTCTTTTCTCCCAGCGATTCGCACTGAAGAGCAAATGGATTGTCCTATCGTCAAGTTCCGACTCGTTCGCAAGGTACGCGGATATCATCTGCCCAACACTAGTACCTCTATCAGGAAACCGCCACCCTTCGGCCTGGCAACCTTTACCTTGCAGAAAGGACAGCAGCCGAGCACACTGCGAAGATTTCCCACTCCTATCCAGCCCTTCCAGGACTATGAGGGCACCACGGCCACCCTGAGAGCTCCCACTCTCCATTCTCACGCTCCGGAACACGCCGCGCCACTGCGGAAGCAAGCCGAGACCACACCCAGCCGCTGCTTTGACACCACTGCTCCAAGAAATTGCTTTCCCGGCGAGGCAAGCTAATGCAGTCATGCACAACCTGGTTATCCTACTTACTCTCCTCCCCCCCAAACCTAATACCCTGGAAAAGCACGAGATAGCTTGCCGGATAAGGAGGCGGAGGCGGAGGCGGAGAGATCGCCGGCGGCGAGGTGGTCGGGGGATCGCCGCGGCGTCGAGGGTTTT

Coding Potentia
Explanation CPC Score
noncoding -1.00315
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0390400.1 7 26631836 T A
Osa07LNT0390400.1 7 26631976 A G
Osa07LNT0390400.1 7 26632087 G A
Osa07LNT0390400.1 7 26632425 A T
Osa07LNT0390400.1 7 26632833 C 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
Osa07LNT0390400.1 osa-miR818f Cleavage 4.0 11.83 1 21
Osa07LNT0390400.1 osa-miR818f Translation 4.5 19.77 1 21
Osa07LNT0390400.1 osa-miR535-5p Cleavage 5.0 10.657 1 21
Osa07LNT0390400.1 osa-miR1851 Translation 5.0 16.051 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0390400.1 7 hd7a Physiological trait Flowering RM18 R1789
Osa07LNT0390400.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0390400.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0390400.1 7 qPLLN7 Physiological trait Sterility RM234 RM172
Osa07LNT0390400.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0390400.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
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