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

>Osa09LNT0433500.1

GAAAGACTGAAATGCCTCTGCAAACTCCTTAACAGGAACATATCGGTATGTCTCATCACCATGCATCCAGTATTGCCGCTGATCTTTCCTTGAAGTAACTTCCTGCAAGAAGTCTGCTACGCCTTTTCTCTCAGGACATTTGAAGCCAACTGATTCAAAGAATTCTAGCACATGTTCACGAGGACCATTGTAGACGACCTGACCGTCTGAGAGGAGGATTATATCATCAAACAATTCATATGTCTCTGGTGCAGGTTGTAACAAAGCAATGACTGCTGTTCCACCAACAATGTGGATGGTCTGCCGGATGGAGTCCACAATATTGTATGTTGTGGAGCTGTCAAGTCCAGTTGATATCTCATCCATGAAAAGGGCTCGTCCTGGGGTGACAATCATCTCAGCTGTGGTTACTCTCTTTTTCTGCCCCCCTGATATGCCTCTCAACATATTGTTGCCTACGATTGTGTCAGCGCAAATATCCAATCCCAAGACCTTTAGTATGTGATTTGTGACCACCTCGGCTTTCTGCTCTCCTGTTGCAGCAGCCTTCAAGTATATATCTACTTCTGGATCTGGTTTAATATTTTCTTCCTTTTCTCTCCTTGATAGTTCCATTAGCAGATCGTAACGGTGGCCAATTCCTTGACATTTTGCAGAGAAATTGACTGTCTCACGAACCGTCAATTCACCCATATGTAGATCATGTTGACTAACATAAGCTGCTGATCTCCGGGGCTCGAATTCATCCATGGTATGGCCATTGTATGTTATTTGTCCAGATACCTTTAGACCTGAAGGGACATTTCCAGCCAAGGCCAAAAGAAGTGTGGTTTTTCCAGCGCCAGGAGGACCCAAAAGCAAGGTCATTCTGTGAGGCTTGATTATCCCACTGACATTGTGAAGGATCGATATTTTCTGCTTCCTATTTGGTGTTATGTGAAGAGTGTTTGCCAGACCCTCCAGCACATTGGCGTAGGTGTTGAGGATGGTGGGCAAACCTCTGCTACCAACGTACGCCTCCGCTTCCACATTCAGGTTCTCGTACCGCACCTCGATCGTCGGCAGCTCGATCCCAACCCTGTCGACGCGGTCCTTGAACTTGGAGAGGAAGCGGGCGTGGTCGTCGCCGACCCAGGCGAGGCGCTGCAGCAGCGCGTGCCGCTCCTGGGGGCCGAGGCGCTGCACGTTCACCTCCCGGAGCTCGCCCTCCGGCATGGCCAGCACCGCCGTCCGCGCCCTGTCGTAGGTGGGGAGCTTCTCCAGCGCCGCCCACCGCAGCGCCTCCTCGTCGTCCTCATCCCTCGACGACGACCGCGAGAAGAACACGGCGGCGTCGCCCGACCGCGCCGACGACGCCTCCCGCCGCAGGCTGCCCCCGAGCGCGTGTATCTCGCCGGCGTCGTCCATCGATCCCGCCGCCGCCCGCCGCCGGTGAGAGTGTGAGTGCTCACCGGCGCGACGCGTCGAAGAAGATGAGATGAGACGGCGCGAGAAAGGAGATGGCGGATT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.819528
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0433500.1 9 9975896 T C
Osa09LNT0433500.1 9 9976104 C A
Osa09LNT0433500.1 9 9976161 A G
Osa09LNT0433500.1 9 9976188 T C
Osa09LNT0433500.1 9 9976437 C T
Osa09LNT0433500.1 9 9976797 A G
Osa09LNT0433500.1 9 9977672 G A
Osa09LNT0433500.1 9 9977798 T C
Osa09LNT0433500.1 9 9978099 T C
Osa09LNT0433500.1 9 9978186 A G
Osa09LNT0433500.1 9 9978321 A T
Osa09LNT0433500.1 9 9978853 C T
Osa09LNT0433500.1 9 9978619 T A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0433500.1 osa-miR5827 Cleavage 3.0 17.348 1 21
Osa09LNT0433500.1 osa-miR529b Translation 3.5 16.877 1 21
Osa09LNT0433500.1 osa-miR2926 Translation 3.5 15.911 1 20
Osa09LNT0433500.1 osa-miR5522 Translation 4.5 13.775 1 21
Osa09LNT0433500.1 osa-miR2926 Translation 5.0 22.328 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0433500.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0433500.1 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0433500.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0433500.1 9 apd9 Others Others CDO590 G103
Osa09LNT0433500.1 9 nan Morphological trait Root C711 G103
Osa09LNT0433500.1 9 nan Resistance or Tolerance Drought tolerance R1164 R79
Osa09LNT0433500.1 9 nan Morphological trait Shoot/Seedling RG553 RZ206
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