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

>Osa09LNT0435200.1

GTTCACGCAATCACGCCCTCAATCCCTTCTCTCCTCCTCGCATCTCTCACGCCGCCCCCTGACCCAGCGCCGTAATCATCGCCCGCCTTCCGCATCGCAAGCGGCGGCCCCTCTACGCCGATTCCCCACCGCCGCCAGGGGGGCGACTCCCTCACCGAACCGCGCTGCCGGGACACCGACGCCCATCTCGTCCACTCGCCCGTTCCTCCGCGGCGCGCCGCCGGATCAACGTCAGTCGCCTGCCTCCTGCCCGGTCTCCTCCGTGCCTCCACCACCTCCCGAATCCCGGCCTGCCACCACCCTGTCCCGCGGCGGCCTTCGTCATCGACAGTCTGTCACCGGCGCATCTCCTTTCTTCCCCTCATCACAGAGGGACATCTCCATTTAGAAAAGGTGGATATTAAATGAAAGGTTTATTCCAGATCAAAATTCTACCGACATATATGCTCTCAACGCATTACTATAGAAGGGATTGAGATTCTGTTCATGACCATTGCTTTCAGTTTCAGAGAGGGGTGCCTTGTCTAATGTACCTCAAGTTGCATTGAGATTTGAGAGGGCCACAAAAACATTCAAGGATAGGAAGGTAGCTGTGCAGGGGAAAAAAAAGCATTGATCAAATGGTTACCAGTAAGTACGCACAATATATTACTACAGAGGGAAAGGGAGGCTATATTACCTCAGTCCCCTTGTCGTCTATGAATCCTGCTGGATGTTAGAGTAATCGTTGAGAAGCCATTTGGAATGGACTTGGACTCTGCAGAAGATTAATTCAGGGCCCACCTTGGGGTTATTTGAGGAAAATCAGGTCTACAGATTTGGTCACAACTTAAGAAAAGAGTTGGTACACAACCTGGTAAAGGCTATAATTTTGCCAATAATTAACCACCTCCGACATAATAACATTTCACAGGGAAGAAGTTGGTCTTCATGATTTTGTATTGCTTAAACATGTTTACACTTCCCATTGTGAATCGATCTCCATTGTTCGCCTT

Coding Potentia
Explanation CPC Score
noncoding -1.37572
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0435200.1 9 11540069 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
Osa09LNT0435200.1 osa-miR166g-5p Translation 4.5 12.517 1 21
Osa09LNT0435200.1 osa-miR815a Cleavage 4.0 21.428 1 21
Osa09LNT0435200.1 osa-miR815b Cleavage 4.0 21.428 1 21
Osa09LNT0435200.1 osa-miR815c Cleavage 4.0 21.428 1 21
Osa09LNT0435200.1 osa-miR1854-5p Cleavage 5.0 15.83 1 21
Osa09LNT0435200.1 osa-miR2097-5p Translation 4.0 6.062 1 22
Osa09LNT0435200.1 osa-miR5082 Translation 4.5 12.57 1 24
Osa09LNT0435200.1 osa-miR5488 Translation 4.5 19.836 1 21
Osa09LNT0435200.1 osa-miR2275d Cleavage 4.5 19.297 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0435200.1 9 qLG-9 Physiological trait Germination/dormancy G103 R1751
Osa09LNT0435200.1 9 nan Resistance or Tolerance Drought tolerance R1164 R79
Osa09LNT0435200.1 9 nan Morphological trait Shoot/Seedling RG553 RZ206
Osa09LNT0435200.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0435200.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0435200.1 9 qPC9 Physiological trait Eating quality RM4413 RM1896
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