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

>Osa09LNT0429100.2

CCTCTCGTCATCGGCCGGGAAATATTCAGCTTCTCTGGTGGCGAGGAAAAAAATCCTCTCGACGCAGCGACGCAACGAGAGGGGGCGCTGCGGCGGGGACGGCTGCACGGCGCGGCGCGACTCCGACGCGACGGCGACGGCACGCTCTCTCCTCCGGCAGTTGACTCCTCCGGTGGTCACCTTCTCCCCTGTGAGTTCCTTCCCTTCCCATCTCCCCTAGCCTCCTCTTCCAGTGTTAGGGTTTCTTGCGCTCGTGGCCTCGTGCTACTGCGGCGGCGCACGACGGTGGCAGGCATGGCGGGGGACGCCGCAGCATCACACCCCCTCACCATGGCGCCGTTGAAGCTCTAAGCGCTACGGCAAGGAGAAGCAGGAGGACATGGATCTGTTCTTTGTTCCTCACAAGGCTTTGGGAGGAAGTCTGAGAGGATGGTGGTTCAGATACAGAGTGAATGAGCAGACATGTACAAGATGATGGCTTTTGCAGGAGCAACAAATGTTGATCTCTGAACCATTGTATATTGCTGATGTAACCATTTGGTCTAGGAGTGGGTGTGGCAGCTCACATTTATTTTTATAGCTCAAGTGAATCATGACATAGTTTCATCTTTTTCTTTTTTTATTTTCAAATTTCACTACTATGACTGTATTTAGTTGTCTCTGTATTGTCAAGTGACCTCAAGCTTTGTTGGGTGATGCCTCCTTGCCTTAAACCGGATACAGGCCTTGATGATACTGCAATAATTTTGTTTTAATGATTAATCAATGTGGTTTTCGCGTAATTGATGAGGTTACTGCAATATTTTTTTTACTGAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.227468
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0429100.2 9 3928958 A G
Osa09LNT0429100.2 9 3928763 A G
Osa09LNT0429100.2 9 3929293 T A
Osa09LNT0429100.2 9 3929675 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
Osa09LNT0429100.2 osa-miR528-5p Translation 5.0 15.874 1 21
Osa09LNT0429100.2 osa-miR1854-5p Cleavage 3.5 9.785 1 21
Osa09LNT0429100.2 osa-miR1879 Cleavage 5.0 13.786 1 24
Osa09LNT0429100.2 osa-miR2097-5p Translation 3.5 7.11 1 22
Osa09LNT0429100.2 osa-miR5498 Cleavage 5.0 20.888 1 21
Osa09LNT0429100.2 osa-miR5498 Translation 5.0 17.67 1 21
Osa09LNT0429100.2 osa-miR167c-3p Cleavage 5.0 23.347 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0429100.2 9 nan Morphological trait Root C711 G103
Osa09LNT0429100.2 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0429100.2 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0429100.2 9 qAC9 Physiological trait Eating quality RM4413 RM5122
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