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

>Osa02LNT0149000.1

GAGTGTAAGACACAATGTGGCACATTGAGCATGGCCAAAGATTTCTTCAATGCTATTGAGTTACAGTATGAAAATCTTTAATATTTACAGCAGTAATCAGATCCAATGGGGGGGGGGAAGGGGGGAACACTCTTTACTTGCTTCTTTATACAGCCTACGCAAACCCCGAAAATCTATGAAATGAATCAACAAGTTGAAGGTCACTAGGAGAGCACACTCAACCTCAGGCAAGCACCAATGAAGGCAATTCAAGCAAGAAACAATAACCTGCACTCAACACCATAAGTTATCCGAACCACTTGGGTGATATGAACTCACTGAATCACCGCATTCCGATCACGCATTTCCTTTTCTTTCTCAACAGGGAGACTGCTTTCGAGTTGCGCAAGGTGATTCCGGGGAAATCCTCAGTGTCCCTCCAAGCTCCATGGGGACTAGGGGAATCAGAGAGTGGAGTACATCTGTGATTAGTGGCCTGTAACTTGGTTCTGGCTGCACACAGAGCACAGCCACCGCAGCAACTTGGTACAAGTGCTTCAGATCCATTGTGTTCTTGATCATGGGGTCAATTATGTTAGGGAGCTTTGATCGGTCAGTTAGCTGAGGCATGGCCCATGTAACAATTGACTGGCACTGAGATTGTGCTGTCTTCTCAACAGGCCGCCTTCCCAACAGAAGTTCAAGAAGTACTACTCCAAACGCATATACATCACTCTTCTCAGTCAACTTCCCATCTAACAAGTACTCGGGAGCTACATAGCCCAATGTCCCAGAAAGCTTCAAACTTCCTTTGCTGTGATTCCCACTGGTCACTGCAAGGCCGAAATCTGAAATCTTAGCATTGAAATCTGAATCTAAAAGTATGTTAGATGACTTCAGATCCCTATGGATAACTGGTGGATTGCAGTGTTCATGAAGATATTCTAATCCCCTTGCTGTGTCAAGAGCAATCTTCATCCGAATGTGCCAGCTTAGAGCCGACCCATGTGATGGTCCATGAAGTTGTGCTTCCAGTGATCCATTCTCCATCAGCTCATAAACAATGAAACGGTTCTCTTCATGAATACAGAAGCCCAAAAGGGACACTATATTCAGATGCCGAATACTGCCAAGTAAATCTAGCTCATTCTCAAATTCCTTCTCACAGTCCTGTCCCCTGTGGCCAAATCTCTTGACGGCAGCAACAAGTCCTCCTTCAAAATTGGCCTTGTACACACACCCAAACCCACCAGCTCCAAGCAAATTGCTCTCACTGAACTTCCCGGTCGCCGTCTCAAGTGTATTATACTCCATCATCGCGACAAGTCCTTTCTTGTTAGTCTTCATTGAGTTGAACTTGTTCAGCATCGGCACCAACGCAACCCTTGCGGTATCTGAGCTGCTTCGGATGTTCTTGGAGTCATGGGCTCGGTGAGAATGCCGGCACAGGATGCAGGCATACAATACGGTGGCGACGATCGCCATGCCGGCGACGGATGCAAGGCCAATGGCAATGATAAGCTCCTTGTGGAAATGATGGTGTTGCCTCTGCTCCATTGCTGCCACTGCACCCAAGGGAGGAGAAGGCGCCACCGCGGCGGCGGCGGCGGCGGGAGTCACGGCGAGGCTGCCATTCGAGGAGAAGATGCCTCCACCTCCACCTCCACCTCCGGTAGCCGGAGCCGGAGCAGGGGGAACAACCCGCGGTGTCGCCGGCGCCGGTGAAGGCCCCGGTCCAGGAGAAGGCGAGGCCGCCGCCGCCGGCGACCGGTGAGTCCTCCCATTGGCCGGCAACGAGCAGCTCAGCACCAGCACCAGCACCAGCAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.948524
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0149000.1 2 4604150 G C
Osa02LNT0149000.1 2 4604403 A G
Osa02LNT0149000.1 2 4604552 T C
Osa02LNT0149000.1 2 4606109 T C
Osa02LNT0149000.1 2 4607169 T C
Osa02LNT0149000.1 2 4605281 C T
Osa02LNT0149000.1 2 4607351 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0149000.1 osa-miR6245 Translation 5.0 17.892 1 21
Osa02LNT0149000.1 osa-miR2055 Cleavage 5.0 13.973 1 21
Osa02LNT0149000.1 osa-miR2876-5p Translation 5.0 17.047 1 21
Osa02LNT0149000.1 osa-miR5509 Cleavage 4.0 21.912 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0149000.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
Osa02LNT0149000.1 2 nan Physiological trait Eating quality RM3865 RM3294
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