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

>Osa02LNT0166800.2

GCCTTTACTAGACACAAAAACATTTTATTCGCCTTGCAAATGATCTGCCTCTTGAACAGGATGTATACAATGTATCACAAGCATGTGACTAATAGTTGCACAAAATTCAATAGGAAGATAAAAACTAATTACCATCCAACAGTAACTAGCCCCCCCCCCCCCCTTCTCTCAAAAAAAAAAAACCTTTATGATGAATACGTTGCCTAGGAAGCATATCATAAAAAAAACAAAGATGGCATAGCTTCAGATAATACAGTCCTACGCAATCCAAGGAGCCATGAGCCAAGGGCTGAGAGGCTTCACCGTGCTTTTCCAAACTCAGGATCCCTTTTAATTTGATCGAGTATCAGAAGTCTGGGGCCAGGGGGAATCTTCACATCTCTCAGAGCACTGTCGGTAAGGAGAGGCAAAGTTTGATCAGTGAGTAGACCCTTCTTAAAATTCTTCTCATATTTCTCGAGGCCTAGTTTTTGCAGCATGCTCCTTGCACGGGAGTAGTACAGATCCTCGCTCTGTGGCTTTGAGAACTTCTGCCCAATCTGAACAGAATGAATTAACAGGTAGAACTAGTAAGCTACAAGGAATACTGGATAAAACATCAAAACGTCATATCAATGGTTGAAGGCTAGTGACAAGATAACCAAATAATAGTAAATTTACTAAAATCAAAATGTGCTACTAAAATTATGTGTGATAATTCCACATGCAAAGATCAAGGTAGAAAGAAAAATACTTATAGAACCTGTACTTCAACAGAATTGTTTCATCGGAATATGGGTTTCAAATTTAAACTCACTATAATTTGCTCTCGCGTATCCCATCCAAAATCGTCAAGGTCCTATCCAAATACTTCCATAAACAGCAAAGTAGCTTCTTTTGTACCAAATCTCTTCACTTCTGGAGGCCTAAGGTTAGGAGGTTTGCATGTCTAGCCAAGCTCTATGGATACCTCAAAATGGAGTTTGTAACAACTAACAAGAAAGAAAAAAAGTGGCATGGTGACACTGCCAAAGCTCATTGCTGTCATAAATACTTAGTCTGTTTCATCATTTCCATACATGATAGACTTCAACCGACAAAATAAAATGAAGTATACATGCGGTACCCATATGAATTACATACTCTAGCTACGCTTAAGCAAGATTGTTAGAAATATACTCCTATAGCTAGGCTTAAGCAAGATTGTTAGAAATATACTCCTAAATTAAGCAAAACATTTCAGGAGTCGTTAATATCTGCCAAGTTATAGCAGGTCTCCACAAGGAGGATAAAATTGTATTTCCACAAATAGTGACATACCAAATCAACTTCAGGGTACAGAAGATGTCAAAGGTTAGTAATAAAATGGAACGAGCAGGAAAATGACAACAAAAACCATTAACCAGCAAATACATCTAGATTCTTACCATGAAAAAGCCACCTTGAAATATTGCAAAAGCAGCACCAGTTGTAATTGCATTTGCAACTGGATTGGGAGTTCCCATTCCACTAACTATGGAGAACAGAGCACCAGAACCAAAAGCAGCTGCCATGCTGCCCTGGATGTCCTCACCACCACGTATCCTTCTCATTACACAAGATATGCCTGCATTTGCACCAGTCATAACTGCAAAATTCCGGGCTTGCACCAATGGTCCACCAGCTAAAGCCTGAGCCTGCTTGAAGGACGCCATGGCTTGCGGGTTCGCGTTGGGCGGCGGCGGCGGCGGCGTCGGGAACGGGGAACCCCCGTCGGCGGTGAGCGTGCCCATGAGGCCCCCCAGCGCCGCCCCCTGCACCGCCCCCACGGCCGTGGTCACCGCGGCCTCGATGTGCGTCGGCTGCTCCGCCATCCACTTGCGGAACCCCGCCTCCAGCGCCTTCACGCGCCCGCTCCACTCCTCCACCAGGCTCCCCCCTCGCGCCGCCGCCGCAGACGCCGACGACGACGACGCCATCGCCATCGTCGCTCACCACACCAACCTCTCTTCTCGCTGCTTCGCTTCTCGTCGTCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.906416
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0166800.2 2 19257380 T C
Osa02LNT0166800.2 2 19258058 C T
Osa02LNT0166800.2 2 19258316 A G
Osa02LNT0166800.2 2 19258457 A C
Osa02LNT0166800.2 2 19258826 T C
Osa02LNT0166800.2 2 19259307 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0166800.2 osa-miR2864.2 Cleavage 5.0 15.067 1 21
Osa02LNT0166800.2 osa-miR2864.2 Translation 4.5 11.923 1 21
Osa02LNT0166800.2 osa-miR5500 Translation 3.5 17.433 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0166800.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0166800.2 2 nan Morphological trait Root RG171 RG157
Osa02LNT0166800.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0166800.2 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0166800.2 2 2-3SY Physiological trait Source activity RG171 RG157
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