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

>Osa02LNT0167300.2

TTCACTGCTCCTGTGCACTGAACTACCTATACAAATATGCTGCTAAACGTTACAGATATGTACATCAGCTGCAGACCTTGATCAATGCAAATTGACTAACAGTTTACACAAAAATTTCAAGGTCGAAATAGTGCGCGCCTATCAATGGGTGTCAGAACCATCCAGTCCAGTTAGACGTTGCGCCACTTGATTTAATGGTTTAGTCAGATATATCCACCAATCAATTGGATGCTGATAAAAATGACCATCCAAGCAGACCAAAGGACCATGAAGGGATAGCATGAAAGCCAAGTATTTCCATCAGTCTGATTCAAGCTCCTTAAATCTCTTTTCCCATTCCTTGACTTCATAATCCTGATCCAAAAGATCCTTTTCGGTAGTGTAGACGATCTCCTCTGGAGTAATTACCTTACGTTGAGCCATGTCGCGTGCACTGAGTAACTTTCTTCTGAGAGAAGATTCTGGCAATGCAAGTTCCTGAGCTCGCTGTTCTCTGGCCTTGTTCCTCCTTTCAATGTCATTGTTGGTCTTGCGGAGTAGAAACCATCTAAACAACGGTATTGCAAAAAAGGAACCAGCATATACCTGAAGCAAAGGAAACAGTTGCGCAACAAATGAGATAAGTCCACCAGGTGGCACTGTCATTTGCTTCAACAGGTTCCCAAGAATGATCACACCAAAAAGATTGAGTCCTCCCAAACCAGCAACCATTGCCCTTTCAGATGCATTTGCTTTGCTGAATTTCCATGGTTTCTCCTCTAAGTACTTTTCAACACTGCTAAACATAGCAGACCATTTGTTACCAACATATTCTCTAACCCCACTTCCTTTTGATGAAGCAGTACGTTGCAGTGATGGAAACCTATAAAGAATGTTTCCCTGTTCATCAACTTCTGGGTGTCCCTGGAAGCGTAATAGAACTGGAAGAATAAATGATTCATCATCCTTGGATTGTTCTGAAATTGGTGGCACATCAAGATACGGTGCTAGTTCTTCTGCCGTGACAACTCCACCATTCGATGAAATATATTGCCCAATCATCTTCCACCTCTTATCTTCAAGACCATCATTTGGATCACCATCTCCAAATACAAATGAAAAGATCCTTTTAAATTACAGATTCAATAAAATTCATCCCATCTTCCTTTTCTACCCGCCGCCGCCTCCTGTAGTAATCAGCGTCCAAGTACCAAAATAAATCTGTTGGTATGATGATAGTAGAGTCATAGGATCTCCGTCGCCTGCCGCGATTATCTTCATCACTCGAGCTTGAGATAATGGCAATGATGGTAGTGTATACAAGCACAATGGAGGCGATGAGCGCTGTCCCAAATGACACTCGCACCAAATATGCACCCACTTCCTTAGTTTTGTCGATCAGCGGCTCGACCTTCATTCTGAACGACTTGCCAGCAAGCTTCGCCCTGTAGTCTTTAGGGAAGACGTACAGCACCTCCCCTTCCTCCGAGACCTCCAGGAAGCCGCCGGTGTCAGCGGCGAGCGCTTGCAGCGCGCGCTCGGCCTGCGCGAGCTGCAGCCCCGCGCGGGACGCGACGTCGCCGATGGTGACGCGGCCGCCGAAGTGGTCGACGGCCTCCATGGCGCGGTCGCGCACGCCGGAGGGGAGGCGGTCGGTCTCCACGGCGCCGCCGGGGCGCGCGAGCCCCGGCGCCTGGATGGTCCCCGCGCGGGCCCTCACGTCGTGGCGCCACCGCGGCGACGGCGGGTGCGGGTGCCGGCCGTGGTGGTGGTGGGCGACGCGGAGGTGGAGGTGGAGGTGGTGGTGGTAGGGAGAGAGGGGGAGGAAAGGGGCGTGGCGCGGCGGCCTGCCGCGGCGGTGAGGCGGCGGGGGCGGGGCGAGGCGGAGGTGGAGGGAGAGGGAGGCGGCGGGCGCCATGGGTGGGGGGAGGTGGTGGTGGGGGTTTAGGGCGAGGTGGGCATTCTCCGGTGAGAGGAGTGGCTGTGGAAGGCGGAAGGGAAAGGGGGGAGAGAGGCGGTGGTGTGTGCTGGCCGTGGCCACGAGATCGGATTTGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.727253
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0167300.2 2 19624249 A G
Osa02LNT0167300.2 2 19625624 C A
Osa02LNT0167300.2 2 19627960 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
Osa02LNT0167300.2 osa-miR5533 Translation 4.5 13.691 1 21
Osa02LNT0167300.2 osa-miR5537 Cleavage 4.0 12.629 1 22
Osa02LNT0167300.2 osa-miR5537 Translation 5.0 17.886 1 22
Osa02LNT0167300.2 osa-miR413 Translation 5.0 20.828 1 21
Osa02LNT0167300.2 osa-miR815a Cleavage 4.0 9.739 1 21
Osa02LNT0167300.2 osa-miR815b Cleavage 4.0 9.739 1 21
Osa02LNT0167300.2 osa-miR815c Cleavage 4.0 9.739 1 21
Osa02LNT0167300.2 osa-miR444b.1 Cleavage 5.0 21.185 1 21
Osa02LNT0167300.2 osa-miR444c.1 Cleavage 5.0 21.185 1 21
Osa02LNT0167300.2 osa-miR5521 Cleavage 3.5 12.096 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0167300.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0167300.2 2 nan Morphological trait Root RG171 RG157
Osa02LNT0167300.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0167300.2 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0167300.2 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