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

>Osa02LNT0149200.1

TAGATCGCATGGTGCATGGTGAAATTAACCCCTGAAAGTTTGCTGATCACAACAATATTCTACTCCTACTTGGTTCAGTTCTCTGTCTTGTTAGTAACATCGTACATTACTTTACATGAGTAAGAAATGGGCAGATCCGTAAAGGATACCGTATCACAGGCAAACTAGAAAACGCAGCTTACAAAGAGTGCAATATGGCGGAAAAACAAAACTATTCTTGAAAGAATGAACTAATCAGTCTATTACCTAGCAACTCCATTTTGATGATTTATGGTCGATGGTCGCCAACTTCTCTGATGCAGATGCTCAAGATGACACCTACGCACAATGATCCATCCAGTTGCTGATATATGAGCATAAGAATGAATGCATGTTCAGTAGAGCACCGGATAGTTGTCAGACTCCGCATCATATTCATACGGATAAGGCTTTCATGTTTGTATCTGCCCAGACTTGGATGGTTGAATTTAGTACTTGATCACATGATGTCGCAACCATAGTTCATACATAACCATGTGGAACGCGTCGTAAGGAAGAGGAGGTGAATGCCACACAAAGTGTTTCTGTACCTGCAATCCCAATTAAACATGTTACAGTATAGTACCGCACTGCTGAAACTTCAGTGCCTCTAAACAATGGCTGAATCAAATTATTTACACGCAAACAGACCTGAGGGCAGCTAATGTTCTGAACAAGACAAGTGACACATTACAATCTTGACCAAGTAGCTTATTTGTACTATGAATGTGATCTACTATATTTATTTTCCATTACAGTTAAGTACAACGCTGAATTACATGCTTCCTTTTGTAAATAATTCGGCGGCTTCATAGAAAAAAAGGAGGGTCAAGAGTTGCAAACCTGAACAAGAGATTTGTGCAATTCAACAAACTCTTCCTGTGATATAGATTTAAGTATACTTTTTAGTTGATATACATCACGCTCCTTAAGTACAACAGCAAATTTTCTCCAGTCTAGGATATCATTGAAAGGCAAATCGTAGTAGTCTGACAAAATAACAGGAACACAACCGTAGTGTATTGAATCAGATATACGGGCACTATTAACTTGAGAGCCACCAGGACAAATACAGAACTTTGTGTGGTAGAACTGCTTCTGGTAAACCAGCTCTCCAATAGCTCTACTGATCCGATTGTTACTGATAGCAAGCTCTGTATCATTCTCCCAGACTTGTGCCAAAATGACTCTTATTTTAGAATTGCGATGGCCAGCCCAAAATCCAAGGATTGTCCTGTTCTCAACATCATTTCCTCCTTCAGGCAGAGCAAATGGCTGCAATACTTGAGGAAGAGCGATATCCTTATGCGGTATAAAGTCAACATTATAGCTTGGAGAACAGACAACTCTAATAGAATTCTTCACCATGAATGGAAGTCCTTCAAAAGCCCTAACACCTACATCATGGCAGGTGACAAAGAAATGGTCCGCTCCAAGTGTCCTGTTCCAGTAAGGATACTTGTTTATCAAGCCTTCCACATAATCCTTAACTATTATTGTCATGTTCTCATATGAAGTACCCTTGCCGCGCATCTTGTGGGGGGAGATGGGGACGAAGAAGAGGTGCGCCTTGTCGGGGTCGCCGGTGCGGAAGCGGCTCTCGCGGATGTTCTGGAAGAAGTAGCCCTCGCTGGCGTACTTCCCCGTGAGCTTCCGCGGCGTCTGGTAGAACGTCTTGGGGTCGCCGTCCGGGTACATGTACACCTTGAAGCTCCGCTCCATCTCCGCGTACCCCGCCGCGAAGGCCTCGGCGGAGTGGTACACCGACGGCCGCGCGAAGGAGGAAGGGCGGGAGCCGCCGATGGCGAGGGAGGGTGGGGCCGCGGCGGGGCGGAGCGAGCGGAGGGAGAGGAAGGTGAGGGAGAATAGGGCGAGGGCGGCGAGTAGCAGGAGCGCTCGGGGGAGGGGCGCCGCGGCGGCGGAGGCGGCGCCGGGGAGGCGGCCGGCCATCGCCGGAGTTGGGGGGAGGGGAGGCTGGAAGAGTGATGCGAGGGTGGATCGGAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.874062
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0149200.1 2 4840272 T A
Osa02LNT0149200.1 2 4839276 A T
Osa02LNT0149200.1 2 4840933 C T
Osa02LNT0149200.1 2 4841230 T 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
Osa02LNT0149200.1 osa-miR5536 Cleavage 4.5 12.28 1 22
Osa02LNT0149200.1 osa-miR156c-3p Translation 4.5 9.788 1 22
Osa02LNT0149200.1 osa-miR156g-3p Translation 4.5 9.788 1 22
Osa02LNT0149200.1 osa-miR390-5p Translation 5.0 24.973 1 21
Osa02LNT0149200.1 osa-miR814a Cleavage 5.0 14.473 1 22
Osa02LNT0149200.1 osa-miR814b Cleavage 5.0 14.473 1 22
Osa02LNT0149200.1 osa-miR814c Cleavage 5.0 14.473 1 22
Osa02LNT0149200.1 osa-miR810b.2 Translation 4.5 10.557 1 21
Osa02LNT0149200.1 osa-miR1442 Cleavage 4.0 15.534 1 20
Osa02LNT0149200.1 osa-miR1849 Cleavage 5.0 10.317 1 21
Osa02LNT0149200.1 osa-miR1866-5p Cleavage 5.0 14.255 1 24
Osa02LNT0149200.1 osa-miR2095-3p Cleavage 4.5 12.434 1 20
Osa02LNT0149200.1 osa-miR5521 Translation 4.0 16.323 1 21
Osa02LNT0149200.1 osa-miR5492 Cleavage 4.5 11.756 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0149200.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
Osa02LNT0149200.1 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