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

>Osa12LNT0113000.2

GTGCCGTGCTTAAATATTTTCATTTATGTGACGAATGCAGCGGAGCAGTGAAAATCATGATTGATAAGGTAAAGTGCTGCTTGCTTGATGCGACTGTTAGTGGTGAGGTTAAACAGAAAACTGCTGGAAATGGCCGTTTGGTTTATACATGTGGCTTCATTATATGTTTTGAAACCTGTAACAATGTTTAGTATGTTTGTTGTTTGATCATGTGAGGGTCCTAAATCCTACTAGTAACTCAGTATTTGCTAGTGAAAGAAGTCAGGATATGCTGTTTTCTCCCCTTCTCATCTATGACCAAAATACATTCTAGAGGCTTATTATAGAAAAAAAAAGTGTTTCAACAAGCATACCGCCAAAGATTTTCTGTAGTCAAGTGCGCTTAAACACCTTCCGGGACATTGAAGCAACAGTATAAAGCATCCTTCTGGACTCACTTGACAATGGGGGCCAGCCCATCGAACCAAGATTTCCCATTGATTTGATTGGGTTACACGGGTGGTCCATACTCTTGGTCCCCTTCGTGCTCGCTTCAGCACTTAGCAAGTCCTTCCTGCTTAGTTGACAGGATGGAACTATCTTTAGCTGCAACCGTCGAGACAACACCGATTTCCAGTATGGGAAGAACATATCTCTCACTTCGCGTATGGCTGATCCTTTAGGTGGTTGCTTTCCCAGGATCATTTTACTAACTTCGCCTATATCAGAAGATGACTTGTCCGCTTCAATAGTTTCCCCATAGCCCACTGTAATCAGCAATGAAATTGGTCATGAGACAGCTTATGAAATGGAAAGCATAGTTCCGAGGTTGGTGTACAGAGTCTGGTTGCACCCCCTTTTGCGCTGGATGCAAGTCATAAGCTTTCTGCAATGTTCCAAAGTTGTGCATTCACCACAGCAAATGACTTTGTAATGGGTGGACACGTAATAAAGTTTCACAGCTATTTTCCTTTCTAGTTTATTTTAATAAGAAATAGGATCAACCAAAATGAAACACACCTCTTTGTGAATCTGACTTGCCAATCGACATCCCCCCACCATGTTGGTAGCATTCAAGTTTTCCAGTGTCAATGCTTTCCCCAGAATGAGCAATGCCATTGCTTTTTAGAATTGATGAAACATGTTCAACAATTTCGTCATGGCGCACCTGTGAATGAGTTTGAATGTATCCCTCAAGAGCTTCACCGGCTTTGTGAACAATGCCAACTAGTACAAGTGCTGTAAGAAGGGCTTCCTTCTTGTCTTTCAATCTCTTTAGTGCCCTGCCATTCTTTCCCTCCTTAACCATATTTAACCCCTCAAGATGTATGGTGTTAAGAGCATCATCAATGTGGCTTTTAACAATATCAAACCCGTTCAGAGAGGCTTTGCCACTGCTGTTGTTAAGGCGGCCACGGAGCTGCTTTTGAGCAGCCAGCAGCAAAATTGCTGCCTGGACATGCTTTTCTTCACGAATGTAATTCCATACCTCGTCGACAATGTTATCTGTCTGTTTGGCAATTAATCTAGTCGTGTCCAAGAACATTTTCATCTCAGGAAGACAAAGGAGGAAGATGAGGTTGATGATATGGTCCCCATGAGCCCAATGATCCTCAATGTACTTGTGCATGCTGGCATTCTCGACAGCAACATGGAGAGGGAGGAGGCCCTCAATGACATACTCGCCCTTGGTGCAGATGTTCGCCGATGCGCCGTAACGGAAGAGGAGTTTGACCATGTCGACGCTGAAGTTCTCGGCAGCCATGTGTAGGGGGGCGAAGCCATAGCGGTGGCGGGTGTTGGGGTCAGCGCGGCGGCGACGCAACAGAGGAGAGGTGCCCTGGAGTGCGACCCAACAATTGTAGACTTGAAAGAATTGCTTGACGCTATCCTTCTGAATTGCTGGACGAAGTTTCGGCAATACAACACGGACGTACTTACTTAACTTCTCCTGGAACTTTTCCTCGAAATATGCTTTATATTTAGGATTTTTTGGCACGATACCATGGATAGGATCACAGTTGACGAGATCCTCAATCTTCTGCTTCAGTGTCCAAGATTCGTAATCTTCGGCTCCAGCTTCGGCTTCGCTGGGGGTGACTGGTGAAGGACAGCTTCCATCTTCCATCGTCATGCAGCAACGTCCGGGGAACCGGCGGCGGCGGAAACCCTAGATTGATCCCCTCCCGGCCTTGCCCAGGAAAGGGTATGAGGCGAGGGGTCGCCGCTGCTGGAGAGGAGAGGGTGCGGTTGCGCTGGGCACCCGCGGCCGCCGACGGAGAAAGGTAGATCAGTAGTCGAGGGTAGGCGGCGGCGACGGAAGGCAGGTTGGGAGCAGTGGAGGAGGCTAGGTTTGGGGAAGAAATCGATGATT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.90152
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0113000.2 12 921828 C T
Osa12LNT0113000.2 12 921903 A T
Osa12LNT0113000.2 12 922065 C G
Osa12LNT0113000.2 12 923270 T C
Osa12LNT0113000.2 12 923904 T C
Osa12LNT0113000.2 12 924851 T A
Osa12LNT0113000.2 12 925905 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
Osa12LNT0113000.2 osa-miR5795 Translation 5.0 8.546 1 22
Osa12LNT0113000.2 osa-miR395b Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395d Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395e Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395g Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395h Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395i Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395j Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395k Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395l Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395s Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395a Cleavage 4.0 16.619 1 21
Osa12LNT0113000.2 osa-miR395u Cleavage 3.0 16.619 1 21
Osa12LNT0113000.2 osa-miR395m Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395n Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395p Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395q Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR395w Cleavage 3.5 16.619 1 22
Osa12LNT0113000.2 osa-miR395r Cleavage 4.5 16.619 1 21
Osa12LNT0113000.2 osa-miR815a Cleavage 4.0 12.323 1 21
Osa12LNT0113000.2 osa-miR815a Cleavage 4.5 18.834 1 21
Osa12LNT0113000.2 osa-miR815b Cleavage 4.0 12.323 1 21
Osa12LNT0113000.2 osa-miR815b Cleavage 4.5 18.834 1 21
Osa12LNT0113000.2 osa-miR815c Cleavage 4.0 12.323 1 21
Osa12LNT0113000.2 osa-miR815c Cleavage 4.5 18.834 1 21
Osa12LNT0113000.2 osa-miR1850.2 Cleavage 4.5 20.553 1 21
Osa12LNT0113000.2 osa-miR1882e-3p Cleavage 4.0 15.071 1 24
Osa12LNT0113000.2 osa-miR2097-5p Translation 5.0 14.539 1 22
Osa12LNT0113000.2 osa-miR2878-3p Translation 4.5 17.882 1 24
Osa12LNT0113000.2 osa-miR395y Cleavage 4.5 16.619 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0113000.2 12 gy12 Morphological trait Seed RG869 RG98
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