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

>Osa11LNT0110100.1

AGACTAGAGAAACTTAAGGTCATCCTCTTGCTGCTCCAGGACAATTGTTGCGAGTGCTCGTCGGTATGCCGCTGATCTTGCATTCCTTACAAGGACACAGATGTCTTTGCGCTTCAGACTTTCATGTGTCCTCCATTGCTGCCGCCTCAACACCGCGAGAAGCTTTGCTTCGCAGAAGGCAACTGCAACAGCATCTTGCCCACTACTTCCATGGACAAAACCCGTCGTGACGAAGCCTATCGGCCATCTGAATGCCTTTCGTGTAGAATCGCCGTTTGGCAGCTGGAGATTGCTGGTGCTAGGATCCAGCCAAGAGAAATAAGAACTTACATGGGATTGAGGGAGCTGGAGTTCCCATTTTTCTAGACATTCTTCTTCCTCCTCTTCTGATCTGGTCTTCCGGTTCCAGGCTGAAAGATCTGATGGGAGTGGGGCACAAACAACAGCACCCTCTTCAAAAGAACCTTCCTTAAATGCTCTAATCAGCACCCTTACAAGACATAATCTGTTTATAGAGCATCCCGTTTTCACATTATCACCAGAAACTAGACTGGACTTGCCAGTAACTGCTTCCATGTCAGATGAATTCAAATACTTCTCATCAATTTTTTTCACATACTGTCTCAACACTTGGATGGTTCTTGGCACAAGTAGTTGGAAGGATGTAGGAGCACTTGTTGGTGATGATTCTGCATCACCAGAGTTGGAATTTACTGGGATACTTTCAGATAATACTGTAGCGACGCTCTTTAAGTCATCTTCAAGATTGCTCAGTATGCCATCTCCTTTACGAAAACTAGCAATGACACAATGCCATAAAGGTGGTACAGGAACCCTTGGAGGTCTCATGGAAGAAGGGCGGCAGTTGGTAGCTTTATCGAGAACAGCAGCCTCTTCAGCCATAAATAATGAATAGGCTTTGCTGTCTGGATAATCATAAGGGAAGCATGGCATCTTGAGCTTTGAGGCTATCCACCGTCTCTCTCTTAAGCCAATAGCATGTGCACCATGAGATACAAGATAAAACCAGAAAGGTTTTACCCAACTCAAAGGTAGAATAACAGACCACCCTACAGAGATCAGACTGCCTTTTGCATGTTTCAGAAGAATAACAGGACAGGATCGACCAATGGAATCCTTCTCTTGACTTGTTTGTCCTTGATCATTTCCAGAATCAAGGCAGAAAAACTTCATACGTCTGTGGTGTTTCTCCATACAAAGAATTTTCTCATCCACAGGAGGATTTATCTTAAGGCTGGAATCCCACAATTCTCTACAGTCTGAAAGGGCCAAATCGTGATTTCCTGGGTTCAGCCATATCGATGACAAAATATTCCCAATCCCTGATGGTGTCTCATCAGCATTTGGAACTTGGTATTCCTCCATGAGTTGGTTATTCTGGTCCAGGGAAACTGTTTTAGAAGAATCTGTTCCCTCGACTGAATTATCTCTGGGGTCATGGACTATCATGGATAGTATAGCACCAGACTGAAGAATGTCAGCATTATCAAAAACAGATCTTTTCAAAAGATGAGAGCCAGTAGAGCAATACAGAGGATCAGTTGATGTAGTCACATTATTTTTATTAACTAGCTTGGTGGATATACTTGGATTGCTAACTGGCTTCAATATACTCTTAAGAGATTGCATAGCATTGCTTCCCATGACTTCTAATCTTGCCATTTTCCCCTCCAGTGAGCAACAACTGATTGTGTCACCAGATTCTTGCATCTGTTGATGACAAGCGGCTCTTAATGTTTCAAGCCCTTCACTGAGAGCAGAAGGGTGGATCCATATCCATAATTGGCGCCGTAAAGAATTTCTTTCATCAGATATAATTTGAGAATTGGACAAATCTACATCTTCAGTCTCCAATTCACCACCCTCCCTTAAAAATGGACGCCACAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.436712
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0110100.1 11 27384767 A G
Osa11LNT0110100.1 11 27384452 T C
Osa11LNT0110100.1 11 27384073 A G
Osa11LNT0110100.1 11 27384381 T C
Osa11LNT0110100.1 11 27384939 A C
Osa11LNT0110100.1 11 27385171 A G
Osa11LNT0110100.1 11 27385231 T A
Osa11LNT0110100.1 11 27385271 A G
Osa11LNT0110100.1 11 27385320 A G
Osa11LNT0110100.1 11 27385468 G A
Osa11LNT0110100.1 11 27385513 A T
Osa11LNT0110100.1 11 27385515 T C
Osa11LNT0110100.1 11 27385870 T C
Osa11LNT0110100.1 11 27386043 A G
Osa11LNT0110100.1 11 27386093 G A
Osa11LNT0110100.1 11 27386184 A G
Osa11LNT0110100.1 11 27386210 T C
Osa11LNT0110100.1 11 27386331 G A
Osa11LNT0110100.1 11 27386612 A G
Osa11LNT0110100.1 11 27386663 A C
Osa11LNT0110100.1 11 27386702 G C
Osa11LNT0110100.1 11 27386787 A G
Osa11LNT0110100.1 11 27384842 T C
Osa11LNT0110100.1 11 27384184 G A
Osa11LNT0110100.1 11 27385066 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0110100.1 osa-miR5834 Cleavage 4.5 20.188 1 21
Osa11LNT0110100.1 osa-miR439a Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439b Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439c Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439d Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439e Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439f Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439g Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439h Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR439i Translation 4.5 21.879 1 21
Osa11LNT0110100.1 osa-miR1426 Translation 5.0 18.747 1 21
Osa11LNT0110100.1 osa-miR3981-3p Cleavage 4.5 13.799 1 21
Osa11LNT0110100.1 osa-miR1860-5p Translation 4.5 20.133 1 21
Osa11LNT0110100.1 osa-miR1882e-3p Translation 4.5 19.294 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0110100.1 11 FON3 Morphological trait Panicle/flower RM4601 RM1233
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