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

>Osa11LNT0095200.2

TCAGTCATTTTCCATCACATCAACCTGTCATACACACATAACTTTTCAGTCACATCATCTCCAATTTCAACCAAAATCCAAACTTTGCGCTGAACTAAACACAGCCTAAGGTGGATAAATATGTACAATGGCATGTACACAGCAAAATGGTGAAAAGTTATTTACATTTTATCCTTACTTGGTTATTGTCGCACAGCTTAGCTAGAAACCTTGCAAGTTAAGAAGAGATGAAACGTGGCATATGTACACTAGTCTTGCAGGAAAAAGAAAAAGAAAAAGAAAAAGGATACTGCTATATTGCTTCAGGCCTCAACCTCTTCAGGTACTTGTTCATCTGTTGCTGAAACGAACTCTTCTGTTATGCTCGTATCTGGGTTGGCATCCTCCATGTTTCTATCTGGATGGGACTCCTGTTGCATTATGCTTTCCTTTATCATTGACATCAGAGATTCCAGGACATTCTTGTTTTCAGCGAGATAACATTTAAGAGCATCCTTTCCATGGAAATTTTGCCCGTTCAAGTGATAGAATACTCCTGATTTTGTTATGAACTTGTGTTTGAAGCCTACTTCAATAATCTCCAATTCACGACTCAGGCCCTTACCAAACTCAAGCTCAAGGTGTACAGTCTTAAATGGGGGTGCATGCTTGTTCTTGACAATCTTGACCTGAATTTGTGTGCCTACAACCTCTTCTGACTTTTTTATAAGACCAATCCTTTTGGTGTTCAAGCGGACAGAAGCATAGAACTTTAAGGCATTCCCTCCACAGGTTACTTCTGCTGGTGCTCCGAATCCACTAAATGTGCTTAATTTCGATCTTACCTGATTAATAAACACCAACATTGTCCTGGAGCGAGAAAGAGAATGGCTCAACTTGCGAAGTGCTTGACTCATAAGCCTTGCTTGAAGTGCAACATGGGCATCTCCCATCTCACCATCCAGTTCAGTTTTTGGAACAAGAGCTGCTACACTGTCCACAACCACAACATCAATAGAGCCACTTCGGATTAAGATATCAGCAAGACCAAGGGCCTGTTCACCACAGTCTGGTTGAGATAATAACAGGTGTTCTGCCTTAACACCTATAGATTCTGCTAATGTTGGATCCAGGGCATGCTCGGCATCAATAAAAGCACAATATCCCCAAACAATTATTTACCTCCATTCTTCTGTGCTTCAGCTATGATATGAAGTGCTAAAGTGGTTTTTCCTGATGCCTCTGGACCATAAATTTCAACAACCCTTCCCTTCGGGAGCCCACCAATTCCTAAAGCCATGTCCAATGCAAAGGATCCAGTAGATATGACAGGAACTTCTTTAGGACCGTAAGAGTGATTTAGCCACATAATTGACTCCTCACCAAATGCAGACTTAATTTGGTCCAAAGCTTGTTGTAGCGCAAAGTCCTTCTTCTTAATGTTTGCCTCACTGTAACCATCTTCACTTGAATTTGTCTGGTCTTTCCCTTCTGCAGAGAATCTCCACAACTGAACTCTTGGTGACACATTTCTATTGCAGGATTCCTTCAAAAACAAAACAGAAGGCAATAATTATGGCCTGAATGTTGATTTTTGTGTTGAGTCATAAAAAATTCTTTCACCGTTCTACTAGGAGAAAACAAGCAGGGCTAGATTAAGTTGTCCGCTGTTATAGCCAATCCATGCAGATAAAAAAACAGGTAATTAATCGTGCTGCCTTAATCAACATGGTAAATGGTACACAACTCCAAGGGCTTGCAGTTCTAGGGGATAACGACAATCAAAACCTTAAAAGACCTCAAGTAGTGGGCACTGCATGCTCATCGTCACCAGTATCCATCACATCAGGTTCAGAAACTTGTTATACCCATATATTTACCAATGCATCATCAGCTTTCAACTCAAAGGGATTTCCCCCTTTTGTAAACCCACTAACCCAGCAACAATGAAAATCCACAAAATCTAAGAAGGATACAACGAAATCAACAAAAAAAAAAGAAAGAAAAAGAAAAGGAATCGATTGGCTTCGGATGGCTCGAGGCACGCGAGATAACTTCCGGACCACGCGGCCATGGCCCCCAACGACGAGCCTATAATGGCCGCGCATGCACGCCCGACATGGGGGCGCCCAGCTGTCCGTCCTGCAGTTGTGAGAGCGCTATCCCCGCGGCTCGACGCCTTTGATCGGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.356424
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0095200.2 11 11362777 A G
Osa11LNT0095200.2 11 11361842 T C
Osa11LNT0095200.2 11 11362022 G C
Osa11LNT0095200.2 11 11362128 A C
Osa11LNT0095200.2 11 11363172 A G
Osa11LNT0095200.2 11 11363237 A G
Osa11LNT0095200.2 11 11363852 C T
Osa11LNT0095200.2 11 11363856 T A
Osa11LNT0095200.2 11 11364111 A G
Osa11LNT0095200.2 11 11364664 G A
Osa11LNT0095200.2 11 11365043 G C
Osa11LNT0095200.2 11 11366541 C A
Osa11LNT0095200.2 11 11366817 T C
Osa11LNT0095200.2 11 11367970 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
Osa11LNT0095200.2 osa-miR6246 Translation 4.5 14.58 1 23
Osa11LNT0095200.2 osa-miR5337b Cleavage 4.0 21.827 1 21
Osa11LNT0095200.2 osa-miR5337b Translation 5.0 14.62 1 21
Osa11LNT0095200.2 osa-miR818f Translation 4.5 19.18 1 21
Osa11LNT0095200.2 osa-miR7695-5p Translation 4.5 16.54 1 24
Osa11LNT0095200.2 osa-miR166a-5p Cleavage 4.5 16.503 1 21
Osa11LNT0095200.2 osa-miR166a-5p Translation 5.0 13.494 1 21
Osa11LNT0095200.2 osa-miR166b-5p Cleavage 5.0 16.503 1 21
Osa11LNT0095200.2 osa-miR166d-5p Cleavage 4.5 16.503 1 21
Osa11LNT0095200.2 osa-miR166d-5p Translation 5.0 13.494 1 21
Osa11LNT0095200.2 osa-miR166e-5p Cleavage 4.5 16.503 1 21
Osa11LNT0095200.2 osa-miR166e-5p Translation 5.0 13.494 1 21
Osa11LNT0095200.2 osa-miR408-5p Cleavage 4.5 12.662 1 21
Osa11LNT0095200.2 osa-miR1431 Cleavage 4.5 22.306 1 21
Osa11LNT0095200.2 osa-miR1861k Translation 5.0 14.924 1 22
Osa11LNT0095200.2 osa-miR5154 Translation 5.0 13.051 1 24
Osa11LNT0095200.2 osa-miR5487 Cleavage 5.0 14.88 1 21
Osa11LNT0095200.2 osa-miR1861c Translation 5.0 14.924 1 22
Osa11LNT0095200.2 osa-miR1861e Translation 5.0 14.924 1 22
Osa11LNT0095200.2 osa-miR1861m Translation 5.0 14.924 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0095200.2 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0095200.2 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0095200.2 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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