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

>Osa11LNT0108400.2

GCTTTTCAAGTCAGAACCATAAGAACATACCCAAAGTACACATGATTCTGCACCAATCTCTGGACTACTAATAAAATTTCAACTAACACAGAAAAAAAAAACTAGATGTAAAAATTGCAAAACTAAGGTAAACGTAAATAGATTCCGCCTTATAGGCGTTAGAAACAATAAGAGGGCGACTTCGATGTTCAACCGTCGTATTGCCCTTCAGCGAACTTGTCCTCAGGGTAGAAGACAGCCACCACCTGGTTGTTGGCAAACTTCCTCCCGTGCATCCCATTCTTCGCCTTGGTCGAGCTCTCTACATCTGCAAATTCCAAAAACACCCTCCCAACTCCAGCAACAGGAGCACCGCTGGGATCAGGTCGCGGGATCACAACTTTCACCAGGTTACCGTATCTGCACCCTTCTTCCCTCATGTCTTGCACGATGTCCTCATACTCCTCATCATCCCTCAGTTCATCTGGTGAAACCACTTGGGTCAGGCATACCACCTTTGTAGGCAGTGCTCCCCCTCCAACTTGGAACATGAGTTTCTGCATTTGCGCCTGTTGTTGTACATGCAGGAGCATGCTTTCTTGCTCTGGCCTAGGTTGAGAAGCTCCTTGGTTAGCTCGCCTAACAGTGAGGGTCTTGTCTCCCATCTTGATACCATTAAGAGCAGCACAGGCAATGTCCGTGACATTAAGATCCTGGTATACACAGAAAGCATAGCCCTTCGAGTTTCCAGTTTCTCTGTCCTTCACAAGATCAAAACCACGCAGAGGTCCAAAGGATTCGAGCAACTCCCTGACTTGAGCTTCTGTGAAGTAATAGGGCAGCCCACCCACAAAAATGCGGTCAGGACCTTCTAAACCTCCAGCTGAGCCAGGTGTTAAGCCAACAGCAGCAAGATTGAGGTTGGGGTTTGGCTGGCTTGGACCCAATGCAGCTGCTAGGGAAGGATTATAGTCTGTTGGCCTTCTAACCTTCACAGGTGCTCCCTCAAACATTATACCATCCAAGGCCATTGCATTGCTTGCTTCCTCCACAGACCTCATCTCCACAAATGCAAATTTCTTATCATGGTTTATGTAGACATTAAGAACAGCATCACCTGGACCAGCTGTATTTCCACCAACAGCAGCCATAACTTGATTGAAGTATACAGCAACAGTATGCTCATTAGCAGTTGGAGGAAGTCCACCAACATAAACACGCCTAGCATGTCGAGTAGCCTGTTGTGTCATAGCTTGTGGCTGAATAACAAGCGGAGTGAACGGGGTTTGAGTCAAATTGAACATGTTCGGAAGCATCCCAGAAATAGCAGGGGCCACAACAGGTACCTGACCAGATTGTTTCCTCCTCGTACAATTAAGCTACAGTGTCTCCCATTGCAGCAGTTGGACAAAGTGGCCCAAGATTGCTTTCCTACCGATATGCACACAAAACAAACAAACACCAACAAAAAAAGAGAAAATCACTTAGTTCCAAACCAGTTATGATAAAATAAAATTAATTTTCTACATGAAATATCAACTATATAAGTACAAAATAATGATTACCATGCCTTCAAGGCATCCAGTGGTAAGACAGCAGTGTCAGAAAGAGACCAGTAAATAGTCTTTTCTCGACCCTCAGGCAAAACAAATATAGAAATTTTGAATATGTACTTCATTGGGAACTAGAGATGTTCGTAATTTATAAGTGCTAGCATTGCTGAAAATAAAAAAAGGACCAAAGGAGTTACAAGGTCAACTAGTTGAAAAAACTTGGTTGTCACTCCCTCCATCCCAAAATATTGGAGCAACTAATTTTTTTTCCGAGGCTTCATAATTCAGGGCACGTATGCATGCAATTAACTAGCACCTCTCCCTACCCTAAAACCATTTTTTTAAAATCATCCATCTTCAAGATCTCTCATCTCATTGGGTGCATGTATTGTATTTATTGGGGCGATCCAAACAAGGAGGTGCTAATAACTCTTTCTTGGTCTTTGCATTAATGTTACTTGAGCCTTATGTTTTGTGATGTAGACAAGTTAATGATAAAGCTACAGCAATTTGTGGTAGTTTCAAGTATAAATAGATAAATTCAGCAGAGCAAAATAAACTCTCAAATTATATTGGGTGCTAACATACCTGGGGCTGCTCCAGCAGCAAGCGCAGGAATGGCTGCTTGTGGTCCCTGGTCAAATCCACTCACGCGCTTGCTAGATCGAGAGCGTGAGCGAGATCTAGATCTGCGATCACGACCCTTTGAAGGGGAGCGGGAGCGAGATCGATGCCTGCGGTGACCATCTCTGTCACGGTCTCTTCTCCTTTCAGAATCATGGCCCCGGCGTCGATCACGGTCATCAGAACGTTCACGATCGTGGTGTTCCCTTCTTTCGCTTCTATCGCGGTGCTCCCTGTGGCGATCACGGTCCCTGTCCTTGTCACCACGGTCGCGGTCCCTTCGGTCTCTATCACGGTCTCTGTCGCGTTCCTTGTCCTTGTCCCGTTCTCTTTCCCTCTCTCTAGACTTTGAGGACCTGCCATCATGTGGCTGTGTCTCGTGCTGAGAACGGCCGCCGTCGGTGGCGCCATCGGAGAAGCCGGTGGGCTTGGCGGCGGCGGCGGGCGGGGACCCCTCGGGCGCAGGGTACTCAGCGTACGCGGAGGCGGGGGCCGGGTCGCCGCCGTTCCCGTTGCCCTCGTAGGGCTGCTCCTCGTGCTCCGCCATCGGCGCGACGGAGTGGGCGGGCGGCGGCGGCGGGATTTCTAGGGTTCGGTGGCTCGAGCGGTGGAGGCGGCGGGCGCGAGGT

Coding Potentia
Explanation CPC Score
noncoding -1.23635
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0108400.2 11 25149730 A G
Osa11LNT0108400.2 11 25148915 A G
Osa11LNT0108400.2 11 25148925 C G
Osa11LNT0108400.2 11 25149479 C G
Osa11LNT0108400.2 11 25151575 G A
Osa11LNT0108400.2 11 25151628 A T
Osa11LNT0108400.2 11 25152319 T C
Osa11LNT0108400.2 11 25152578 A G
Osa11LNT0108400.2 11 25152654 A C
Osa11LNT0108400.2 11 25152659 A G
Osa11LNT0108400.2 11 25152954 G T
Osa11LNT0108400.2 11 25153401 A G
Osa11LNT0108400.2 11 25153431 A T
Osa11LNT0108400.2 11 25151044 T C
Osa11LNT0108400.2 11 25153450 A G
Osa11LNT0108400.2 11 25151198 C T
Osa11LNT0108400.2 11 25149046 T C
Osa11LNT0108400.2 11 25150328 A 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
Osa11LNT0108400.2 osa-miR5537 Cleavage 4.5 11.191 1 22
Osa11LNT0108400.2 osa-miR5819 Cleavage 4.5 11.586 1 21
Osa11LNT0108400.2 osa-miR5821 Translation 4.0 10.019 1 21
Osa11LNT0108400.2 osa-miR5834 Cleavage 4.5 17.705 1 21
Osa11LNT0108400.2 osa-miR6248 Cleavage 4.0 17.838 1 21
Osa11LNT0108400.2 osa-miR395d Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395e Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395h Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395k Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395l Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR393b-3p Translation 4.0 11.753 1 21
Osa11LNT0108400.2 osa-miR395m Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395n Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395p Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395q Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395r Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR1436 Cleavage 4.0 17.568 1 21
Osa11LNT0108400.2 osa-miR1862d Cleavage 3.5 21.123 1 24
Osa11LNT0108400.2 osa-miR395y Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395b Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395g Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395i Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395j Cleavage 4.0 13.174 1 21
Osa11LNT0108400.2 osa-miR395s Cleavage 4.0 13.174 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0108400.2 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