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

>Osa11LNT0111500.1

AAAGCAGAGAGAAAAAGTACTACAGTTGGAAACCCAATCTAACGGCTATTCTTGCCCCCACCACCGCCGCCGCCGCCTCCATCCGCCTCGCCTGACCTAGGCACACGCTCCGCCGCCGCCGCCGTTGCCCGCGCAGCGCATTCTCCATTCCCTTCTCTCGCGGAGCCCCAATCACACGAGAGAAACCGCCTTCCCCTAAACCCCGGCGGCGGCGGCGGCGAACATCGGATCGTGGACGAGGCCTCCTCCACCGAAACCAAACCCCTTTGCCGAGTACTACGAGGCAAGAAGCACAGAGATAGTTGAGGCAGGGGAACCTTTGGGAGTGTGCTGATATGCCACTAATTGCTTAACACACCGAGAAGCTTCTCGGCATTTGCCAAATTTGGCTTCCCAAGACAGGTCATGGGCATCTATTTCCATAGGCATGGAAGTAAAAATGTTACTTGTGAAGACTTTTGTGCACACATGTGTGGTGCAGGTTGAACTTTAGTCAGGAAAGGTCTTGGATTCCATCGCAGCTCATGAGCATGTTGAAGTGGCTGTTATTCCACCTGCAGGTCAATCACCAAGGTCCCTGCAGTTTTTGGTGGTATTGTTTTGCATAATCTGGTCACTAGATGCCTACCAACTGCTTGAGATAGTGCCTGGCAAGAAAATCACTGTTCTTTGGCTAAATCTTTACATGGCATCTCTGTTCTGCCATTCTCACCGACATCCAGTTTTCTTGGAGCTTGGCATCCCCTCCTTGTGCAACTCGTTGCAAGAACAAGTCTCTGCTGGCGTTCTCTGCAGTTCATCTATATTCTTTTGTTGATGCTCTCTACTTACATAATGCGCTTCTCTATCTGTGTAAGTGATCGTTCCAACTATACTTGCATCATTCTGTTTTATCTAATCTCTCCTTTTCTTTACCCTGTGCACTTAATAGTGTTGTGCTGTTTGTGAAATCCAAGAAACAGAGCTCAAATAAATTCGCTAGTGTATGTTGCTGTTGGATTGTTCTGCAGCTTTTGCTTCCATTGCTATTAATTTGGGTAAGCACTTGGCCTTCCCATTGTCCAGTGATAGATCTACACATGGTAGTGATACATATAACAAGATGGCTTCAAGAGAGTTGATTGAGTTAAATGAACCCTCTTGCAGCCATATTATTGTTCTTTTTCCTGTTGTGTCTTTTCACTTAGCCCATTGAATTGTTGTGATGGACAGTGGCTGGGGCTTATTTAATGTGCCATACGAAAGTAATTATTCCATGTCAAACTGATGATTTGTGTGTTGAAAGACATAAACAAGCTGGTTTACAGATTTGAATTGTTCTGTAAACTATTCAAATACGCTACCATGTTCTGGATCCTGCTACTCTTGGCAATATTAGGATGGATTTCATCATACCCTGTAAATTTGATGTGCTTATTTGCTTAGGGCTATATAGGAAAACCAATGAGACACCTTTTTGTTAAGATAGAAAACAATATATGCAACTACATGTCTTAAAGTTCTTTGTAGTAGGTAAACCTTCATAGTTTTTCACTTCTGAGCTGCCTTTCAAACAAGAGGATGATTGTATACCCGAGAAGGGGGAAAAGAGTATCTGCATGGCAGACGCTTAATCGGAGTAGGCACAAAGCTAAATTTATTATGCCAATTCGTCTGTCGGTCAAAAATTTGAGGACACCTGACCGTTACTTTGTTGATCAATATCTATACAGCAACACATTTCGATGAAGAGCCTGCGTCGTGGCAGAAAATCGCAATCGGCAAAGGAGAAATCCAACATATCGTGCGTCGGACAGAAGGAACTCTATCAATGATTGAAAAGAGGCTTCGATGCTGGGGCCGCGCCTACTCAGGGCGGACAAAACATTGACCCCTTCCGCCCATTCTTCCGGACATTAACGTCTTGCTTACATTAATTGGCCTTGTTCCATAAAATTATGTTTTAAAGTCGAGCATCTGCCCAGTAAAGGCCTGTGCAGACGCCTATTTGAGCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.950694
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0111500.1 11 28830900 A G
Osa11LNT0111500.1 11 28831356 T C
Osa11LNT0111500.1 11 28831371 T C
Osa11LNT0111500.1 11 28829649 G A
Osa11LNT0111500.1 11 28829674 A G
Osa11LNT0111500.1 11 28829818 G A
Osa11LNT0111500.1 11 28829856 G C
Osa11LNT0111500.1 11 28829988 A G
Osa11LNT0111500.1 11 28830045 G A
Osa11LNT0111500.1 11 28830276 A G
Osa11LNT0111500.1 11 28830351 A G
Osa11LNT0111500.1 11 28830469 T C
Osa11LNT0111500.1 11 28830500 G A
Osa11LNT0111500.1 11 28831540 G A
Osa11LNT0111500.1 11 28831883 C T
Osa11LNT0111500.1 11 28832308 T C
Osa11LNT0111500.1 11 28832343 C A
Osa11LNT0111500.1 11 28832468 G A
Osa11LNT0111500.1 11 28833389 C T
Osa11LNT0111500.1 11 28833448 C T
Osa11LNT0111500.1 11 28833513 T C
Osa11LNT0111500.1 11 28833560 T C
Osa11LNT0111500.1 11 28833623 C T
Osa11LNT0111500.1 11 28833797 A G
Osa11LNT0111500.1 11 28834389 T C
Osa11LNT0111500.1 11 28835148 C T
Osa11LNT0111500.1 11 28835155 C G
Osa11LNT0111500.1 11 28835240 A G
Osa11LNT0111500.1 11 28835279 G C
Osa11LNT0111500.1 11 28835304 G T
Osa11LNT0111500.1 11 28835404 A G
Osa11LNT0111500.1 11 28835462 G A
Osa11LNT0111500.1 11 28835648 C T
Osa11LNT0111500.1 11 28829029 T G
Osa11LNT0111500.1 11 28832325 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0111500.1 osa-miR319a-5p Cleavage 5.0 16.006 1 21
Osa11LNT0111500.1 osa-miR1857-3p Cleavage 4.0 14.224 1 21
Osa11LNT0111500.1 osa-miR2118e Translation 4.5 23.588 1 22
Osa11LNT0111500.1 osa-miR2118r Translation 4.5 23.588 1 22
Osa11LNT0111500.1 osa-miR2907a Cleavage 5.0 16.586 1 22
Osa11LNT0111500.1 osa-miR2907b Cleavage 5.0 16.586 1 22
Osa11LNT0111500.1 osa-miR2907c Cleavage 5.0 16.586 1 22
Osa11LNT0111500.1 osa-miR2907d Cleavage 5.0 16.586 1 22
Osa11LNT0111500.1 osa-miR2922 Translation 5.0 15.777 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0111500.1 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