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

>Osa11LNT0109200.1

GCTGAATAGTTGAATCAATTAGACGATTGAAACAACCTCTTCCACACTTCAAAACCTGTCTTATCTCCACAGGGGTTAAAAACAAAAAAGAAAAAAAAAAGCGAACAAAGAATCAAGAAATAATAGATGTAGCAGGTACAGTAGGCAAGCACCAACACCTCCCCTCCAACCTCACACTATGGAAACTACTAATTTTTTACAGAATACAACTCACACTTCAAGATAAGCTTCAGGGCAACAGAGGCAAGGGAAGTTTGATATTCTCCCTCCCACAGATTTTCGTCGGTTTGTTTGTTTACGCGTTCTCAGCTGCTGCGTGCGATCGCTTTGGTCGCCACTCTGTGTGTGCCTTCACAATATCAGCTCCTGACTCAAGCTGAAGAAGATGGTCGCACTGGATGGCAGAAGCCTGCTTGTCGGCGCCAATGCTGGTGCATTCCCCTGACACGGTGGTAAGTGATTGCAGCACGCTGTCTCGACCACACTCCTTCCTGTAATCCAGGGTCATGCTTGCAAGCTCATGCTTCTCCAGTACTGAAATTGGAGCACTCTCAAGGATCCACCCAATATATTTAACATTGTTCACATGCTGATTGACATCGAGGTCACCCCATCTAGGAGTGAGCCCCTTTCTTATGAATTGCTCTGTAGCATCATCACCAACTTTATTTCCTGTCTTGGCTAACTTTTCACTCTGCTCCTCTGTTATAGCTGAACGGTCATTGAAATATGGGCCTATTTCAGCTCTAACTTCATCTGGCATTTTTGAAAGTCTTCTAGTTTTCTTGTGCATCATCACCCAAACACTTGTAGCTCTCAAGATTGTTCGGCCAGAGTTGTAGTCACGAACATGCCAGTCTCGACGCATGCCATTTTTGCCAGCAGCAGCAACCCATGTGTCAACTTGAACCGTATCTCCCCTAAAACCATAGCAGGTTGGTACAATACATCATGCGGGGTATTGCTCAACAAGAAGCTGGATTTTGCTGACAACCCATATCAAGTTCCGTTTGCTCATCTCCGGTGTAGCCCCAAAACCATCTCCAAGAAGACCAGCAGTCCTCACATGGTTAAGAGCTGTTTCCTGTAAATGATTCATCAATGTCTCTATAGAAGCTGTACGATCAGCACCAATCTCGTAGGACCGAATCATGAAGTTCTGCCTAAACACCATACCGTCCTGGATAATCCTACCAAAGCCAAATGTGTCAACAAGCATGTCAGGTTTCTTTGGCTTCCAATCAAGCAGTGTCCACTGCTTCTCTGCGGCAAGGAAGATGGTTGTAATAGCCGCAAGAAGCATGCTCCAATCCGGCAGTTGGTTATAGAACGTCTTTGGAGCACTGTAAGGCACCGTTTCCTCCATGTCAGGCTTCACCGTCTTGAGGTTAACCTTCGTACCATTAACCTTGGGAAGGGTTTGAGCCTGTGCCTTTACTTGCATGGCTGCAGGAGGTGGGTTAGGCTTTGCGACAATGCCACGGACACTCAAATTCTCCGGCAATTCGCCGGTAACAGCAGCATTCTTGGAGCTTCTAGCTGATGCTGCAGGAGATGAGCCTGGACCTGGGAAGAATGCTGAGGCGGCAAGAGACCCTGCCATGATTGAACTTCCCTTCACGGCCCAAAATTCGTTTAGAAATCAATCACACGCCAAAAGCGCTAACCAGGATCCCCTCCCCTCCCCTGCTCTGCTCTCCTCGGCGATGGAGATCGGCGCCCCTCCACTCCGCTGTTGAGCCGCGGCTCGTCTTTCTTGGCGCAAGGAAGGAGACGACGGGAGAATTTCTCCTCTTTCTTTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.877136
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0109200.1 11 26468721 T C
Osa11LNT0109200.1 11 26468760 T G
Osa11LNT0109200.1 11 26468802 A G
Osa11LNT0109200.1 11 26468809 T C
Osa11LNT0109200.1 11 26469233 C T
Osa11LNT0109200.1 11 26469396 G A
Osa11LNT0109200.1 11 26470110 T G
Osa11LNT0109200.1 11 26470217 A G
Osa11LNT0109200.1 11 26470454 A T
Osa11LNT0109200.1 11 26470475 T C
Osa11LNT0109200.1 11 26470502 T A
Osa11LNT0109200.1 11 26470775 T C
Osa11LNT0109200.1 11 26470797 T A
Osa11LNT0109200.1 11 26470892 A G
Osa11LNT0109200.1 11 26471228 G C
Osa11LNT0109200.1 11 26471701 A T
Osa11LNT0109200.1 11 26471855 T C
Osa11LNT0109200.1 11 26472299 G A
Osa11LNT0109200.1 11 26472794 T C
Osa11LNT0109200.1 11 26473080 G A
Osa11LNT0109200.1 11 26473171 C A
Osa11LNT0109200.1 11 26473229 T A
Osa11LNT0109200.1 11 26469690 T C
Osa11LNT0109200.1 11 26471507 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
Osa11LNT0109200.1 osa-miR5836 Cleavage 5.0 12.283 1 21
Osa11LNT0109200.1 osa-miR1437b-5p Translation 3.5 22.479 1 21
Osa11LNT0109200.1 osa-miR395u Cleavage 4.5 13.337 1 21
Osa11LNT0109200.1 osa-miR437 Cleavage 4.0 16.806 1 21
Osa11LNT0109200.1 osa-miR810b.2 Cleavage 4.5 11.47 1 20
Osa11LNT0109200.1 osa-miR2874 Cleavage 2.5 7.176 1 24
Osa11LNT0109200.1 osa-miR5081 Translation 5.0 9.673 1 22
Osa11LNT0109200.1 osa-miR5486 Translation 5.0 10.067 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0109200.1 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