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

>Osa05LNT0322200.2

TGAGTTAAAGTCTGATCACATAATAGCCCATTGAAGTCTTACACATAGCAGTCCAACCATAGTGGCATTGCAAGCATAGAAGCCACACATAAGTTCCCTACAAGTTCAAGCCTTACAAGTAATGTCCACCCACTGGCAGCACATTCATAATAGCAAAAGAACTAGATAACTCATCCAACCACCCTACATTGATCCAGTAAACTTGTCACTAATGAACATAGCAACCCAATGTAACTTGTTTTCGAATGGAAGTCCATTAAAAGCTCTAGCAATGTGAGGGTTAGCCACCAAATAAGCATAGTAAAATGATAAGTGGATGTCCTGAAAACCAGGAAGGCTTTTCAGGGTGTCAAATAAACCTACCGGCAGCGTATTATCTGGCTCACCAGCCTTCACTATAGCAGCAGCAAGCTTGTCACCCACATTGGTGATTGCCCTAATCAGCCCATCATCTTCACTTTCAATTGTTTTGGCCTTCTTTGGCTTGCTTGCAGATGAAGTTTCAGGATCAAGATCAATAGTGGTTGGAGCACGATTCACCTTTTCGTTTTCAGTTTCTACATCTTCAGTACCAAGAACTGAACTTGAGTCCTTTGCAAACTTTCCTGTAGCCATTGTGCTCCCAAAGATTGTAAGCATCTCACCATAGTGCAAAAGAGGTTTGTTAAAAAAACTCAGCATCGGTCTTGTGATCCTTGATATATTCATTGTAGTGCTTAGCATCAAGAGTAATAACAAAATTAACTTCATCCCAACCAGCAGCACTCACTTTCCTAAGCCTGTTCATCTTTGTGAACTTCTTTTGCCATGTTTTCAAGTGATTCTTAATCTGATCACCGGTAAAATTAGTACAAAACATCTCATTGAGAGCCCTCGCACATGGATTGAGATGGGCCTGTTTGAAGCCAGAGGAAGTCCTCGTCCCACTAGCCACAAGATTGGCTAGATGAGACAACATAAAAGAGGACATTGCAGATGTCCATGAAGCATGGTTGCTTCCTCCCTTTCCTTTGCTATCCATTTCGCTTTAATGTCTGCTGCTACATAATCAGGGTAATTGGTTTCACCCAGAGAAGGCAGGTGGTAGGGTTTTGTATAAGAGAAGAAAGTCCGGCTGGCAAAAGGAACCACACCAATTGTTGGGTGGTTTAATTTGGTGGCTGCGTGAGGGCTTTGAATAGAATTCAGGCACTTTGCTTGAGAGACAGGAAGGCCATGGTAATTGGGAAGCACCGTGCTAAAACGACGGAGAGCATCGTGGATAGCAGAAACGTCTCCTCCTTGAGCGGAGGTAGGACGATTAGGCATCGATCCGGACAGCACTGAAAATTTCTGAAACAAGAAACGCCTAGACATGTCGGCGATCTGATCCGTGCGTCTCTCTGCTTGGAATTTCCGGCGAGCGCTTGCTGCTTATAAGAAAAAAAAAGGGGCTTAGCAGGTGCAGGGGGGGAGGATGGCGCCCGGCGGCGGCGAGGACTGAGCACGGGCCTCCAAACCCTAGCACATCGCGATTGGGGATCGAACCCAACCTTTTT

Coding Potentia
Explanation CPC Score
noncoding -1.02567
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0322200.2 5 28901355 A T
Osa05LNT0322200.2 5 28898514 T G
Osa05LNT0322200.2 5 28897747 T A
Osa05LNT0322200.2 5 28898961 T C
Osa05LNT0322200.2 5 28898969 A G
Osa05LNT0322200.2 5 28900111 A G
Osa05LNT0322200.2 5 28900129 A G
Osa05LNT0322200.2 5 28901547 A G
Osa05LNT0322200.2 5 28902699 G A
Osa05LNT0322200.2 5 28903485 T G
Osa05LNT0322200.2 5 28904563 A C
Osa05LNT0322200.2 5 28904853 T A
Osa05LNT0322200.2 5 28905707 C A
Osa05LNT0322200.2 5 28906387 A G
Osa05LNT0322200.2 5 28907143 C T
Osa05LNT0322200.2 5 28907434 T G
Osa05LNT0322200.2 5 28909098 G A
Osa05LNT0322200.2 5 28909537 A G
Osa05LNT0322200.2 5 28909566 T C
Osa05LNT0322200.2 5 28909575 A T
Osa05LNT0322200.2 5 28911938 T A
Osa05LNT0322200.2 5 28912157 G C
Osa05LNT0322200.2 5 28900996 T C
Osa05LNT0322200.2 5 28910194 A G
Osa05LNT0322200.2 5 28910893 C T
Osa05LNT0322200.2 5 28899624 A G
Osa05LNT0322200.2 5 28900574 T C
Osa05LNT0322200.2 5 28911524 A T
Osa05LNT0322200.2 5 28909633 A C
Osa05LNT0322200.2 5 28903451 A 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
Osa05LNT0322200.2 osa-miR5793 Translation 4.5 11.279 1 21
Osa05LNT0322200.2 osa-miR1861o Translation 3.0 23.426 1 22
Osa05LNT0322200.2 osa-miR1430 Cleavage 4.5 22.011 1 21
Osa05LNT0322200.2 osa-miR1861a Translation 3.0 23.426 1 22
Osa05LNT0322200.2 osa-miR2098-3p Cleavage 4.5 18.52 1 20
Osa05LNT0322200.2 osa-miR5538 Translation 4.5 19.129 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0322200.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0322200.2 5 QFla5 Morphological trait Culm/leaf RG470 RG346
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