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

>Osa05LNT0300400.1

GTGCGATACTGCTGTTTCTCCTCTTCCTACACGCAGCAGCGCCGCATCGATTTGGGCGCTCACTACGTACGGTGCTCGCCGGATTGGCCGGCGTCCCTGCCGCCGTACACGGTAGTGGAGGTCCCTTGATGAAAACTCCTCTCTGCTGGTCCGTAGACGCCTCCTTTCGCCATTCTCTCCTCTTCAGTTTTTTCGGGATTTCTTCACCGTCCGGTTGTGCATTGGCTTCCCCTAGGACCTTCTTGCGTCGCCTGATTGATCTGCAGGGTGTGCCGCCGTGGGAGACCCTAGGCCTCCACTTCCCGTGCTAAGCTTCCACCATGGAAGGGGGAAGCAAAGGAGATAGCAACAGCTTAGGGGCACAACCAGAAGATCAACCGGTTCTTCTCCCATCTACTGATCTACATGTCCATAAAGCTGTGGAATCACAAGATCAACCGACTATTCTCCTATGCACTCATCCAGATCTCCTACAAAATTAGGAATCAACTACCAATTTCGTCTAGCAGATCCAAACAAGTCAACCAATACTGCATATTCCACCCACACATGACGATCTGTCACAGCTATTGGATCTGATGAATCTATCCTAGATCCAACCGTACACGGCAACCCTGCTCCAGAGCAATATGTCTACCTCCCAGGGGATAAACAAATGTGTATGTCACATGGCTAGGAAATCCAAATGTGGCTAAACCATCAAAGTGCTGTGTCCACATTGTGCTAGCTTGCATTTGCCCCTTTTTGTAGCATATGTTCAAACCGCTTGGACCATCATAATTGATGAGCAAAACAATATATCCCTATATGTTATCACC

Coding Potentia
Explanation CPC Score
noncoding -1.2105
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0300400.1 5 10525229 T C
Osa05LNT0300400.1 5 10525917 T A
Osa05LNT0300400.1 5 10526431 A T
Osa05LNT0300400.1 5 10526544 T C
Osa05LNT0300400.1 5 10526755 A C
Osa05LNT0300400.1 5 10527279 A G
Osa05LNT0300400.1 5 10527421 T 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
Osa05LNT0300400.1 osa-miR396a-5p Cleavage 4.0 15.433 1 21
Osa05LNT0300400.1 osa-miR396b-5p Cleavage 4.0 15.433 1 21
Osa05LNT0300400.1 osa-miR396c-5p Cleavage 4.0 15.433 1 21
Osa05LNT0300400.1 osa-miR528-3p Translation 3.0 24.205 1 21
Osa05LNT0300400.1 osa-miR1427 Translation 5.0 16.232 1 21
Osa05LNT0300400.1 osa-miR1846d-3p Translation 4.5 18.942 1 20
Osa05LNT0300400.1 osa-miR5076 Translation 5.0 14.857 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0300400.1 5 yl(t) Morphological trait Shoot/Seedling nan nan
Osa05LNT0300400.1 5 qTHJ-5 Morphological trait Seed RM289 RM249
Osa05LNT0300400.1 5 gnp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0300400.1 5 nt5.1 Morphological trait Culm/leaf RM169 RM249
Osa05LNT0300400.1 5 snp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0300400.1 5 QKw5 Morphological trait Seed RG182 RG13
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