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

>Osa02LNT0147900.1

GCCAGCACTTTTGAGTATTGGATTAGAAACTGATGAAAGGTAAGGTACAGTTACTACATTAGTTGCAAATCACCTACCAAATCACAATCTTTTTTTTTTCTACTGCTGCCATAGCAGAGCAGAACTAACATTAGGAAAGCCTAAGACCTAATCAGATTACCCGTTTCAGCCAACAATCATGGGAATAGTTTTGACAAGAGCACTGAGTTTTAGAGGCCCTAAGTTCACAGGACAATGTATATCAATGTCACAACTTCACTGTATCATCTTTAGCTACTTTCTGGCAGAGAGTGCTGCTCTTCAGGGGCCTCTTCCTGTTGCTCTTGAGGCTGCTGCCACACATACGTCACCGGGTGACCTTGCTGTCCACCGTACATCATTCCTGATCCAGGCCCCTGCTGCGCTGGCACGTAGTAATATGGATATGTGTCTGCTGCGCCCCCCACATTAGGCGGTAGGCCAACCCTCGGAAGCCCAAGCCCTTCTTCTTTCATTTCATCCCTGGGAACTATGTCCACCAAGAAGTCATAGATATCAGTCCTGGTGATGGCAGCTGCAATGTCATTCTTCTGCAAGGTCCGGCGCTTGTTCTCCTCCGTGTGCATCCACGACCTCAATGTTAACTCTAATATGAATACCTCGCATGCCTTTGCGAAGACAACGGGGGCTTCTGCCGAGATCATCCGGACATCCTCATCAGCCTTCATTATCTTCTTTATCCTTGCGAGTGGCAAGCTGTGGTTCTTGAAGTCGGTTGTTTGCTCAATCTCTTCCATTTGGTTAGCCCAGAACTCACGGAGTTGCTGCTGTTGCTGTTGCTGCAGCTGCTGATGAAATTGCTGGGCTTGTTGGTAGACTAGCTGGTGCTGAGCACTGAGTTGAGCTGGATTAGTGGGGAATGGTGCTGATGGCTGTGAGCCAGGAGGAACAACAGCAGGAGCTCCAGGAACCATGGCTTGAGGTGGATATGCAGCAGCAGGAGGAGGATATGCTTGTGACCCACCAGTGGCAACACCCATCACAGGCTGAGGCTGTGAGGATGGTTCCATGTCAGCTCTTGTCCGTCCAAAGCCAAAGGCCCTTTTGTACTCCTACTATCCATATTGTGCAAGTGGGTAGTTGCATGAACATTCAAGCCCGAGAGACGACGCCCGGATCTCCCGCGCCGGCGGGAGCGGGAGCGGCGGCGGCGGAGAGCGCTCCCTCCGGCGAAGGGCCGCGCCGCCCACCTCCCTCTCGTGGAGCCCTCGGCGTCGGCGGCGGAGAGAGAGAGAGAGAGGGAGACGCGGTCGCCCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.699233
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0147900.1 2 3847019 A G
Osa02LNT0147900.1 2 3847307 T C
Osa02LNT0147900.1 2 3848168 C T
Osa02LNT0147900.1 2 3848776 A G
Osa02LNT0147900.1 2 3848939 G C
Osa02LNT0147900.1 2 3849325 A C
Osa02LNT0147900.1 2 3849425 C G
Osa02LNT0147900.1 2 3849715 T G
Osa02LNT0147900.1 2 3847783 C T
Osa02LNT0147900.1 2 3850073 A G
Osa02LNT0147900.1 2 3847408 G A
Osa02LNT0147900.1 2 3849501 A G
Osa02LNT0147900.1 2 3849511 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
Osa02LNT0147900.1 osa-miR5533 Cleavage 5.0 24.971 1 21
Osa02LNT0147900.1 osa-miR5820 Cleavage 4.5 19.435 1 21
Osa02LNT0147900.1 osa-miR7694-3p Cleavage 4.5 20.651 1 22
Osa02LNT0147900.1 osa-miR408-5p Cleavage 4.5 16.488 1 21
Osa02LNT0147900.1 osa-miR172d-5p Translation 5.0 22.841 1 20
Osa02LNT0147900.1 osa-miR419 Cleavage 4.5 17.126 1 21
Osa02LNT0147900.1 osa-miR1429-3p Cleavage 5.0 24.115 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0147900.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
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