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

>Osa04LNT0289100.2

ACAGAACTCCCAACTTATATTCACATTTTTCGTGTAAAAAGTCTACAGGCTACAGAGAAGACTACAGGAAAACAAGGTTTTGAACACAAAGAGGTACCTGCATATGTCCAAGTACAACAAACAAACAATTCAACTAATCCTGAACTTCAGATGATATTGCTAAGCTTGCATAGGCTCTTCAGTAAGGCGTCTATGGTCTGAGGAAGCTGTGGCTGAAGAACTCTTGGAAGGACAACCTTTTCACTGGATTGCTACACAGAAGTCTGGTGCATATATCAATAGAATCAGGACGTAGCTTGGAAATAACGACTTCTGAGAATGGAAGAGACACGGTTCGGTTTATGCATTGAAGCAGCTGGACATTGCTTCTACCACGGAATGGTGGATAGCCATTCAAGAGCTCGAAGAGAATCGCGGCGATACTCCACAAATCTACCCCACCATCATACTTCTGAAACAGCATAACTTCTGGGGCCATGTACAAACAAGTGCCACAATTTGTATCTGTGTATTCCCCGGGACGAAGAACTCTTGACAGGCCAAAATCAGATATCTTGAGGATCGCATTGCTGTCAGGAGAAGAGAGCAGGATATTCTCGGGTTTTAAGTCCCTATGGACGATATGGTGTCTGCGGAGCACTTGCAAGCCAGCTCCGATCTGTCTCATGAAATTGCTGGCGACGCGCTCCTCTACCCTCCCGTTGCGCTGGATGTAGGCCGCCAGGTCTCCTCCCTCGCACAGCTCCAGGACAAGGTACAGGTTGCTCTGGGTCTGGATGAGGTCGAGGAGGCGGATGATGTTGGGGTGGGTGACGGCGGCGAGGAAGCGGACCTCGCAGTCGAGGCTGTCGCGGAGGGTGCTGGGGAGGCCAGTCAGCCGCACCTGCTTCACCACCACGGGGGATCCGCTCGACCGCTCCACGGCGCGCCACACCACCGTGGACGGCGGCCGGCCGCCCAGCCGCTCCCGCAGCTCGTAGCCTCCCACCGTCGTCTCCGGCTCCGGCGTGCTCGCCATCGCGAAACCACTGGAAAGGAAAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.606541
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0289100.2 4 35089862 G T
Osa04LNT0289100.2 4 35090252 C 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
Osa04LNT0289100.2 osa-miR396a-5p Cleavage 5.0 19.493 1 21
Osa04LNT0289100.2 osa-miR396b-5p Cleavage 5.0 19.493 1 21
Osa04LNT0289100.2 osa-miR396c-5p Cleavage 5.0 19.493 1 21
Osa04LNT0289100.2 osa-miR1846a-5p Translation 4.5 24.466 1 21
Osa04LNT0289100.2 osa-miR1846b-5p Translation 4.5 24.466 1 21
Osa04LNT0289100.2 osa-miR1846c-5p Translation 4.5 24.466 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0289100.2 4 Sh(t) Morphological trait Panicle/flower nan nan
Osa04LNT0289100.2 4 nan Resistance or Tolerance Drought tolerance RG143 RG620
Osa04LNT0289100.2 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0289100.2 4 Sh3 Morphological trait Panicle/flower nan nan
Osa04LNT0289100.2 4 iSh3(t) Morphological trait Panicle/flower nan nan
Osa04LNT0289100.2 4 Sh3-gla Morphological trait Panicle/flower nan nan
Osa04LNT0289100.2 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0289100.2 4 nan Morphological trait Panicle/flower RG620 RG214
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