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

>Osa07LNT0380300.1

AGTATCGCTAGCAGCCAGCCCTAACCGCTCCTGCGCGCTTGCCGCCGCCGCCGTCGTCCTGGTTGCCGCCGCCGTCTTTGCATCGCCGCCACGACCATAGCCGGAGACCACAGCCGTGGTCATCCATCACAACCGGTGTTTCCTTTCTTTCTTCCCGAGAGAAGGGTACAGAGAGGTTGTACAGGAGGAAGAAGGAAAGGAAAAGGCAGAGCAACGTTGAGAAATTTCAGCGATTTCTCAAATTAGAGAAATTTGTCGCAAGGTGTGGAGGGTTCCAACGTTGGAGGAGTTAAGTCGGAGTATCGAAGGAGTTAAGGTACCTAATGATATTGATCGGCATGGGACAGGAGTAGCACCCTTGGACTACACATTATTATTGCACACTACTGAAATTTAGTTTTAGACTATGTTTCTGCCTAGCATAAGTTTTGTGTAGAACTTGTAAAGGTCATTTAAAGTTCCGGTCCATAGTTTCACGGGGAATTCATGGAGCTAGGATGGTTTGGATTGTGTGGGTTATATCGTTATTGAGTATCTTATAACTGCCTGTCGTGGATGTCCGTATTTTTAGGGGAGACTCTACCGAAATTTCTAATAATTTTGGGAGTTAGTGGTTTTTAGTGTTTTTGGTGTGGCACTCTAGGTACATGGTTACCTGGGGTGTTACAGCGGCAAATGATTCTATTAATACAATGCTAGTCCTAGGCCTAATAAGAGATACTTCCTCCGTTTCGTATTATAAGACTTTCTAGCATTGCTCACATTCATATATATGTTAATGAATCTAGGCATATATATGTGTTTAGATTCATTACCATCTATATGAATGTGGGCAATGCTAGAAAGTCTTATAATATGAAATGGAGGGAGTATCTA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.410722
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0380300.1 7 18152450 G A
Osa07LNT0380300.1 7 18152461 A G
Osa07LNT0380300.1 7 18153073 A C
Osa07LNT0380300.1 7 18154353 A G
Osa07LNT0380300.1 7 18154416 T C
Osa07LNT0380300.1 7 18154486 A G
Osa07LNT0380300.1 7 18154464 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
Osa07LNT0380300.1 osa-miR160f-5p Cleavage 5.0 20.19 1 21
Osa07LNT0380300.1 osa-miR1436 Cleavage 5.0 15.581 1 21
Osa07LNT0380300.1 osa-miR1439 Cleavage 5.0 13.004 1 21
Osa07LNT0380300.1 osa-miR1854-3p Cleavage 4.0 21.365 1 22
Osa07LNT0380300.1 osa-miR2877 Cleavage 5.0 16.254 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0380300.1 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0380300.1 7 sp2(t) Morphological trait Panicle/flower nan nan
Osa07LNT0380300.1 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0380300.1 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0380300.1 7 qLTG-7 Resistance or Tolerance Cold tolerance R1440 R1357
Osa07LNT0380300.1 7 qLTG-7 Physiological trait Germination/dormancy R1440 R1357
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
Osa07LNT0380300.1 osa-MIR11339 91.558 154 1 154 8.63e-56 213
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus