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

>Osa08LNT0400400.2

CTGCCAATCTCAATCTGTACCTCGTTACACGGATCTACTCGCTGCATCACCTCATATTGGCTCAAAAATAGTTAACAGTTCTGTAGTATTGCTACTGGGAACGAGCATAATTGCTAGCCTCCAGTTCTAATCATTCATCCCTACGCCATTACACAGAAATTTAGAGACTATCTCCTCCCACTGAAATTACCATGTCAGCATTGCAGTTCAAGCTAGCAAACATGCTGGCTAACTGTAAACTTGGTGAAACTTGCCCCACATTCGAGTCGTTGGGTCTGACCATCTGAATCAACTGGAAATAGAATGTTGCCACATAGCTTCACTCCGATAAAAGTTGGTGCAATGCACAAATTACTCTCGATCGCAATCACTAGGTCATAGGAAGTTCGCCTGCTCTTGAACTTCGCCAACAGGAAGTTCAACGGCTAAGTTAGCTTGAGCATCAGCATCCGTGTTAAATTCCCTCAAAACATGGTTGATTTGAAATGTATGAAATCTTCCCTTAATTTCCTTAACCCTTTTGCACAAGTCAGCCATAGTATCATGCCTAGCACGCCATACATCTGAGACCTGGTTACAAACAAGCTTAGAATCTCCTTGAGCACGTATATACTTGAATCCCTTCTTGGCAGCATATGTTAGCCCTAGGATCAATGCACGGTATTCAGCAGCATTGTTGGTTGCAATACCCAAACCCTCCCGTAGTTGAGCAATCACAGTTCCATCTAGTCGCCTTATTACTGCTCCAGCACCTGCTTTCCCAGGATTTCCTTTAGAAGCACCATCAAATTCAAGAAGACAAGAGAGAGAACTATTAGGTAATGGTTCTTGTTCGGAGACTTTGGGCTGTTTCTTTGACGGTCCAGTTTCCATCTCTAGTGGCCTTTTTAAAGTAGAAGTCCCAGTTCCATCAGGTTGCTGGAAAGGGCATGGAACTAGGTCATCAAATAATTCATCTCTTGCATCTGCTGCATTAATGGAGTAAAGAGGATTTCTTAAACCGCGCGCAGCGAGGTATTCTTCTGTCTCTTTACGCAAAGAATAGCCTTTGTACACCGTCACAGAAGGATCACATACCGAGTTGCTGACTTGAGCCTGGCAATCGCTGAGGCTCTTGTAGATGCCGATGACGTCACCCTTGCGGACGACATAGAACGGCTCACCTCCGTCCATCGACGGCGGCGGCGGTGGCTGGCTGCTCTGCTTCGCGGCGGCGGCGGATCTCTTGGCGGAGCGCCGGGATGAAGCGGAGAAGAAGCGCTCGAGGGCAAGGCCAATGGGCGGCGGCGCGGGTGGCCTGAGCACCAGGTGACGCTGCTGGTGGTGGTGGTGCTGGCTCAGAGCTCCTCCGGCCACCGCGTGCCTCCTCCAAGCCACTCACCTTGCTCCCTCCCCGGCGGCGGCCCGGCTCTCCTCCCGCGTTGCTGCTGCTGCTTGGGGAGCGCGCCGCAATCGATTCCGGCGACCGGCGGCCGGCGTGTCGTCGGGGGGGAAGAAGTGGTGGCGCCGGCGGCGGAGTAGGGTTCCACTTCCACTTTGGAATGCTTGCCTTTGCTGGGC

Coding Potentia
Explanation CPC Score
noncoding -1.01043
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0400400.2 8 4566683 C T
Osa08LNT0400400.2 8 4567211 T C
Osa08LNT0400400.2 8 4567397 T A
Osa08LNT0400400.2 8 4567447 C G
Osa08LNT0400400.2 8 4569241 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa08LNT0400400.2 osa-miR166h-5p Translation 4.5 24.132 1 21
Osa08LNT0400400.2 osa-miR444a-5p Cleavage 3.0 23.269 1 21
Osa08LNT0400400.2 osa-miR815a Cleavage 4.0 11.586 1 21
Osa08LNT0400400.2 osa-miR815b Cleavage 4.0 11.586 1 21
Osa08LNT0400400.2 osa-miR815c Cleavage 4.0 11.586 1 21
Osa08LNT0400400.2 osa-miR2878-3p Cleavage 4.0 15.133 1 24
Osa08LNT0400400.2 osa-miR5151 Cleavage 4.5 9.747 1 22
Osa08LNT0400400.2 osa-miR5486 Cleavage 5.0 14.881 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0400400.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0400400.2 8 nan Morphological trait Panicle/flower RG333 RZ562
Osa08LNT0400400.2 8 nan Physiological trait Flowering C166 C1121
Osa08LNT0400400.2 8 nan Resistance or Tolerance Other soil stress tolerance C390 C1121
Osa08LNT0400400.2 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0400400.2 8 qRRE-8 Resistance or Tolerance Other soil stress tolerance C166 C1121
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