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

>Osa06LNT0326700.1

AAGGCACGAATTATTGCATAATTATATTGGATGCTTAAGATTATAATGGATAATGCAAGTACATTACCCCGTACAATCCTGCAATCACTAGACTTATTACTTAAAACGCCAAAATTAAACTCACACATTACAACGATCTTGGAAGCTAAGGTACTTCTACCACCCTTGCAACCATGCAGTAGTAACACTTAGCAATAATATATCAGCACGTTACTACATAGTCCCATCCATAGTTTCTGGATCGCAGCCTGTGAATGTGACAACTGACAGCAGTCACTTTATTCATCCTCGGCCAGCTCGTCACGTCTCACGATCTTTGGTCGCGTCAGTCCTTTCTTACTTCACATTACCTGCTTCCCTAGGTGCATTGCACCTATAGCACTCAATCCTACTTGCAAAGTTGTGGACGTTGCAACCAGGCCTTGTGCAAATCCAGTCGCCTGCCTTCCACCCAGCACGAACTGCGCTGCTGTCGAGGGCACGGGCAAAGTCACCGTTGGCAACACCACCACCTTGGCCTGCTGGAAGGTCCTTCACAATGGCGCCACATTTGAAGCAGCTTGCTCGGCTAGCAAAGTTGTGATAGCCGCAGTTGCAGTACCAGTCGCCCGGGCGAATGTCCAGGGAGGTCAGCACACCACCTGGGACATAACCATCGCCAAGCGGCAGGTCCTGGCGTGGGGTATGGCAGCGCTGGCAGTAGTCCCGGCGGCTGAAGTTGAGATGCTGGCACGATTTGCAGTTCCAGTCTCCTGGCTTCCTCTGGATGTTCATTCGCAGTTAAGCCCCTGCGAACTTGTAAAGCTTTCAGAGGTGGTTGCTGTTCTTAGTACTAGGGCTTTCAGTTCCTGTCTTGTCCTTGTTGTGAGCTTGCTTTCTTGGTGTGTTCTTACTTCTTGTGGATGGTTCGCTTTTTATAGTGGAGTTGCCCCCAATAATTGCGAATCCAGGGTGTGCTGTGGAGGCGCGGAGATGCTCTGTTCTGATCTTAGCCTTTCTAGCTGGAGCAAATTTGGTAGGGTTTGCGACTGCGAGCCGCGCGATGGAAGCGGAGGTCTCGCGGCCACTCGCTTTGCCTCCTCCGCTCCTCCGCCTGCCCGGGCGGCCCTCGACGATCGCCGGAGCGCGAACCAATCACCGGCGAGGTCGTCGACGGCGCCGGCATTCAGGCAGCGTGCGCCTCCTCCCGCTCCCGCCCGTCGCAACCCCGACCGGCCCCTATCCCCACTTGCTCTCCTCCGCCGCTCTCTCCGGTGGAGAGCACGGCGGCGGCGCGATCACGAGTTGGGCTATTTGGGCCGACGACGTTCTCAGTGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.644943
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0326700.1 6 2165278 A G
Osa06LNT0326700.1 6 2166289 C T
Osa06LNT0326700.1 6 2163887 C T
Osa06LNT0326700.1 6 2163893 T C
Osa06LNT0326700.1 6 2164452 T A
Osa06LNT0326700.1 6 2165033 C T
Osa06LNT0326700.1 6 2166315 T C
Osa06LNT0326700.1 6 2166371 G A
Osa06LNT0326700.1 6 2167978 A G
Osa06LNT0326700.1 6 2168113 C T
Osa06LNT0326700.1 6 2168260 T A
Osa06LNT0326700.1 6 2168415 T G
Osa06LNT0326700.1 6 2169434 A G
Osa06LNT0326700.1 6 2169463 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
Osa06LNT0326700.1 osa-miR5818 Cleavage 5.0 14.835 1 21
Osa06LNT0326700.1 osa-miR6249a Cleavage 4.0 14.179 1 21
Osa06LNT0326700.1 osa-miR6249b Cleavage 4.0 14.179 1 21
Osa06LNT0326700.1 osa-miR399e Translation 4.5 24.301 1 21
Osa06LNT0326700.1 osa-miR399f Translation 4.5 24.301 1 21
Osa06LNT0326700.1 osa-miR399g Translation 4.5 24.301 1 21
Osa06LNT0326700.1 osa-miR399h Translation 4.5 24.301 1 21
Osa06LNT0326700.1 osa-miR1428a-5p Translation 3.0 22.403 1 21
Osa06LNT0326700.1 osa-miR1850.1 Cleavage 5.0 24.907 1 21
Osa06LNT0326700.1 osa-miR1864 Cleavage 3.5 11.623 1 24
Osa06LNT0326700.1 osa-miR2871a-3p Cleavage 3.5 7.748 1 21
Osa06LNT0326700.1 osa-miR2871b Cleavage 3.5 7.748 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0326700.1 6 qAC-6 Physiological trait Eating quality R2869 R1962
Osa06LNT0326700.1 6 alk6-1 Physiological trait Eating quality RM190 RM253
Osa06LNT0326700.1 6 hr6 Physiological trait Eating quality RM190 RM253
Osa06LNT0326700.1 6 ac6 Physiological trait Eating quality RM190 RM587
Osa06LNT0326700.1 6 qAC-6 Physiological trait Eating quality RM190 RM510
Osa06LNT0326700.1 6 qGC-6 Physiological trait Eating quality RM190 RM510
Osa06LNT0326700.1 6 nan Resistance or Tolerance Drought tolerance RM170 RM204
Osa06LNT0326700.1 6 nan Morphological trait Shoot/Seedling OSR19 RM225
Osa06LNT0326700.1 6 Hd3b Physiological trait Flowering nan nan
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