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

>Osa05LNT0321900.1

GAGCCAACAAATTCATGGCAGCAACATGTAACACCACACATCAAAAGTTTTCAACCCATCAGGCACGCAGGAAACGTCCACATTCCACAGACAAGCTAACACTAGCATGCATTGGCCTAATTCAGACTCTTATGAAGAGACTCAGGCTGAAGCATGATAGACTCATGATCCTCTCTACTCGATCAGATCGTCATCGTCATCTGGGAGAGGTTGTGCTGCTGCAGCCGCAAGCTCAGCCTCATGCTGTTGCTGCATTGCCAGGTCAATGGGAACTTCCGGAGGTTTAAGAGCAACAGCTTCAACGAAATGCAGGGAATTATTACCCAGCAAGCTTCCTTGCAAGATAAAGGAAGGGCTTCTCAAAGTTGTAGTTGCTCTTGGCAGAAATTTCATAGTACTGGAGATTCTTCTTCCTGTGGAATGTGACCTGCTTGGCTTTAACCTGCCTGTTCTTCACATCAACCTTGTTACCACACAGGACAATGGGGATGTTTTCACACACCCTGCAAGAGTTGATACCTAATCATAAGAGTTCTCTTCCATATAATATATTAGGTAAAGTTTATCGTGTCTTCAGAAATAAACCTGCACAAGTCCCTATGCCATGTTGGAACATTCTTGTAAGTCAGCCTTGAAGTGACATCAAACATAATTATCGCACATTGACCATGGATATAGTATCCATCCCTAAGTCCACCAAACTTCTCTTGTCCAGCAGTGTCCCAGCAGTAGAAGCGGATCTTACCACAGTTGGTGGTAAAATCTAGAGGGTGAACTTCGACACCAATGGTTGCTGAAGTGACAAATTTGCATAACAGTTCAATAACTAATTTAGCAAAGAATACAGGAACAACAAAAATAAGAGTCATAGTACATACGCTCATATTTCTTTTCAAACTCTCCAGTGAGATGCCTCTTCACAAATGTAGTTTTACCTGCAATCAAACATGGCATACCATCAAAATCCATCCAATAACAATGATATAGAAGGCAATAAGTAAACTTTTCTTACGGAAATGAAGCCATTCAGGCATATTGCCGGCCTAAACTAATCAGACTGCAACTAATGTTTTGACCAATCTCAACTGATCAAAAAGCGCAATAGTTTACTGATGCGAAGGTATTTATATACTATTTTACTTTTTCCTCAAATTTATTCAGTCCCAGGCGAATCCTAGAATAACAGCATAGCACGATGGTCCATTCTAAAATAAGATAATAAATACATCTGACTAAATACGACCTGTATAGCATCATATTTATGCCGATTTCAATATCCTAAAATAACTCTCAAGATCCTAATCATCAAGATAGGAGTAGCAAAATTTTAGACGTCATATAAAAATAGAGCAATAACCCATCCCTGGGATAAGCTGAATCATAAAATGGAAACATCCAATACCCAAATCCCAGTCTAATGGCGAAATAAAAAAAAATCCATCGGATTTCAGCCACCGGTACAAATCTTAGCCCATCAGATCTAGTAGAAACCACACCGAGTAGACGCATCAAACATATCATAACATGCCGTTTCAGAACGGAATAGGATCCGAATCGAGATTGGGAACTCACCAGTCCCGCCATCGCCGACGATGACCAGCTTGAAGCTGGGGTAATCCACGGTCCCCTGATTCGGCAGCGCCTGGAAAAAAAAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.986664
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0321900.1 5 28623898 A G
Osa05LNT0321900.1 5 28624321 T 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
Osa05LNT0321900.1 osa-miR159a.1 Cleavage 5.0 11.81 1 21
Osa05LNT0321900.1 osa-miR159b Cleavage 5.0 11.81 1 21
Osa05LNT0321900.1 osa-miR159c Cleavage 4.0 11.81 1 21
Osa05LNT0321900.1 osa-miR159d Cleavage 4.0 11.81 1 21
Osa05LNT0321900.1 osa-miR159e Cleavage 4.0 11.81 1 21
Osa05LNT0321900.1 osa-miR159f Cleavage 5.0 11.81 1 21
Osa05LNT0321900.1 osa-miR2864.1 Translation 5.0 6.736 1 21
Osa05LNT0321900.1 osa-miR5150-3p Cleavage 5.0 21.916 1 24
Osa05LNT0321900.1 osa-miR2864.1 Translation 3.0 12.207 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0321900.1 5 nan Physiological trait Eating quality C246 C1447
Osa05LNT0321900.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0321900.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0321900.1 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0321900.1 5 tp5b Morphological trait Culm/leaf RM26 C1447
Osa05LNT0321900.1 5 qMRL5-1 Morphological trait Shoot/Seedling RM26 C1447
Osa05LNT0321900.1 5 qTDW5-1 Morphological trait Shoot/Seedling RM26 C1447
Osa05LNT0321900.1 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0321900.1 5 qRNw5 Resistance or Tolerance Other soil stress tolerance C1447 RM26
Osa05LNT0321900.1 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0321900.1 5 qRSd5 Resistance or Tolerance Other soil stress tolerance C1447 RM26
Osa05LNT0321900.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
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