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

>Osa06LNT0327400.3

GGGAAAGAGGGAGTATTAATTAAGCTCAAAATGTTGTAGCAGTACAAACTGAAGTTACATTGGACTGAAGAAATTACATCACTATTGGGTCAGCTACAGATTTGTATCGACTCGCAAAATTTTCTAAATCTTATACAGCAATTGGCCGTTTCGGTGAATGTCTGTGAATCGTGAATTTCGATGTTGTTTTTCTCTTGAAGAGAACATACAGTGCGATGATAATGAGCAAAACAAATAGATACAGCTCGAGGCGAGCTCCCTGCACATGAAACAACTTGTCGTCGTCACATGGGCAACCTAAGTCATTACGGACCACTTGTCCATTAGCTCCATCTCGATCTAAGATGAAGTCCAAGCTCACAGCCTTCTCCTCCACCACAATACGTGTAGCTTTTGTTCGGAAGCCCTCCATAGATGCCATGACTTCATAGTTCTCACCAGGTGCAAGCATTCGATGGTAATCGCCATAAGTCCTGCTAGCCCTTATCTCAGAACCGATACCCTTTATCGTCAGGGAGCCTGGTATAGGATGACCTGTATCTGCCGCAAATATCCTTCCATGAACTCCCGTCTTCACAAGGCTTGCAGCAAGATTAAGCATACTCATCCTATTCTGTTCCCATATGACAGGAAGCTCAGCTGCCTTTGGCCATTTTACGTCACTAATTTCCAGGGTTAACTCAAAGCAACCTCCATGTATATAGTTCCAGTCTTGCATCCCACCATAGATTGGATACCAGAATGCTCCATTTGTAATCCCTCCTTTAAATTCTTTGCTCAAAGACATGTTATAGTGCGATTGACTATAAACTGATGCCATGTACCGGAATGTCTTATCATCAGGACATCCATAATACTGTTTGCTTTGATCTCTAGACCCATCCCATGGATAATTTGCAACAAGAGCACCCCCATGCAAACTAGCGGAGGCAGTGAAGTGTTCTTGTTTTACCCAGTTCATAATAGCTCTAGTTTCAGGTTGTCTGTAGTTAATTTCATCGTTGTTGGTGAAAAATTGGTCAGGAAAATCTCTGTTGAGGTCAACATTGTTTGCATTACCACGTCTTCTAAGAGCAAATCCATCAGGGTTCATCGTTGGAAGTATATGAAGATGCATGTTTTTCACAATAAGAGTTGCCAAGGGATCCTTCAAATAGTTATCACACAGCCAATTTGCAAGCTTTATAAGAACCTCCCTTCCAACAGGTTCATCACCATGGACATTACCAACATACTTGAATGCTGGTTCAGCTTCCTTTTGCCCAGGCTTGTCTGATATTTCAATCACCCACAATGTGACACCATTCACACTCTTTCCAATGCTGATAACATGATCGTGCAATCCCTGTATATCCTGGAGATATTAGGATAGCGGCTTCCAATGGCATGCACAGCAATCTCAAGTTCCGAGTTGCTCATATATCCACGGACCAATTCCTCCGTTATCATGGGATTATCCTGAAGCAGGTTGCGCAAAAATGACCCATAATTTCCGCTGGTACCTGGTTAAGAAACATATAGATTGAGTCACTAACTGCATACCTATGAACAGATCTGCTACGTCTATTGACAATGATTCTATAAGATGAGACGATGATGCAGGCCTAAAGTCACAACTCCCAGTCTAGCTAAAATTCTTCGCAGAAAAGGACAGAGGTGTGCGAGTTCATCACAGTAATTATCCAAGCTAAGTACATGACGCAATCTTCCACACAACTACACCCTCATATTGCACTCGAAGAGTTTGTGCTCTTCATCACTGTCCACGCACTGACATCATCGTCCCCAATCCGGAAGTCACTTGTACCAAAATTGTCCAGGCACAGACATCGCCCCCACAAATCCGGAAGTGAAGCAGTGGATTCGTGTCCTCCCGAGCTCCCCAGCTGAGAAATCGAACATACAGATTCCACGCGGACGAATCGAGCTCTGAGGGATGGGAGGCGCCTCTCGCTGCGGCCTGAGCGGGAAGCGAGGAGAATGCGCGGAGGAGGAAGAGGGAGAGGAGGAGGCGGCGCGAGATCGCCATGGCCGCGTGCTTGAGCC

Coding Potentia
Explanation CPC Score
noncoding -1.04843
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0327400.3 6 2359182 T C
Osa06LNT0327400.3 6 2363435 A G
Osa06LNT0327400.3 6 2363694 A T
Osa06LNT0327400.3 6 2363803 A G
Osa06LNT0327400.3 6 2364470 T A
Osa06LNT0327400.3 6 2364916 T C
Osa06LNT0327400.3 6 2361342 T A
Osa06LNT0327400.3 6 2361550 C T
Osa06LNT0327400.3 6 2362012 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0327400.3 osa-miR5836 Cleavage 5.0 17.652 1 21
Osa06LNT0327400.3 osa-miR5512b Cleavage 4.5 17.761 1 21
Osa06LNT0327400.3 osa-miR7692-3p Translation 4.5 19.118 1 24
Osa06LNT0327400.3 osa-miR7695-5p Cleavage 5.0 10.944 1 24
Osa06LNT0327400.3 osa-miR444a-3p.2 Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR444b.2 Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR444c.2 Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR444d.2 Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR444e Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR444f Translation 3.5 13.223 1 21
Osa06LNT0327400.3 osa-miR1860-5p Cleavage 4.5 18.987 1 21
Osa06LNT0327400.3 osa-miR5512a Cleavage 4.5 17.761 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0327400.3 6 Hd3b Physiological trait Flowering nan nan
Osa06LNT0327400.3 6 qAC-6 Physiological trait Eating quality R2869 R1962
Osa06LNT0327400.3 6 alk6-1 Physiological trait Eating quality RM190 RM253
Osa06LNT0327400.3 6 hr6 Physiological trait Eating quality RM190 RM253
Osa06LNT0327400.3 6 qAC-6 Physiological trait Eating quality RM190 RM510
Osa06LNT0327400.3 6 qGC-6 Physiological trait Eating quality RM190 RM510
Osa06LNT0327400.3 6 nan Resistance or Tolerance Drought tolerance RM170 RM204
Osa06LNT0327400.3 6 nan Morphological trait Shoot/Seedling OSR19 RM225
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