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

>Osa08LNT0408900.2

CTAGAATTTATCTATTGACCATGAATTGCCCATCATTTATAAAACATAATATTCCGCTGCCCATACTACAGCGGAACATAAACTTACACGTCCACAACAAAAATTTAAGCTTAAGATTTGCATGCTATAGTAACATCTTAAGCCTCCGAACTCGTATGCAAAGGAAAGGTGGAATTTGCACTTCCTCTTAGAAAACATCCGGATTAAAGCGCCCTGGAATTGAGCTGCCCTGCTGAGCTTGCCTAAGGAGCATGCTCAATCTGTAGTTATTAAGCTCAAGGTTTCTAACTTGTTCTTGGAACTCAGCAATGCGCTGTTTCTCATCCTGTAGTTCTTGATTCTTCGCATCATAGTCCTGCCGCTCATGCTGTATCGCAAATGCTCTCTTCAGAATGGTGTTTTCTCTTGTAAGCGATTCCATTTGCCCCTTAAGCACTGCATTTTCCTTTTGAAAATCATGAGGTCCTTGAGCATTGACATGAGACACCACAGCCTTCTCAAAAGCCTCCAGCACTCTGGTGGCACGAGACTTTGCATCATCCATGTTAGAAGCAGTTGTCATCTCATTCACAAGTAGCTCGACCCATTCTGAGCCATTTGACGGAAAGTTCTCAGGACAAGGGGCACTTTCTGAAGGTGCACCAATCTCGTTACCATCTGAAACAACTTCAGCAGACACCTGAACCTCAGTGGTTTCTTGTATGGGTTCAAATGCAACGCCACTGTTATTTTGCACAGATTCCAAATGTAGATTAAGCAAACTCCTTATTGCTGAATCCACATTATTTCCAGATTTGTCCAGAGCCTTTTCAATCATCTCGAGGCTCATGGCAGGGAATTGCGTAGAGAGTCGGGCGACAAGGTCGTTCTTGGTGACGCCGCGTGGCCAGGTGGGCGGCGGCGGCGGCGGGAAAAAGGCGCCCCCGCAGCGGGTACGCTTGGCAGCGGGAGGGGAGCCGCCGGTCGGGTGGGTGAGATCCTCGAAGAAGGAAGAGGAAGCCCGCTTGCCGCACACTACAGCGGACATGGTGGTCGCCGTGGCACCACCGGCCTGTGTGCCTTCCGTCCTCCTCCCCCACCCACCGTCGCCACCACCGCCTTCCGGGGCGATCGTGGGGACCTGGGAGGTGGCGCGGCTAGGGTTTCGGCCTTGGGGCGCGGGGGAGGCGCTCTGGTCGGGGCCTTCTCTCGGGATCGGCGGCGGAAG

Coding Potentia
Explanation CPC Score
noncoding -1.0955
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0408900.2 8 13393294 C G
Osa08LNT0408900.2 8 13392876 T C
Osa08LNT0408900.2 8 13393325 A G
Osa08LNT0408900.2 8 13393568 A G
Osa08LNT0408900.2 8 13393611 T C
Osa08LNT0408900.2 8 13394337 T C
Osa08LNT0408900.2 8 13394539 A T
Osa08LNT0408900.2 8 13395398 T A
Osa08LNT0408900.2 8 13395742 C A
Osa08LNT0408900.2 8 13396632 A C
Osa08LNT0408900.2 8 13396805 A G
Osa08LNT0408900.2 8 13397052 T A
Osa08LNT0408900.2 8 13397612 C T
Osa08LNT0408900.2 8 13397696 C A
Osa08LNT0408900.2 8 13397709 C T
Osa08LNT0408900.2 8 13397764 G C
Osa08LNT0408900.2 8 13397926 A G
Osa08LNT0408900.2 8 13398745 A G
Osa08LNT0408900.2 8 13395652 A G
Osa08LNT0408900.2 8 13398508 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
Osa08LNT0408900.2 osa-miR5814 Cleavage 4.0 15.807 1 24
Osa08LNT0408900.2 osa-miR530-5p Translation 5.0 18.063 1 20
Osa08LNT0408900.2 osa-miR1869 Cleavage 5.0 13.986 1 24
Osa08LNT0408900.2 osa-miR1881 Cleavage 4.5 15.497 1 24
Osa08LNT0408900.2 osa-miR5486 Translation 4.0 16.848 1 21
Osa08LNT0408900.2 osa-miR1862a Cleavage 4.0 18.819 1 24
Osa08LNT0408900.2 osa-miR1862b Cleavage 4.0 18.819 1 24
Osa08LNT0408900.2 osa-miR1862c Cleavage 4.0 18.819 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0408900.2 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0408900.2 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0408900.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0408900.2 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0408900.2 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 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