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

>Osa08LNT0409000.1

GACCGCCCCTCCGTCCGCTGGCGGTTTGCCAGCCGGATTAGGCTGACGGCTCCCAATCCTCGTCGGAGTCGGAGGCCGGCCGAGCCCTGACGCCATTCCCCAGCACCCCGTTAGGGAGTGTACGGCTAGGAGAGCCATGGGGGACGGCGATGAAGATGTGGCGGAGGCCGGGACGGCGAGCGGCGGCTTCACTGGCGTGACGACGAGACGAGGACGGATTGAAGAAGGGCGGCTCCCCCGTGCGCGCAGCCAGGGTACCGGTCCGGCCAGACCCCGCTGGCGCGGGAGTGGGGGAACGGCGTTGGCGTCGGCTTGGTGTCGGTGGAGGTGGTGAAGGAGCGGTTGATGGTGGCGGCTGCGACTCCATCTCCGGGGGAAGAGCACATGGCTCGCCGGGTAGTGTCACCACTGCCGTCCATCTGTGGTGGGCGCAGTACTGCACCCCCTACACGAGGATCCGGTGAGGTGCTTCGGCAACCGGAGGCGGAGGAGGAGGCACAACAGGGACGGGCGGGGGAACCACAACCGGAGTTGCAGTCACATGGCGGCGAGGGTAGTGGCGGCGGCCACCAACCCTAGCCCTGCCTCCGCGTGATCCCCAGCGTGTGCTCCTCATAGGTCGGCGAAGAAAATGGCAGAGCCGGCATGCGCGCTGATGGCGAGGGAGGCCGAGAACGACATCCATGATCCAATGAAAAGATAGGTATCGTACCTTCTCTAATGATTCTTCTATTTGCTTTTCTGTTAGATCAAAAGCGATGTTTCTCCCTTCTTTCACTTCGCGATCTCCTTCGCCTTCGCTCTCTAATAACGTGTTGAACGTGGATAGAATTGATTGAGCGAGAGATTGAGAGATTGAGCGAGAGAGAATTTAACACAAGAATGTAGGGAATAAATGAGCGGATTTCTTTATTGATCAGTGCAGTACAATTTATAGATGGGGAAGGAGTGGCATCGTGTCTATTGTCAAGGAGCGCCTAGAGAAGAGGCGCGGTTGCCTTCAATTGCGATCCATTAGATCACCATGTTGTTTCATAACAGGTACGAGGGATTGGATTGGGTTGAGGAGAGAAGGGAATAGAGGGGAAAACCTGTGGCGCTATGGTCAATCTCCCTCTCATCCATCATCACCCTCGAACCGCATCGCCACCCGCTTATCAAGGAGATGGGGGAGGCAGCCGCTGCTCGTTGGAAGATGAGACCATCACCACTGCCACTGCTTCCCCGCAGATCCGGCCGCGCCTGGCTTCAAGGTGGCTGGATCCGGTGGCCCCCGGCTTCTAGGCGGCCGGATCCGGCGGCCTACACACTGGAGAGAAACGGCACGCGATGGCGGTGGTGGCGCGGGGGCGGGAGTGCGCTCATAGCGGCGTCGCTAGCAGGGAGAGATGGGGAGCGAAGGCGAAGGACGGACGGAGAGCGAGAGGGCGGATGGATAGGAAGGATCGGCTTCGATGTCTGTTCTTTTTTGTTCGTTGTTTTTTTATTCGGCTTGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0664081
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0409000.1 8 13909777 A G
Osa08LNT0409000.1 8 13909855 T C
Osa08LNT0409000.1 8 13909871 G A
Osa08LNT0409000.1 8 13909885 C T
Osa08LNT0409000.1 8 13910604 A G
Osa08LNT0409000.1 8 13910075 A G
Osa08LNT0409000.1 8 13910346 T C
Osa08LNT0409000.1 8 13910446 T C
Osa08LNT0409000.1 8 13910642 A G
Osa08LNT0409000.1 8 13910662 A G
Osa08LNT0409000.1 8 13910238 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
Osa08LNT0409000.1 osa-miR5499 Cleavage 4.5 14.25 1 21
Osa08LNT0409000.1 osa-miR1873 Translation 4.5 20.445 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0409000.1 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0409000.1 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0409000.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0409000.1 8 hsa2(t) Physiological trait Sterility nan nan
Osa08LNT0409000.1 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