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

>Osa08LNT0402500.1

GAACATGGCCCAACGACAGGGCAACAGCAACCACAATTTGCATGACCAGAGATCTAAACAAAACTTGCACGGATACATTTCAGATGAGTGGCAAATGCTCCAGGGACCTAGACAGAAGGTCAAAACAGCAAGCTAGAAGAATTCTAAGTGAACACTTGTATATTTAACTAGTGATTGATTAGGCATTTTCGATAAGCTCAAGCTGCAATGAATGCTTTCTTCCCACCACCTGTGGAACCAGCTGGGATGACTTTAATAACGTTGAACCTCACAGTTTTTGATAAAGGCCTGCACTGGCCAATGATGACATGGTCACCTTCCTTAACACGGAAGCATGGAGAAATGTGAGCTGGAATGTTGGAGTGCCTCTTTTCATATCGCTGATATTTCTTCACAAAATGGAGGTAGTTTCTGCGTACGATGATTGTCCTATTCATCTTGGCACTGTGGCATGTTCCAGCAATAATTCTACCTCTGATAGAAACAGTTCCAGTGAATGGGCATTTCTTATCGATGTAGGTCCCTTCAATTGCTTCCCGGGGTGTCTTGAAGCCAAGGCCAATATTCTTCCAGAAGCGGTTACCTCCCTTGCCAGGCTTCTTCCCTTTGCCAGATTTCTTTGGGCAAAGGAAGACCTTGGGCTGCTTCAGGAAAGCTCTCTCAGTCTGCTCCGCCATGGCTGGCTGGAGGGTGTACGGCGGCGAAGGGGGAAGGAGGCTGCAGCGGCGATGCGGCGGCGGGCGGCGGAAACCCTAACGAGAAAGGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.619996
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0402500.1 8 6245425 T A
Osa08LNT0402500.1 8 6244149 T C
Osa08LNT0402500.1 8 6245304 G C
Osa08LNT0402500.1 8 6245752 A T
Osa08LNT0402500.1 8 6245859 G T
Osa08LNT0402500.1 8 6246262 A G
Osa08LNT0402500.1 8 6246315 A G
Osa08LNT0402500.1 8 6247068 T C
Osa08LNT0402500.1 8 6245473 A C
Osa08LNT0402500.1 8 6245482 A 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
Osa08LNT0402500.1 osa-miR399e Cleavage 5.0 24.137 1 21
Osa08LNT0402500.1 osa-miR399f Cleavage 5.0 24.137 1 21
Osa08LNT0402500.1 osa-miR399g Cleavage 5.0 24.137 1 21
Osa08LNT0402500.1 osa-miR399k Cleavage 4.5 24.137 1 21
Osa08LNT0402500.1 osa-miR5075 Cleavage 3.5 22.546 1 21
Osa08LNT0402500.1 osa-miR394 Cleavage 5.0 19.486 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0402500.1 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0402500.1 8 nfb8 Morphological trait Panicle/flower RG108 RZ562
Osa08LNT0402500.1 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0402500.1 8 nfb8 Morphological trait Seed RG108 RZ562
Osa08LNT0402500.1 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0402500.1 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