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

>Osa09LNT0450300.1

GCATTGGAAAATTCATGCATTTCACACAACCCAGTTCGATTAAGCAACATGGCATGTATTACAGGTTGTGGTGCAAGAAAAAGATGCTAGTTGAAAGAAAGAACAAACCCTATAGTGACTGTAGAATAGAATCCCTTTTCTTATATACACCACTTACTATCCTTTTTGTCTATCACCGGTTGGAACTCCATGGTTCGGTCTCGGCCTGCTACTTGTTTGGATCGCTTGGGCCATCATCAAGCTCGTTTGGTCGCATCTCTTCTGAAGAGACAGATTGATTTGTGCTTGAAGTAGCAGCTGACTTGCTTGGCTTCTTGAACTTGACTATGATCACTGTCATATTATCACAGCCATCACCACCGGATACAGGTGCCAAGCAATGGTCAAGCAACTTCTCGCAGACAGCAGATAGGCTATCCTCAGTGTTCATTTCTTTGTGAACAAAGTCCACCACTTCTTGACTTGACATGCAATCCCATATGCCATCACATGCTAAAACGATGAACTCATCATCCTCAGAAAGTTTAACTGTGTTTAATTCAGGTTCAGCAGTGACAATCTGTCTCTCGGCTGGGAGAAATTCATTCTGCTTCAATTCCATATCCCCTATTGCCCTTGCCAAGTTCAAACTTCCATTGACCCGCCCAGCAACAATGAAACCACCAGCATTCAGTATCCTCTCCTTTTCTGCATCAAGATCTGGCTTGTGATCTTTTGACAGGTCATAAGCTCGACCCTTCCTTGAGAGCACACACCGGGAATCACCAGCATTTGCAACAATGAGTTCATCATTTCTTATGATAGCCACACAAGCAGTGCTTCCAGATGTTGGCCCAGGAAAATGAGAATGAGGACCCTCCTCAGTCCAAGTGTCCTCAGGTTTATCTGACTCTCCAGGTTTCGGGGACCATATTATGCCTTCTAACATGCCAGTAAACTTTTGTCCCTTGTCCCCCAATTCAGCCAGTTCCCTCCACCCCCTTTGCCCTTTCATCATCTCATCCATTCTGAAAAATGACTTTAAGACAGAAGTAGCCAAATCACCAGATGAATAAGCCTCATTTTTCAGTACTTGCAAGTGTAGATGTTTCGCACAAAACTTAGATACTGCCTTCCCTCCATGGCCATCATAGACACCAAAAAAGGATGTGCATTCGTCCAGGCGTGGCAGGGCAGTGTGCGCGTCCTCCATGGTCGTCCGCCATCCCTGCATGGATGCGAGGCCGTAGCGGAGGCGGTCGTTCCCGCCCTCGCCGGAGTACTTCTCCGTCTTGGGCGTGCTCAGGTACACCCCCATGTCGCCGCCCAACCGAATCCCCCCAAACACCCCCGACGACGACGACGACGAGGGAGGAGGCGGCGGCGAGGCGAGGAGAGGCGAGGTGAGGAGGAAGCGAAGGGGAGGGGAGGAGGAGGTGGGCGAGTATTTGTAGGGGGCGGAAGCGACGGGAAGAGGAGAGGAGAGCCGGAGAGGAGGAGTCGGAGGCGGAGGCGGAAGGGAAGGAGGGAGATGAGGAGGGGTGGGGGATTCGGGGAAGATTGCGT

Coding Potentia
Explanation CPC Score
noncoding -1.09542
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0450300.1 9 22176719 T A
Osa09LNT0450300.1 9 22174039 T A
Osa09LNT0450300.1 9 22174298 T C
Osa09LNT0450300.1 9 22175444 T C
Osa09LNT0450300.1 9 22176107 A G
Osa09LNT0450300.1 9 22177902 G A
Osa09LNT0450300.1 9 22178076 C 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
Osa09LNT0450300.1 osa-miR1861o Translation 4.0 18.032 1 22
Osa09LNT0450300.1 osa-miR319a-3p.2-3p Translation 5.0 18.072 1 20
Osa09LNT0450300.1 osa-miR319b Translation 5.0 18.072 1 20
Osa09LNT0450300.1 osa-miR166l-5p Cleavage 4.5 22.055 1 21
Osa09LNT0450300.1 osa-miR1432-5p Cleavage 4.0 23.567 1 21
Osa09LNT0450300.1 osa-miR1861a Translation 4.0 18.032 1 22
Osa09LNT0450300.1 osa-miR1861b Translation 4.5 18.032 1 22
Osa09LNT0450300.1 osa-miR1861d Translation 5.0 18.032 1 22
Osa09LNT0450300.1 osa-miR1861f Translation 4.5 18.032 1 22
Osa09LNT0450300.1 osa-miR1861h Translation 5.0 18.032 1 22
Osa09LNT0450300.1 osa-miR1861i Translation 4.5 18.032 1 22
Osa09LNT0450300.1 osa-miR1861j Translation 5.0 18.032 1 22
Osa09LNT0450300.1 osa-miR1861l Translation 4.5 18.032 1 22
Osa09LNT0450300.1 osa-miR1865-5p Translation 3.5 16.592 1 24
Osa09LNT0450300.1 osa-miR1846e Cleavage 4.5 23.272 1 20
Osa09LNT0450300.1 osa-miR2097-3p Cleavage 3.5 12.06 1 22
Osa09LNT0450300.1 osa-miR2876-5p Translation 5.0 18.694 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0450300.1 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0450300.1 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0450300.1 9 qTN-9-2 Morphological trait Culm/leaf RM215 RZ404
Osa09LNT0450300.1 9 nan Morphological trait Root RM215 RM205
Osa09LNT0450300.1 9 Spk(t) Morphological trait Culm/leaf nan nan
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