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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa05LNT0291200.1

GTACAAAGCTCAGATCAGAAAGATATAGAGGTCATAGATTGAATAATGATTGATTCATTGCCTGCTCTATGATATCAGGAATCAGGATGCAGTCATATTTTGACAAAGGTAAAAGAAATATAAGTGTCTATTGCACACTAGATTGCCTACAAAAATTTCTCTGAATCAAATTCTTTATCCCTTCCATGAATATAACTCGTGTCCAGTGAAGGACACTTCTAGTGCTACAAAAATCCAAAACAGTAACACAACCATTCGATCAGGTAGTTTTGTTTGGGCATTCCGACGCGAGATGGCCAGCGATGCCACATTCATAACATGTCCGCCTCTTCTTTTTCTTCGCAGGCACAGGGTTTGTGTCATCACTAGCCTTATTTCCATCTGAAGTGGCTGAAGGTATAGTACTTGAGCCACCATAAGATTTCTCCATGTCAGAATTGACTGCAGCAACTTTGTTGGGGCAAGCTGATGAGAGATGACCAGGAATGCCGCATTCATAGCATTTCCGCCTCTTCTTGGAGGGAGCTGAATTTGATTCTTCACCTATTTTATTATCCTCGGGAGTGATAGATGGTGCAGACTTTGTCTCATCATCAGGCCCCTTGTCACTAGAAACAGCATCGCCGGCCTTCTTGTTTGGGCAAGCCGATGAGAGATGGCCAGGAATGCCACATTCATAGCATGTCCGCCTTTTCTTTGACGATGCTGTGACTGAGTCAACATTAGCCTTCTTTTCATCAGAAATGGCTTCAGAAGCCTTCTTATTAGGGCAAGAAGAAGAGATATGACCAGGCGTGCCACATTCATAACAAATCCGTATCTTATTATTTGATGAATCTGGATTTGCATTGCCATTGAGCTTCTGATTGTCCTTCTTGGGGACAGCACATCTAATTCTGACTGGCCGCCCCTTAATCACCTTCTGATCAAGCTTCATTGCAACAGCAACAGATGTACCCTCAGAAAAATCCACATGCACATAGCCTTTGAAATCACCTGTCTCCTTGTCTGTTCCGAATCGGATGGATGAGATTTTGCAATCAGAAAAGAACTTCTTCAAGTCATCCTCTGTTATGTCCCATGCCAGGTTTCCAACATAAACCCTATTGTATCCCTCTATCATCTTTGGTGCAAAATCTTCCTTTTCACGGACAGATTTGTATGGTTGAATTTTCAAAAAAAATCCTCCCATATCTGCACCATCAAGAGCCAATGCCCTTTGTGCGGCAGCATCAGTCTTAAACGTGAGAATGGCAATGCCCCTGAATTTCCCGCTCTCGGGAAATGTCATGCAATCCACTGATGTGATGCTGCCACATGCTTCAAAGAAACTTCTTATGTCATCCTCGGAGGAATAGTATGGGATGCCCCCAACATACACCTTCTTCGCATTTTTCTCGCTCTCCTCCGACAAGACGGGATCGTCAGATCCAACTGCATGGTCAGCTACTTGCAGCTGCTTCTGGTTCTTCACCTTGGGCTCCGACTTGGGCTTGCGTTTCTCAACCACCTTGGCCGGAACTTGCTCCTCCGCCGCCGCCTCTTCCTCACCCTCCGTTTCCGCCTCATGTTCC

Coding Potentia
Explanation CPC Score
noncoding -1.24981
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0291200.1 5 788718 G T
Osa05LNT0291200.1 5 788750 T A
Osa05LNT0291200.1 5 788886 T C
Osa05LNT0291200.1 5 788931 T C
Osa05LNT0291200.1 5 789080 T C
Osa05LNT0291200.1 5 789615 A G
Osa05LNT0291200.1 5 791033 A G
Osa05LNT0291200.1 5 790985 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
Osa05LNT0291200.1 osa-miR5794 Translation 5.0 17.763 1 21
Osa05LNT0291200.1 osa-miR812s Cleavage 4.0 20.146 1 24
Osa05LNT0291200.1 osa-miR5810 Translation 5.0 21.019 1 24
Osa05LNT0291200.1 osa-miR167e-3p Translation 5.0 19.288 1 21
Osa05LNT0291200.1 osa-miR167i-3p Translation 5.0 19.288 1 21
Osa05LNT0291200.1 osa-miR426 Cleavage 4.0 16.719 1 21
Osa05LNT0291200.1 osa-miR530-3p Cleavage 5.0 18.745 1 21
Osa05LNT0291200.1 osa-miR530-3p Translation 4.5 13.776 1 21
Osa05LNT0291200.1 osa-miR1857-5p Cleavage 3.5 16.764 1 21
Osa05LNT0291200.1 osa-miR1320-5p Cleavage 4.5 21.414 1 21
Osa05LNT0291200.1 osa-miR1320-3p Cleavage 5.0 18.428 1 21
Osa05LNT0291200.1 osa-miR395x Translation 5.0 17.797 1 21
Osa05LNT0291200.1 osa-miR5488 Translation 5.0 18.682 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0291200.1 5 CORN5 Physiological trait Source activity C597 R1838
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
Osa05LNT0291200.1 5 788888 Blade-pubescence-at-vegetative 14.99836063 -