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

>Osa03LNT0201100.3

GGGAAAAGGAAAGAAAAAAAAGACGGTCAGCGATGAGAGGCGAGAAATTAAGGGGTGAAGGCCGGTGAGAAGCGATGGGTCTCCACCGGGCATCCCTCTCGCCATATCCGCCGGCGGCGAGCGGATCCGGTGGTGGAGAGAGCTTGTGGCGCTAGCAGGATCCAGTCGAGCTCAAGGAGAAGGAGAAGAGATGGTGACCCCTCCCAGCGACAGCGAGAAGCGGGCCTGACTCGCGAGGTGCGTTTTCTCGATCCGGCTTTTGATGCACGCATAGATGCAACTCATGCAAGCAAGCAAATCGCCGGCGCTCAGGCAGGGCCTCTCATCTCTGGCTCGGTTGAGCTAAGTAAGCGGCTACCAATCCAAACAGAAACCAAACCAATCCAAACAGAGGCATACAAACATGTATTAGTAGTAGTGGTACTGGTAGTAGTACCACTCATGCAGCACAACAAGAGCAAATGCAGTGATGTTCATACAGTACAACAACTAGCTAATTTAAGCAGCTTCTAACATGGTTGTGCTGCAACACATATAGCATGCAACACTAGTCCAAAGAAACAGAGAAGATAAATGCCTCCATGAGGCCAGAGAAGATACAACAACGTTCCTTCAAAGCTTTCCAATTAAAACAACTTCAAATTGTTTCCTACAGATCAACATAAGAATGCAATGATCGTCTGAAAAATACAATGATAGTCTAATAAGTCAATTTCTGATCAATTTGTCTTACATACATCCCCGAATCTAGTATCCTGTCACAGAATCTCTCCAATCTAGCATTTTACGGTGCCCCCCGCTGCTTTGTGTAGTAGTGTAGTAGGATTATATCTGAGCGTTGATTTTTATGGGCATTTTCAACCTTTTCTTATTCTTGGTGGAAGGGTAAATATGTAATTTCGTGTGCATGGCTGCAAGGTCCAAGTCGCTGCCCTTCCCCCATCCTTTCATCGACGCCACCATCGTACGCGAGTTTTGGAGCACCGTACGTGCCGCCGTAGCGCCGCCGTCGATAAGTCGTCACCGTCACCCTCCACTCCCCTCCACCGTGCGAATCAAACTCCCCCGCCGTTGAACCATGTCGCGAGTGGCGGCGAAGCCTGGCGACCTCTTCTCGGTGCGTTCCCGCCGGCCGTGTCGTTGCCCTCACCGCCAGCCGCCTCTCTGCCCTCCCCTCGCTGCCCTCCTAGCCCAGCTGCATATCTGCACTCTCCCGGCCTCGTCGCTGCCCTCTTCGCCGGATGCCTCTCTGCCCTCCCCCGGCGCCTCTCTGCCCACCCCACTAGCCGCTTGCCTACATTGGTTGTGGAGTCGCCGATAGTCATCTGCTTTGGATTTGATTCAGATGACCAGTTGATATTGCCATTTCTGAATTCATTATCGCCAGAGAGATCAGTTGATGTTGAGAATCTCAATAAGAAGAAGAAATGAAGTGTTTTGCTTTGGTTTCGAATTCGTCGCAGTTTCTGTGATCCAAACTTTTAGTGTTACAGAAGGCATGGAAGTGCATGAAAGTACCGGTACTGAAAATTGCATTGGTAGTTTGGTACCGTAGAAGAAATAAAAGGGCAAGGTAGTTTAAATGTAATAAGATCACAATTCTGACAGTACTGAATATTGCACTGCTAGCTTATAATTTGCCCCCTTCAGTTCATTGCACTGTATTTTCAGAATCCATGGAATTCGAATTTCAGTGCTCTGAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.882559
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0201100.3 3 5694600 G A
Osa03LNT0201100.3 3 5694607 A G
Osa03LNT0201100.3 3 5694685 T C
Osa03LNT0201100.3 3 5695181 G A
Osa03LNT0201100.3 3 5696598 G A
Osa03LNT0201100.3 3 5696611 G A
Osa03LNT0201100.3 3 5696820 C G
Osa03LNT0201100.3 3 5696860 C T
Osa03LNT0201100.3 3 5696983 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
Osa03LNT0201100.3 osa-miR5827 Translation 4.5 13.179 1 21
Osa03LNT0201100.3 osa-miR1423-5p Cleavage 4.5 18.401 1 24
Osa03LNT0201100.3 osa-miR1846e Cleavage 5.0 17.375 1 20
Osa03LNT0201100.3 osa-miR2091-5p Cleavage 3.0 23.679 1 21
Osa03LNT0201100.3 osa-miR2863b Cleavage 4.0 13.545 1 21
Osa03LNT0201100.3 osa-miR5149 Cleavage 4.5 18.406 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0201100.3 3 S34(t) Physiological trait Sterility nan nan
Osa03LNT0201100.3 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0201100.3 3 qTA3 Physiological trait Eating quality nan nan
Osa03LNT0201100.3 3 qTNL-3 Morphological trait Culm/leaf C563 R518
Osa03LNT0201100.3 3 Gy3a Others Others RG266 C63
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