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

>Osa01LNT0003900.2

TAACTACTGCCTCCGTCCCAAAATATAACAACCGTCTCAAAATATAACAACTTTTGTCTATGTATCTGGACACGCAGTTGTCCAGATTAATAACTGAAAATACTTATATTTTGGGTTGGAGGGAGAATCAATTTTACTCGAGTCGCTCAGATTGATTTGCTGTTCGATCAAGCAAGCTGAAATCTACCAGCAGCAGCAACTTTAGTTCCCATGAAACAGCTGAAGCGCCGTCGCCTTCGTCATCCCGGCCGGCACCTTCTCGACGAACAGCAGGATCCCCACCGCCTTGGCCGCCTCCACGGCCAACTTCTCCGCCGCCTCCCACGCCTTCTTCTCCTGCTCCATCTTCTTTGTATCCACCTTGTTGTGCTTGGACGCCGAGTTGGAGTCCTCTAGCTGCAGCGCGTCCATGGTGAGCAGCGCCCTGGACAAGACCTTCCACCCGTTCACCTGCTCCTTCATGTCGGCGGTGATCGTCCCGCTCTTCCTCACCGCCCTGGGGTTCATGAAGCCGCCCACAAGCTCCGCCACGGTCAGGAAACGCACGGCTTCGTTCACCATCAGGAGCAGCGTCGCCAACGCCTCGCCGGCCCGTTGCCGCGCCGCGCCGCCGCCGCTGGCGGCGAGACCGGCGAGCGTGTCCACGGCCTGCGTCATCTGCTGCGGGCCGAGCGTGACACCGACCATGTTGTCCGTGTGCCCGAGGAGCTCGCGGTACGAGCCGCCGAAGCCGAGGTAGGTGGCGCCGGCGATGAGGCCGCGGGTGAGCTCCCACCACGCGCTGGTGCCGTCGCTGCCGCGGAAGCCCTCCAGGTAGAGGTTGTCGGCGCGCGTGGCGAGCGTGAGCTCGCTGGTCTGCGTCCGGAGCACGACGTGGAACCAGCGGCGCGGCGGGACGTCGGGCTCCACCGGCGGGAGGACGGGGCGGTTGTGGGAGAAGTGCCTCGGGTTGGCCACCCTCTTGCGGATGCCGGCGATGAAGTCGCCGTAGTTGTCGCTGCCGCTGCCGCTCACGTTGAACGTCACGGTGAACAGCGGGTTCAACGCCATGGCCGGATGCTCGATCGTTGTGAACTACAACTGACAAAAGCAGAGGATTGCTGAGATGTTGTTCCACGGACGCCTCTGTTGAGAAGAGAAATATCAGCCTGATGAGTAAGACGATGCTGGTCACATGGAAAAACTTGATTGCTTTGTCCCCATCTCTCCAGCTTCAAGATCAATGATTAAAATCGGAGCCAGAACACATGCTGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.236448
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0003900.2 1 3190937 T 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
Osa01LNT0003900.2 osa-miR6248 Cleavage 4.0 14.162 1 21
Osa01LNT0003900.2 osa-miR1436 Cleavage 4.0 14.162 1 21
Osa01LNT0003900.2 osa-miR1439 Cleavage 3.5 14.162 1 21
Osa01LNT0003900.2 osa-miR2098-5p Cleavage 5.0 23.365 1 20
Osa01LNT0003900.2 osa-miR5151 Cleavage 5.0 16.237 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0003900.2 1 qFLL-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0003900.2 1 qFLP-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0003900.2 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0003900.2 1 gp1a Morphological trait Panicle/flower RM1 R753
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