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

>Osa11LNT0093500.4

AAAGATAGGTGCACCTTGTCTGCAAAAAATATTTTCCCAGTAATGTCGATTTGAGCAAATTTTTCAGCAATCCAGTTGAGCACATTATGTTAGTCATGCTCCTCTTTGAATTTATTTTACCTAACTTCTGATTTGACACCTGGCGTACAGTACAACCGTGAACAGTAGAAGATTAAATCCAGTTGACAACGAAAGCTTAGCTAGCACTACTTTCAGCGAAGCACACATAAAGCATCGATCATATCCATATCATATCCCTCCATCGATCACAGGCTCACATCTCGTCTTTAACCACTCTGTTACTTGCAGCAGCATTGCGTGCTCCTGATTTGACAGGGTAAGAAGCCTCCATCGCGATGCCACACAGCCCATTCGAGTCTGACGACACACCACGCTGCATTCTGATGTACCCTCTCTCGCCCCAATCCTCGCCCCACGAGTTCTTGACGATCCAGTACTTGGTGCCGTCTCGAGTTATACCGTAACCGACAGCGGCAACACCATGGTCGAGATCCGTGCCGCATTCTCCGGTGAAGACACCCTCCGAATAGAACTGGAAATCTTGGCCGCTAGCCTCTACTGCAACAGCCACAGGCTGGTTTGCGACTGCTTTCTGTAGAGCCGACTCGTCATTGGCAGGAACGTCCTCGTAGCCATCAATCGTTACATCGTGAGAGCTTGCCTTTGCCTTGTTACACCTCCCCTGCTCCGCTCTATATGGGTAGTTGGACTCGGTGGTGATCCCTCCGTTCCTCTTGATGAACTGGAACGCGTAATCCATGAGCCCGCCGTCGCAGCCCTGGTTATCACCGGTGTCGCAGTCCACCAGCTCCTGCTCCGACAGCGTCACCAACCTCCCCGTCTTGATCTTGTTCACTCCCTCCACCGCCGCCACCGTCGAGAACGCCCAGCAGCTCCCGCATTGGCCTTGATCCTTGATGCCGGTGACGGCGCCGCGCTCGCGCCAGTCGACCGCGGGCGGCAGGTTGTCCTCGTCGTCTCCGCCGTACCGGAAGGAGCCCCCCTCGCCGCCGCGGCCGCCGCTCAGGCTGCGGTGGTGGCGCGCCCTGGAGCCCGCGTAGGTGCGGCGGAACTCGTCCGTCGTCATGTCGGCGAACTTGTTCAGCGCCAGCCTGAACGGCCGGCCGCCCCTCCTGTTCGCCTCGTGGATGTACCTCGCGTTCTCCACGAACACGTTGAACCGCCGGCGAGCCTCGCCGTCGTCGTTGCCAACGCCTCCTGATGCTGCCGGCCGCGACACGGTGTACCGGCTCCGCCACCGCTCGTACAGCGCCCGCAGGCTCTCCTCCGACGAGAGGTCGCTCTCCGTGAACGGGATAGCCCTCGCCGGCGCTGCCGCCGCCGCAGCCAACGCCACCGCCGCCGCCGCGACCAGGAAGCACCTCAGCATTTCGCACGGTTTTCACCCAGATACCGACAGCGCCAACACACAGGTCCGGGGGAATGGTAGCTATAGCACACCGACTTTATTCAGTTCAATGAGCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.967345
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0093500.4 11 8379792 T G
Osa11LNT0093500.4 11 8379482 T C
Osa11LNT0093500.4 11 8379529 T A
Osa11LNT0093500.4 11 8380794 A G
Osa11LNT0093500.4 11 8381712 G A
Osa11LNT0093500.4 11 8381886 A G
Osa11LNT0093500.4 11 8381989 A G
Osa11LNT0093500.4 11 8380884 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
Osa11LNT0093500.4 osa-miR166d-5p Cleavage 5.0 14.333 1 21
Osa11LNT0093500.4 osa-miR166k-5p Cleavage 3.5 14.333 1 21
Osa11LNT0093500.4 osa-miR1425-3p Cleavage 5.0 20.495 1 21
Osa11LNT0093500.4 osa-miR1861n Translation 5.0 20.359 1 22
Osa11LNT0093500.4 osa-miR2098-3p Cleavage 3.5 19.569 1 20
Osa11LNT0093500.4 osa-miR3982-3p Translation 4.5 18.23 1 21
Osa11LNT0093500.4 osa-miR5505 Cleavage 5.0 24.857 1 22
Osa11LNT0093500.4 osa-miR5524 Translation 4.5 14.036 1 21
Osa11LNT0093500.4 osa-miR7694-5p Cleavage 5.0 20.495 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0093500.4 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0093500.4 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0093500.4 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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