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

>Osa05LNT0319800.1

CTCCCTTATGATCATCATGTACAACTGTACAAGCCATCTCCATCATAATAATTCAGTTTACTACATGCATGAAAGTTATGTTTATTCCACTATCTAAAAGAACATGACAGTTATGAATGTACAATGTTTAAACTAATCTTCACTACAAGCTAGATGTATACACAGTAGTACATCACCTAGCTAATATCAAACTGATTAAGTGTGCAGGACACACCTTAGGTATAGCAAATGTACAGTGCCATGAAATGTTCTATACAACTGTACAAATTACTTCAGATATTCACAGCACTATTTCAGTTCTCAGTTCTCACCGAGCTCTTCGGCCTTCTTCCATGGAATCTAATGACTGGTTGTTGGTTCTCATGTCCAGGCCTTGATGATGATTTGAAGTAGCTGTTAGCTGCACCTGGTTCTCAACTTCTGGGTGAAGAATGTGCTCAAAGTATGCATGAGGCCAAAATCCTTGTTCACCAGCAGGTGGTGGGAAGAACTGAAGGTAGCAGAAGGAAGCAACCACCAATCCAAGAATTCCACCGGTAAACACGTCCTGCCAATGGTGCCAGTAGTCATCCACCCTTGAGACCCCAACCATCGCTGCAATAAGCAGAGGCAAGACGACAATGCAGAGCTTGGCCACATGCCCTCCTCTGTCGAACGCCTTGATCTTGCCGGCCAGGTACCATGACAGGAAGCCTAATCCGGCAAAAGACCATGAGGTATGGCCACTTGGGAAGCTCTTGTGCCCTTCTTTGATGACACTTTTATCCCCATGGCAGATGACACCTCTGGTGATGTTGTTGTACTTCGGGATCCCGTCAGGAAAGCATCGCCAGAAGAAATTCGGGCGAGGCCGGCCAACGCCATCCTTGATCGCGTCGGTCAGGACGGCAGTGATCAGCACAGAAAACAGAAGCCCTAGGATCGCATGATGCAGGTCATACACATTCCTCCTCTTCATGTATATCACAATGAAGATGATCATCGGCCCAGCGACAGCATATATGGGGACGGCCCAGATGGGGACGGTGTTGCGCTTGAGCGGGTACCGGAGGCTGATCATCATGTCTTCTCCGACGAACCGGTGGAACGGCTCGATCAGGTTGAGGCCGGCGTCGATGGCGACGAGGAGGGCCAGCACGATCCAGTCGAGCAGGTGCAGCCTCGCGACCTTGGTCCCGTGGGTTCTCAGGTACGGGTGCGGGGCTCCCAGCCGAATGGCTGCCGGCGCCGGCGACGTCGCCGGCGGCGGTGGCGGCATCTTGATACAAGAAGAGGGGACTCAAACGCAGCAAGGAGATTCCAGGACGATGCAGAGAAGAGGGAGAAGAGCAGTGGTCAACGGCGGCCGATTCTCCTCCCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.906063
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0319800.1 5 27311518 A C
Osa05LNT0319800.1 5 27312573 C T
Osa05LNT0319800.1 5 27312574 A G
Osa05LNT0319800.1 5 27312904 C T
Osa05LNT0319800.1 5 27314001 G T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0319800.1 osa-miR444a-5p Translation 4.0 17.254 1 21
Osa05LNT0319800.1 osa-miR1432-3p Cleavage 4.0 16.841 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0319800.1 5 nan Physiological trait Eating quality C246 C1447
Osa05LNT0319800.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0319800.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0319800.1 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0319800.1 5 qGR5-1 Physiological trait Germination/dormancy C246 RM26
Osa05LNT0319800.1 5 qRA5-1 Morphological trait Shoot/Seedling C246 RM26
Osa05LNT0319800.1 5 qRDW5-1 Morphological trait Shoot/Seedling C246 RM26
Osa05LNT0319800.1 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0319800.1 5 qGT5-1 Physiological trait Eating quality RM538 RM480
Osa05LNT0319800.1 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
Osa05LNT0319800.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0319800.1 5 QFla5 Morphological trait Culm/leaf RG470 RG346
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