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

>Osa01LNT0005600.1

TGGACCTAATCACTCAATGAAAGATATAGTCTTTCTACCGATGCAAAATTAACTTTCCAACACCTGTGACAAGTTGTAAAATTGTTGTAATCAGTCCGCTGTCCGGTCTAACTAAACCTCAACACAGAATACTTGTATGCAATGAAATGGGAAAAATGTAAGCGTGAAAAGAATCAAATACACTGGTTCTGCTTGCTCCTCTCGATTCGTGAGCAAAGAGCAACAAAGCAAGGTTACATATATATTTGCAGCTGCCTAACCATCTGATTAAAGAAAAGATGGTATCAAGGGCGTTCAAATGAATATCACAAATACGTTGTAGTGAGCAAACAGTAGTAACATACGTCGAATTTTACATGGAAGGAAAGACTTGGTTATCTTTAGGACGAGCAGCACGACGTCTTCTGGTTGACAGGTTGCCCGCGGATCTGCACGGTCGGTGGCCTTGCATTTGAAGCGGCCGGTTGGCTAGCCATCCTGTCCTTGATGGATGCGGCCATAGCCATGAAGGCCTGCTCCACATTAGTGGCGTTCTTGGCACTTGTCTCCATGAAGGGGATGCCCATCTCATCAGCAAACGCCTTAGCTGTTTCAGATGACACAACTTTGTTGGCAGTTAGGTCGCTCTTGTTCCCAACAAGGAGCTTGTTTACATTGTCACTTGCATAACGATCAATTTCATTCAACCACTGCTTCACATTGTTGAAGCTTTCTTGGTCTGTCACATCGTATACAATAATTATTCCATGAGCTCCCCGGTAATAGCTGCTTGTAATCGTCCTGAAACGTTCTTGTCCAGCAGTATCCCAGATTTGAAGCTTGATGGTCTTCCCATCCTGCTCTACTGTCCGTATTTTAAAATCAACTCCAATTGTGCTGATATAGCTGTCCAGGTATGAGTCATCCGCAAATCTGAGAAGCAAGCACGATTTCCCAACACCAGAATCACCAATGAGGAGAAGTTTGAAAAGGTAGTCGTACTCGGGATTCATGGCGGAGGGAGTGACCGCCGTGGATCGGGCGCCGCCGCTGCTTCGACCCACGGATCGTCCGCCGCGCCGACTCGGAACTCGGAAGCGGGCGGCGTTTGCTTCGGCTCG

Coding Potentia
Explanation CPC Score
noncoding -1.01209
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0005600.1 1 4162596 A C
Osa01LNT0005600.1 1 4162602 C A
Osa01LNT0005600.1 1 4162891 A T
Osa01LNT0005600.1 1 4163409 C T
Osa01LNT0005600.1 1 4163891 T G
Osa01LNT0005600.1 1 4163036 A 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
Osa01LNT0005600.1 osa-miR2873c Cleavage 5.0 13.5 1 21
Osa01LNT0005600.1 osa-miR396c-3p Cleavage 4.5 14.455 1 21
Osa01LNT0005600.1 osa-miR172d-5p Cleavage 4.5 20.211 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0005600.1 1 nan Morphological trait Root RM7383 RM243
Osa01LNT0005600.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0005600.1 1 qFLP-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0005600.1 1 gp1a Morphological trait Panicle/flower RM1 R753
Osa01LNT0005600.1 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0005600.1 1 qFLL-1 Morphological trait Culm/leaf RZ543 RG532
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