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

>Osa04LNT0252500.1

CACTCCCGCCCTCATCCGGAGTTCCCCGACCTCCCCACCATCGTCGTCATCGCAGGCCTGTTTTTGATTTTTTTTACAGCAGATGGTGGAGAGGGAGGGTGTAGCCGTGGAGTGAGGGTGGAGAGGGAGAGGCATACCAGATCTGGAAGGAGAGCGCCGCCAGCGGCAGCCCTACAACCTCCGCGTGCACGTTTGCGCCTGCCACCGTCGCCCTGCGCACGGCCGCCGCCTGCCTCCGTCACCCTGCGCCCACCCGCCGCCGCCGCCTTCGCCCATCCGCGGCCGCCGCTTGCCTCCTCCACACCCATCCGCGCTCTTCGTCCGATCGCCCGCCGCCGCCCCTTACCCGGCTGCCCGCCAGCCACCTGCACCCATCTGCGCGCTGCCGGCCAGCCGCCCCATATCCCTTGCAGAAAAGAGTAGAGAAGAGTAGAGACTAGAGAAGAGCGGAGAAAAGATAATAGATTCCGTCGTTTCCGGAGAGTCCGTTTTAGCAGGAGAAGATTTTGAAGAGTTCCAAGGCCAGCAAGAGGAAGAGTTCTACAATGAGGCTGATGGTGGGGAGGATTAGGTGTAGCCCTGGTCAAGCTGCCTGTGGAGTGGAGCCGTCTGCGCCGTTTATTTTATTTTTCCGCTGCTTAGATCTTTATTGATTGAGAGGAACTATCTACCTCTGTAATGACATTATATTCGCTTATTAATTAGAGTAATAATTGTACTCTATTATCAATTTGTTATTGTGTGCCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.952295
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0252500.1 4 8322721 A G
Osa04LNT0252500.1 4 8322834 A G
Osa04LNT0252500.1 4 8323445 T C
Osa04LNT0252500.1 4 8323938 T C
Osa04LNT0252500.1 4 8324186 T C
Osa04LNT0252500.1 4 8324194 T C
Osa04LNT0252500.1 4 8324415 T G
Osa04LNT0252500.1 4 8324423 A G
Osa04LNT0252500.1 4 8324429 C 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
Osa04LNT0252500.1 osa-miR414 Translation 5.0 18.555 1 21
Osa04LNT0252500.1 osa-miR5152-3p Translation 5.0 22.053 1 21
Osa04LNT0252500.1 osa-miR5510 Cleavage 4.5 21.713 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0252500.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0252500.1 4 nan Morphological trait Root RM261 RZ69
Osa04LNT0252500.1 4 nan Morphological trait Root RM261 RZ69
Osa04LNT0252500.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0252500.1 4 qSNP-4a Morphological trait Panicle/flower RM401 RM335
Osa04LNT0252500.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
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