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

>Osa05LNT0299800.1

AATCAAAGCAGATGGATTTCATTCCTAGCGACACCAGGTTTGAGTTACATACTGTGAGACACAAAAAGACACTAAGATTGAGCTGCTCATTTCCAGGTTATATGATTCTACTGTCTATTGAATCCAGCAGGCTACATGTCAAAGAAATAAAAGATACATGGATCCTTTAAAAAACAGCAACAGGTAGACTTGCAATATAGGAGTAGTAACAATCTCCACCCACACAACACACATCTGAGTGTGCATCTATGCAGTGATCTCGGATTTGGCATTCTTAGCATTTTCATCATCTTTGGTTGATGCCGCTGCTCTGTCCTGCTCTTTCTTCTGCGCCCTTAACAATGCACGTCTTGCCCGGGGACGCATCTCCTGCACTTGGCGTGGTGGCATCACAAAAGGTTCAAGAGGGCGATCATGGAATGGGTGCTCATTTCCAGAAAATATCCTCAATTTACGATCCCTGTCGAAGCAAGACCCTTCGCAAGTCACAACCATCCTTATAGTTCACGAAAAGATCCAAGTGTTTGCTAACATAAGTGTATATCTAACCCTTCTAGTGTGAAAACTTAACTGAATTAAGACATAGAAGCACCATAGTAAAGATGTGTACAACAATAATTACAGTTACATTTCAGTTATCTTATCCATTAAGCACAACGCACATGTCTCTGTTTTCCACATGTGGTGCATAAGTTGGCTTGTCCTTGCCCTGAAGCACAACAGCTATTTGGGACGCCAACCGTCCAAGGACCTGGCCCTTTGCGTCAAATACACACCATCTCAAACCATCTAAATTGATTCTTCTCAAGTCTGCAAGTGCGGAGCAGCTCTTGGCGGTGGACACGAGAATGGCGGCGAGGAGTGGCTCGTTGTAAGTCCACGACCTTGAAAGCGAGGGCGAAGGGGATCTGATCCTCGGGGGTGGACTCCACAACAGCGCAGACGCGTTCGACCAGCACCTCGTCGACCATAGCATCGGCGGCGAAGATGTCATCGGCGTCCCCGGCGTCCTCCCAGAGCGAGGCCAGGTTATCCTCCCCGGCTTCGGTGGGATCAGAGGCGAGGCTATCCTCCCCATCATCGGTGGGATCAGAAGATGTGGAAGCAGCGCCGCCGGCAGCATCCGGCAGGGGCTCCGGGGAGGAGGAGAGGAAGCGGGAGAGGGGGCGCGGAGGTGGTAGAGTCTAGTTAAGGCTCGAAGTGGAGATGGCGGCGGTGGCGGGAGAGGCCTGTGGATGGAAGACTGGAGGAGGAGGAGAGCACAAGCTCCCGAACGCCCGCCACATCTCCTCCTCGTCGGCGACAGCGGTGGCGGCGGCAGCGTGGTAGCTGTAATGTGTGGAGGCGGACGAGTCACTGGTCGAGTCGAG

Coding Potentia
Explanation CPC Score
noncoding -1.02263
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0299800.1 5 8692155 C G
Osa05LNT0299800.1 5 8695377 C T
Osa05LNT0299800.1 5 8695704 T C
Osa05LNT0299800.1 5 8695718 C A
Osa05LNT0299800.1 5 8696280 G A
Osa05LNT0299800.1 5 8696303 A G
Osa05LNT0299800.1 5 8696310 C T
Osa05LNT0299800.1 5 8696320 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0299800.1 osa-miR5530 Cleavage 4.0 11.416 1 21
Osa05LNT0299800.1 osa-miR5818 Cleavage 4.5 13.716 1 21
Osa05LNT0299800.1 osa-miR1858a Cleavage 4.5 17.857 1 21
Osa05LNT0299800.1 osa-miR1858b Cleavage 4.5 17.857 1 21
Osa05LNT0299800.1 osa-miR2094-3p Cleavage 4.0 15.378 1 22
Osa05LNT0299800.1 osa-miR5495 Translation 5.0 19.172 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0299800.1 5 yl(t) Morphological trait Shoot/Seedling nan nan
Osa05LNT0299800.1 5 qTHJ-5 Morphological trait Seed RM289 RM249
Osa05LNT0299800.1 5 gnp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0299800.1 5 nt5.1 Morphological trait Culm/leaf RM169 RM249
Osa05LNT0299800.1 5 snp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0299800.1 5 QKw5 Morphological trait Seed RG182 RG13
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