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

>Osa04LNT0257400.1

GAGAGAAGAGAGCTTATAAGTTGGTTTCATTCGGTCTTATAAGTTGGTTCCATCCTTACTGAAGGAGTAAGGTAATATTTAAACATGCGCACATATTTGTCATAGGCCACATAAGCTAAATTATAATTGGGCCGAGATGTCCCACACTGATGAGTCATGGTGCCCGAATATATATCCCATGTATTCCCGATTTTTCACGCTACCAAATAACAGCAAATTATATATATCGCTGTAAATAACTCGGCTAGACAAAGAGCAAAATCAACCAGCAGTGTATATATGTGTAGTTGCATAGAACTTGAAGTCAGGCTACCAAGATTTATCCAGAGCAGAGACACGACCAAGTCCAGAGCAAACTTCAATAACCAGCAAATATATATGTAGCGTACGAGTGTCTCATGCATGTATCCAAGACCAACCCGATTAATTTATCAACAGCAGTTAATTGATATAAAAAAACCAGTTTTTCAGATGATAACTTTTTTTCTAGGTGGGTAGGCCTCTTATAGCTAAATGGCTCCCTACGAAAATGACAACTGTGGGACGACTGAGAAAATAGATTTTTGCACGTAGATCTATTAAGAGGTCCGCCTGCAAAAGGGTTAAGCATCTTAAAAACGCCACTTACGCCCAGCCAAAAATCGTTAAGTTCCTCTCCATCACCTCTCCGGCTCTCCCTTCCCAACTCTCCCTCCCCTCACCTCTCCCGCCCACCTCTCCTTCCTTATCCCCGGTGCAGATCCGGCCAGAGGGAGATGGCGACGCACCCCGGCACGGCTCGCCTCCCCTCCCTCGCAGATCCGGCTGAAGGGGGGAAGGGGGAGGGCGGTGGCGGAGGCTGCTCCTGGTGGCGGCAGCTGCTCCTCTCCCTCCCTCCCTCCCAGATCTTGCCGGGAGGGGAAGAAGGGGGGAGGTGCGCTGTGACCACGAGGAGAGCCGATGGTGCACAGGTTGGAGACGACGGCCACTGGCGACCAGGAGGAGAGCCGGCGGCGTGGAGGGTGGAGGCGGCAGCCACCGGCAGCATGGAGGCGCACAATGACTAGAAGGAGAGCCGGCGGCCATCGGTAGTGTGGAGGCGCGCGACGACTAGGATAAGAGCTAACGGCAGCCACAGTAGGCGGCTCCCCTCCCCTCTCTCCCAGACCCGGCGACAGCACGGTGGGTGGAGGCGGCGAACAACAGCAGCGGAGGGACGGTCACAGTGGTCGGCGCCGCTCCCCTCCCTGCCTCCCTCTCTCTGTCCTAGATATGGCCGGAGGAATGTAGTCAGCTGGCGGTGGCGGATTGACGAAAGGAGGAGGGGATCCAACGAAAGCAGTGGAGGCAGCGTTCCCCTCCCTCCCATCTCCTAGATCCCGCTGAAGGAGGGGAGCTGGC

Coding Potentia
Explanation CPC Score
noncoding -1.00573
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0257400.1 4 16291512 G A
Osa04LNT0257400.1 4 16290466 C T
Osa04LNT0257400.1 4 16290995 T C
Osa04LNT0257400.1 4 16291267 T C
Osa04LNT0257400.1 4 16291357 T C
Osa04LNT0257400.1 4 16291490 C T
Osa04LNT0257400.1 4 16291562 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
Osa04LNT0257400.1 osa-miR529a Cleavage 4.5 22.148 1 20
Osa04LNT0257400.1 osa-miR1880 Cleavage 4.5 21.325 1 24
Osa04LNT0257400.1 osa-miR2120 Translation 5.0 13.596 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0257400.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0257400.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0257400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0257400.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0257400.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0257400.1 4 nan Morphological trait Panicle/flower RG788 RZ69
Osa04LNT0257400.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0257400.1 4 nan Morphological trait Root RZ69 RG449
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