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

>Osa04LNT0258800.1

TGATACAGTAACCATATTAACAGCAAACATAACTGCTCTTTCATGTGACTTTCACGCACAAGCACAAACGCATGAAAGTTGGACCATGGTGATACCTCCAGTTCTGTCCTCTTCCAAGAGACAAGGTAAAGGAAAAAAAAAGGATACAGAATGATTTACTACATAATCTAAATTAGAACGGTATCGTCATCTGCTAAAATGACATAAAAGAACATGAAGCACATTATTTGGATACAGAAGTGCATGTGGACCTTCATGTAATCTTACTACTGCTCAAACTAACAAAAATTACTCCCAGATCTTTGCGCAAGAGGAGCGAACAAAACATTCCATTTCCCCGGCTCTGCCTACTTTTGCTGATCACCCTTTGCTTCACAACTAGAATAATCCTTCCCTTAACTCCTCCAATGATTTGCCAACATTGCTATCACCAGATTGCATCAACTGAATCTTCCCATCACGCCGCACACAGATCTCTGGTATATTTTTCACTTGATCATTAATTCTGTCATTGTAGACTCTGGTCTCAATATCACCCTCAACGTAGACTGCAGAATTCTTGACTAACTTCTGAACGGCAAATGCACCAAGCTGCTCATTGTGAACAGATATTCGATGCCACTGAGCTGGCATTGGCAAGTTTTCAGCACCTACTGTCCTCTGGTCAAACATGCCACCTGTTCCAACAGTAAAGACAGTTACTGTATGCCCGTTTCTTAGTATTTTCTGTACTGGCACTTGTCCAACTTTTCCACAAATAATTGCCCTGTGCACACCACGGAAAACGTGATCTGGCCTGGAATGTGTGAAATCATCTTCGGCATCACCACCCTTGCGATTCTTCTCATCGACATCAGAAAAAGACGCAGTCGAGTTCCATGCTTGCGATTTTCTGTAAAACTCAACTGAGTTTCTTTGCTGTCCTAGGAGCCTCCTCACGCTCATGCTCCGGAGCAATTTCGCACTCATCATTGTAAACCTTCGATTCGAACCGCAATGAGGACGCTGAAAGGGGATCGGCGTCGGCCGCGTCGGCCTCCGAACCGTCTCGCCGCCGCCGGCCCGTGCGCGCGAGCAGGAAAGGAAGCACAGCCGCAGCGGAGGAGGAGGAGGAGGTTGCCGGGCTTGTCGCCGGCGGCGCGTGCCAGGAAACGCCTCCGGCTCGGTGGAGTCGAGCAGAAGCCGCCGGGCGGAGGAGAGACACCGAAGAT

Coding Potentia
Explanation CPC Score
noncoding -1.23015
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0258800.1 4 17491667 A C
Osa04LNT0258800.1 4 17492751 T C
Osa04LNT0258800.1 4 17492981 G C
Osa04LNT0258800.1 4 17493116 T C
Osa04LNT0258800.1 4 17493340 G T
Osa04LNT0258800.1 4 17493675 C A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0258800.1 osa-miR164a Translation 4.0 11.933 1 21
Osa04LNT0258800.1 osa-miR164b Translation 4.0 11.933 1 21
Osa04LNT0258800.1 osa-miR164c Translation 4.5 11.933 1 21
Osa04LNT0258800.1 osa-miR164d Translation 4.0 11.933 1 21
Osa04LNT0258800.1 osa-miR164f Translation 4.0 11.933 1 21
Osa04LNT0258800.1 osa-miR1857-5p Cleavage 5.0 20.098 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0258800.1 4 An8-glum Morphological trait Panicle/flower nan nan
Osa04LNT0258800.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0258800.1 4 nan Morphological trait Root RZ69 RG449
Osa04LNT0258800.1 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0258800.1 4 spp4-2 Morphological trait Panicle/flower RG449 CDO456
Osa04LNT0258800.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0258800.1 4 gwt4a Morphological trait Seed RG788 RG190
Osa04LNT0258800.1 4 nan Morphological trait Panicle/flower RG788 RZ69
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