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

>Osa09LNT0449400.1

GCTAACAGATCAGCTGTATTATTAGCCTTAGCTCTTACCGCCGAATTACCTGTGCGTGTTCCACACTTCCAGCACCACATTGAATGTGGTTGTCAACGCAGGTTTACGATTCCAGAATTGCTAGTATTTGAAATGAGAAGAATTCCTAGTTGGATCCGGCAACAGCAGCACGAGTTGCGAACGTTGAATCCTTGCAAACGATTACGATTACAGTTTACAACACAGTGCACATGAATTAGTCTAATACACAGTGAGAAGGATAGGAGGGTTTGTCACTTGGTCAGCCGAGCCGGTTCCGGATCATCAGGCTAGTGGCGTCAAGGCCCTCTCGATCCTCCAGAGGGTGATGATGGAGGTGAGGATACAGAGCAGCCCCCACTGCCACCACAGGATCTGGAAGGTCTTGGTCATGGGGACGAAGAAGCTCACGAGGAAGATGATGAAGATGAGGGCGAGTGTAACGGCGATGATCCTCACTGTACTCTTCAGCTCTCTGAAGTCTCTCTCCGTCCACTCCTTCATCGCCCGCTTCTCCAGGTCCCTCTTGAACTCCACGGAGGCCTTGTCGGTCCAAGTCTTCTCCACGGTCATCTTCTCCATCGCCTTACGTCGCGGGGAGGCGGGAGCCGGGAGGAGGAGCAAAGGAAGCTTCGCCTCGATTCGCACCGGGAGCGCGCGTCGCCGCGTACCCCCTCAAGCCGCCGCCGCCGCCGCGCGCGCGATGCGATCG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.645256
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0449400.1 9 21555502 A G
Osa09LNT0449400.1 9 21555987 A G
Osa09LNT0449400.1 9 21550515 C T
Osa09LNT0449400.1 9 21551379 T C
Osa09LNT0449400.1 9 21552169 C T
Osa09LNT0449400.1 9 21552719 G A
Osa09LNT0449400.1 9 21552896 A G
Osa09LNT0449400.1 9 21553186 T C
Osa09LNT0449400.1 9 21553530 T C
Osa09LNT0449400.1 9 21553540 T C
Osa09LNT0449400.1 9 21553863 C T
Osa09LNT0449400.1 9 21554121 A G
Osa09LNT0449400.1 9 21554229 G C
Osa09LNT0449400.1 9 21554368 T A
Osa09LNT0449400.1 9 21555221 A G
Osa09LNT0449400.1 9 21555358 C T
Osa09LNT0449400.1 9 21555524 T C
Osa09LNT0449400.1 9 21555574 A G
Osa09LNT0449400.1 9 21557234 C T
Osa09LNT0449400.1 9 21557668 C T
Osa09LNT0449400.1 9 21557960 T C
Osa09LNT0449400.1 9 21556564 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
Osa09LNT0449400.1 osa-miR171e-5p Cleavage 5.0 24.108 1 21
Osa09LNT0449400.1 osa-miR414 Cleavage 3.5 19.985 1 21
Osa09LNT0449400.1 osa-miR414 Cleavage 4.0 24.493 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0449400.1 9 dhc9.1 Resistance or Tolerance Drought tolerance RM215 RG667
Osa09LNT0449400.1 9 rwc9.1 Resistance or Tolerance Drought tolerance RM215 RG667
Osa09LNT0449400.1 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0449400.1 9 yldp9.1 Morphological trait Seed RM242 RM205
Osa09LNT0449400.1 9 Tac1 Morphological trait Culm/leaf nan nan
Osa09LNT0449400.1 9 gy9 Morphological trait Seed RM242 RM215
Osa09LNT0449400.1 9 Spk(t) Morphological trait Culm/leaf nan nan
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