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

>Osa09LNT0429700.1

TGCAGCGCCACCGGCACCGGCGCCGCATCGACGCCGTCGACGCCGTCGTCATCGGAGCAGAGGCGCTGCAGGAGGCCGCACTTGAGGAGGAGGGGGAACTTATGTAGCTGATACTTTGTGTTGTTGACATGTATGATGAGATCAGCAGGTACGTCTGACAGTACAGACCTGACAGCTTCTTCGGTGTAGAATGTGTCAGGCTTTGTCCCAAGCTTCATGTACTTCATGGTGAAGAACTTCTTGATATCCTCAAGCAGCAGCAGCAGCACAAGGCCCCATCATATAGGCATGACTTTGTTACTTGCTCTTCCTCTCCTTTTGCTGTTCTCCTTTTTCTGCACAAGATGTTGCCAACTTGGCCTCATCCCTCTGTCCATTTATGTAGGCTGGCCTCAGTGTTCAAATGCAGGCTTGCCATGATCAGCACCTTGATAAGGAAGCTCTCATACATGCAGCTATCTGAGAGTTTA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.807315
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0429700.1 9 5025651 C T
Osa09LNT0429700.1 9 5025756 C T
Osa09LNT0429700.1 9 5026072 C T
Osa09LNT0429700.1 9 5026116 C T
Osa09LNT0429700.1 9 5026487 A C
Osa09LNT0429700.1 9 5027170 C T
Osa09LNT0429700.1 9 5028268 A T
Osa09LNT0429700.1 9 5028521 T C
Osa09LNT0429700.1 9 5029037 A T
Osa09LNT0429700.1 9 5029167 G A
Osa09LNT0429700.1 9 5025321 A G
Osa09LNT0429700.1 9 5026926 G C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0429700.1 osa-miR5819 Cleavage 4.5 16.41 1 21
Osa09LNT0429700.1 osa-miR167a-3p Translation 4.0 15.147 1 22
Osa09LNT0429700.1 osa-miR2102-3p Cleavage 4.5 24.96 1 22
Osa09LNT0429700.1 osa-miR2905 Cleavage 3.5 15.426 1 21
Osa09LNT0429700.1 osa-miR5486 Cleavage 4.5 18.053 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0429700.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0429700.1 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0429700.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0429700.1 9 Sub-1(t) Resistance or Tolerance Submergency tolerance C1232 RZ698
Osa09LNT0429700.1 9 apd9 Others Others CDO590 G103
Osa09LNT0429700.1 9 nan Morphological trait Root C711 G103
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