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

>Osa10LNT0069400.1

GAACAACAACAATCTCCTCTATTCCCCCATTGAATTTATCCCAGTGTTCATGAGACAAAGCATCTCTTAAATTCAGAGAATAGAAGGGAGAAGGAACACAAAATCAGAAGAAAAAAATTGACTTATTTGGCCATTTCTTTTAGCCATGAACTCGCTCTTTCTGCACACTTTGCTGTACCCGAAAAATAAATTAAAAGAAAAGGAAGAAAAAGGTCTTCACACTTGTCGATGGCATCTCAGCAAACGGAAACAATGGACTCAATTAGGTCGATAAGTGGAGCAAGCTCAGCCTTATCGATCAATTTGAACTCCCAGGTGAACAATGTGAAATGCTTGAAGCAGGTGTTAAGGTGGGCTTCTTCCTTGAGGCTCACAATCTTCTGAAAATGTGTGTGGTAAATATGAGCATAAACACGGAAAAGGCGCTTGAATATCGTCTTCACGACTTCCCGAAAATTTTGTGGGAAGGGGGTTCCAAGTTTCTGAGGAAAAATGGATTCATCGTCAAGCTGGACCTCAATCCAGTCCATCAGATACTCGACATATTTCGGTGCCGAAACCTCGATGGGTTTCTTGATCTGAATTCCATCAGCCCATCTGTACTCAAACTTAGGTCCAGCTGACATTGTTGGACATGTAGTAGGCGTGCAGAACTCCATCAGAGTGCCGTAAAGGATGTTCACCTGGTTGAAGAAATCAACAGTGTTAACAGCTAGCCATTCATTGAGATCCTCTCCAGGAGGCAGCCTGACCGCATCCCTCAAATTACCACTTCCTAAGGTTGCATCAATGTGCTTCTTCAGCTGCACACCCTTATTGCCAGATGGTGCATTCTTCTTTGGCCTGAATGTCTTCTGGTTCTTGCTTCCGAGGCCGAAAAGACTCATCTTTGTCCCTCTCCCTCTGTAGCGGAAGGTATGAGAGAGAGAGAAATAGGCAGGAGGGGGAGGAGAGGATCGTCGTGGAGAGATTTTATTCGGTCTGCCTGTCTGTCCTGCCCTTTTGCTCTGGCTGCTTTTTTTTTTTTGGCTATTGTTTCTCTTTGGCTCCAAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.95338
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0069400.1 10 13289886 A G
Osa10LNT0069400.1 10 13290956 A G
Osa10LNT0069400.1 10 13291614 A T
Osa10LNT0069400.1 10 13291734 A C
Osa10LNT0069400.1 10 13291852 A T
Osa10LNT0069400.1 10 13290948 A G
Osa10LNT0069400.1 10 13290718 G T
Osa10LNT0069400.1 10 13290471 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
Osa10LNT0069400.1 osa-miR1440b Cleavage 4.5 14.337 1 21
Osa10LNT0069400.1 osa-miR399a Cleavage 4.5 17.085 1 21
Osa10LNT0069400.1 osa-miR399b Cleavage 4.5 17.085 1 21
Osa10LNT0069400.1 osa-miR399c Cleavage 4.5 17.085 1 21
Osa10LNT0069400.1 osa-miR399j Cleavage 5.0 17.085 1 21
Osa10LNT0069400.1 osa-miR156k Cleavage 5.0 24.656 1 21
Osa10LNT0069400.1 osa-miR169i-5p.2 Cleavage 4.0 15.697 1 22
Osa10LNT0069400.1 osa-miR815a Translation 4.0 14.536 1 21
Osa10LNT0069400.1 osa-miR815b Translation 4.0 14.536 1 21
Osa10LNT0069400.1 osa-miR815c Translation 4.0 14.536 1 21
Osa10LNT0069400.1 osa-miR2873b Cleavage 4.0 21.454 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0069400.1 10 Phyllochron Morphological trait Culm/leaf R1629 R2447
Osa10LNT0069400.1 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0069400.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0069400.1 10 nan Resistance or Tolerance Other soil stress tolerance R1629 R2447
Osa10LNT0069400.1 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0069400.1 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
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