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

>Osa09LNT0442200.1

ACTAAACATATGTGTGGCTCTCAATCCAAGATGCATAGTACCTATATCTGGTTAGCAATATCACACTGAAACAAGTTGTTGGTGCCTAGGTTTCCGTGCATTTTGTATCTTGCTTTGTCTTGCACAACTGCTCCAAATTCCCCCATCTGTTTACTTTAATGGAGCTCAGCTGGAGTAGCTAAAAGGTTGCGGTTCCCTAAAAAAGGGCCATTGTTTGACCTGCCAATGGATCGTCATCTCAAGTGATCTCGTCGTCAATGGCAGGTGGAGGATGATTGCCAGCTTACGTCTTCTTGCGAGGATTCTGTTTCCCTTGTGAAGCACCAATTACTGCCAAAATACCAAAGATTCCCCATCTTGTGGCCACACAGCTTGCCCGTTACTTTCCTGAACGTTCATTCTGCTCCTCCATCCTATGTGATGCTTGCACCCTGATTGATTCGACCGACAGGACAAAACACATGTGCCACTTGCTCTCATGCTGCATGTCGTTTTCGCTCTTCAAATGTTCTGCTCCATCGAAGCATCATCTGGTAAAATAAAGAAGTGGAGCCACCTGAGAGAAAAGAAAAGGATAAACAGCAACGTCAGTGTGGAGTTAACTTCATGCACCAACCAATCACCCCAAAGTTCACCAACCAACCGTTCGCCCAAAAGGTCAAGTTGCTAGGGAAAGATGTGCAACTCTACTAGTATCACACAAGTAAAATGAAGAAAAAAAGATGGGCAACTCGATGTGTGCGTATAAATGTATCTGTGCACGCATGTGAGTGGCCATGAAAATGACAGATCCGTAAAACAAGGAAGCAAACCAAAGAACACAAGATATACTGGTAGGATCATCGAGTTGGACCATGACAGATAAACTTATGCACCTTATGCCTAGACGTATGCATAATGCATATTTGCATAGATGGAAGGATCGCATCTCATACATTGATTCAATAGAATGCAACTACTTTTTGCAGTATAGGGACACCAAAAAGGATAAAAAAAACATGGCTCAAAATCTGCAAAACAGGCTGTAGACCGAAACAAGATAGTTGTTACTTAAGTAGAATAACCATAGCTTATTATAATAGTCTCTGTGACAACCAATCTCCACAGCAGACATAGCATAGATCACAAATCTTTATAAAGACCTACTCCTGAGGGTCTATAGGTTAGAGGCGACTTATCTTCCTATTCCAGGACTCCATAAGAATAATGACAGAAAAACCTTTATGCTCCAAGTTGAACACTTGAACCTTGATCTGGTGAATCCTTCCTAAATCTGCAGGAGAAGCCACAGCATTACTTTTTAGTTCATGTATATCGGGGAGGTGGTGGTCGTCGACGGCCACGTCGACGCGCGGGACCACCGGCGACGGCGGCGGGGGCTCGGCGATCTCGTAGCAGCTGCCGCCTGGGCAGACCGGGTGGCAGTCGAGCGGGTAGGCCGAGCAGTCGACGGTGGCCGTCCCGTTGACGCGGCTCGGCCGCTCCGGGTACAACATGGCGGCGCGGAACACCTAGCGACGATCCGGCGGTGGCAGCTCGGCGGCGGCGACGGCGGCGCGCATCGGTGTGAGTACCCCGCGGCGGCGGCGGCGGCGGTGGTGGTGGAATTGGGGTGGAGACGTGGAGTGGATTGGTCGTTGTTGTTGGGTTTGGTAAAGGTTTGGGGGGGAATGC

Coding Potentia
Explanation CPC Score
noncoding -1.26166
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0442200.1 9 17828510 C T
Osa09LNT0442200.1 9 17829774 G A
Osa09LNT0442200.1 9 17830781 C T
Osa09LNT0442200.1 9 17831996 A C
Osa09LNT0442200.1 9 17832245 A G
Osa09LNT0442200.1 9 17832803 T G
Osa09LNT0442200.1 9 17833000 T 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
Osa09LNT0442200.1 osa-miR5079b Cleavage 4.0 12.64 1 22
Osa09LNT0442200.1 osa-miR167h-3p Cleavage 4.5 14.607 1 21
Osa09LNT0442200.1 osa-miR444d.3 Translation 4.5 15.949 1 21
Osa09LNT0442200.1 osa-miR1868 Translation 5.0 23.9 1 24
Osa09LNT0442200.1 osa-miR2095-3p Cleavage 3.5 14.975 1 20
Osa09LNT0442200.1 osa-miR2864.1 Translation 5.0 11.709 1 21
Osa09LNT0442200.1 osa-miR2864.1 Translation 4.5 11.808 1 21
Osa09LNT0442200.1 osa-miR5079a Cleavage 4.0 12.64 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0442200.1 9 qSB-9 Resistance or Tolerance Sheath blight resistance C472 R2638
Osa09LNT0442200.1 9 nan Morphological trait Panicle/flower RM257 RM566
Osa09LNT0442200.1 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
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