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

>Osa08LNT0403300.2

TGAAGCATAGGTATTTCCTCACATGCATGAATTGAATAATTTCCTGCAGGAACAAGAAAATAGTCTCATCCCGCACACCAAATTGGACCTAAATTATTTTCTTAGACTGGCCTAAATTCCTTGATAACATTACAAATGCCACAAGGAACTACAATGGAGAAAAAAGGGGGAAAGGCAAATTCCTACTGCAGCCTCTGCTGTTTGTATACATATACATAGTTGTTTCGAATTTCACATAACAAAAAGATGAAAACACAGAAGGTTCGATATGTGAGCATCCTGGGACAAAATCGCTCATTATCGGTGAATACCGCATCAACCTGAATATTCCTGGATGATATGTGTAATCAGCACATTTTTTTTATGTGGAGAGTATATATACTACAGAATGTTATGTATGCCTTTTGTAGGGTAAGCACTGGTTAGGGCGACCTCCGAAATTGCAATCCATGGCAACTATGTTGGCATTTCATCAATCAGACACTAGCCCCGAGTGAGCCCTGGAAGGATGGTCTTTCCTTCAAATTCTTAATGGAATGAATTAAGCAGATCAAATTCCTGATGGAAAGTCTCTAATGACGCTTTATTTCATCCAAAATGTTACCCACACTAGGTGATAATCTTGGAAGGTATTTGTATACCCAAAATTTTATAAATACATCCAAGGCAACAGGAACCAGACAAACAAAGAAGGTGATTGCAGCTTGATCGGCTTCAAGGCCGTAGTGCTCGAGAATGACTTCTACCAAAGAATGCCAACCTGACTCTGAATGGTACCCTAGAAGGATGTCTGAAACTAGAATTATAAGGAATGCTTTCCCACTGTCTGAAATATTATTTAGTAACTTATATCCTGTGAATTTCAGCATCGCAACCTGAAAGTTTACTCTGGTTGAAGTACATAAGAAGGAATAGGGAAATTCCATAAACCATGTCAGACCAGATATTTGCAAACGCTTTTCGGTTTTCTAATCTCCATTCATCTCTCAACTCTATCCTGATCAAGTAGCAGAGCAGATCTGTTAAGATTGAACATATGAAATTGCAGGATAGAAGGTCCATTGCTCATGTCAGACAATGCTAGTGCATCAACAGAAGTTACAACAAGGCAAGAAAGTATAATAGTTAGAGTGTTTCTCACGCTTTTTCCCGTAACTCTGACCAGAGCTCATCATCAGAAAGTGGAGGAGATTTACCAATCTCTACTTCAAAACGATATCTTGCTTTCTCAGTATTTATGTCCTTTACCATCAGGAGTTTCTGGCTGCGCCTTACATCAAGCAGCTCAGCAGCAAGTGGTACCTTCTGGACGTACCTTTCCAAAAATGGCATCAGAACATAGTCATGAACCAGAAAATCCAACACCCATGGAATCACAATCAATAATGCTAGAAATTTGGCCGAATTCGTTGAAGCATACAGAAAAACCCGGTCTTCAAACAGCATGTCATTGTAATCTTCATCTACAGAGTCTCTGAAAGTTTCAATCAAACCTTTATCCCTCACTATCTCTGTAGGATCATCCGTTATCAGGTCTGACACATCCAAATCCCCACCCCAGTCACCGCCGCCATCCCCCGCTGTGCTACTGCCCCCGCCAATCCAATCCTCCCACGAGCGCCCTTCCGCGTTCATGGCATCCTGCCGCGCCTCCCGCAGCTCGACAATAGCCTCGGCCTTCCTCTTCCACGTCTCAAACTTCTCGTCGTCCGACAGCCCTTCCTCGCCGCCAACCTCCTCGAGCAGCTCCTCATCCTCCCTCCAGCCAGACAAGCTCTCCTCCTCGTCGTTCCAGTCCGAGAACCACGCCTTCCACCATGGCCGCCGCGACGGCTGCTTCTTGGGCCGCCTCCTCTTCTTGGCAAAAGCCACCAGCTGCTTCACCCTACCCCTTTGGGAACCAGTGTCGAACATCTTGCATGCGCAGACCCTCCGGCGCCGGATCCTCCAGTCCACGAAGAGCCGGAGCGCAATGCCGCCTTCAGAGCTTACCGCGGAACGGCTCATCAATCAAAGATCACGAAACGGAGACCGCATCATCACTCAGAACAAACCGGGGAATGCGCATCGGGACACCGTCGAATCTCCCGGGAAATCAGCCGCAATCAGCATCCTTCCTCCCCACCCGCCACCGCAGCAGCAGCAGCAAGCAACAAAAGCCTGACGGATTAACTATGAATCGAGAAGAAGAAGAAGAAGAAGAGGACGGCGCGAATGGGGATCGATACGATGGGGAGCCCCTTGGCTGAGCTGCTTGCTGCTGGTCGTTGGGCGGTGGCGGTGGCGGAAGCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.60644
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0403300.2 8 7568866 C T
Osa08LNT0403300.2 8 7568998 A T
Osa08LNT0403300.2 8 7569115 A G
Osa08LNT0403300.2 8 7569165 T G
Osa08LNT0403300.2 8 7569458 G A
Osa08LNT0403300.2 8 7569854 A G
Osa08LNT0403300.2 8 7570187 G T
Osa08LNT0403300.2 8 7570270 A G
Osa08LNT0403300.2 8 7570423 G A
Osa08LNT0403300.2 8 7570805 C T
Osa08LNT0403300.2 8 7570896 T A
Osa08LNT0403300.2 8 7571706 C T
Osa08LNT0403300.2 8 7571801 C T
Osa08LNT0403300.2 8 7571916 T C
Osa08LNT0403300.2 8 7572149 C T
Osa08LNT0403300.2 8 7572787 A T
Osa08LNT0403300.2 8 7572993 T A
Osa08LNT0403300.2 8 7573296 C T
Osa08LNT0403300.2 8 7571407 C T
Osa08LNT0403300.2 8 7573725 G A
Osa08LNT0403300.2 8 7570728 T G
Osa08LNT0403300.2 8 7571151 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
Osa08LNT0403300.2 osa-miR5790 Cleavage 4.5 20.849 1 24
Osa08LNT0403300.2 osa-miR5833 Cleavage 5.0 21.36 1 21
Osa08LNT0403300.2 osa-miR166j-5p Translation 4.5 13.885 1 21
Osa08LNT0403300.2 osa-miR169r-3p Cleavage 4.5 17.347 1 21
Osa08LNT0403300.2 osa-miR169r-3p Translation 5.0 19.346 1 21
Osa08LNT0403300.2 osa-miR1846d-3p Cleavage 4.0 18.56 1 20
Osa08LNT0403300.2 osa-miR5524 Cleavage 4.5 15.3 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0403300.2 8 nan Resistance or Tolerance Drought tolerance RM72 RM331
Osa08LNT0403300.2 8 qDSR 8 Resistance or Tolerance Other soil stress tolerance RM3572 RM404
Osa08LNT0403300.2 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0403300.2 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0403300.2 8 nfb8 Morphological trait Panicle/flower RG108 RZ562
Osa08LNT0403300.2 8 nfb8 Morphological trait Seed RG108 RZ562
Osa08LNT0403300.2 8 dth8 Physiological trait Flowering RG333 RZ66
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