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

>Osa02LNT0184400.2

CCTCCAGTTTTGTTATCGTAAATGTATTCCATTGAAGTTCATAGGTGTTAAATGTCGTGCTACAATATCTGTAGCTCTGAAATGATAATTGTCACTATTAACATGCTAAGTTACATAAGATGCGAAGCTACTCTTCACTAAAGATAGCACTTGCCTATTAAATACGTTGACAATACTAGATGATTTTCTTCTTGCTCAATGTGTTCTTATCTCCCATATGCTTATCGCAATTTGTTGAAGCCCTCAATTGCCGCAGCGTTGAGCTTTCCTGTCACATGCAAGGCACAAGAGTTCCCCATTGACTGCTTTAACATGGATCCTGCTTCTGGAGCAGATCTTGCAATTGCCCTGCCTTGATCTAACTGGAGACACTGACGCCCATGAATTCAAATCCAATTGCAAAATATATGATCGATTGGGACAGAAGAAAGATGTAAAAAATATCATCTCTGTACAAGTAGTCATAGCATGCAGACGTAAGAAGAAATCCACCAATGAATAGCTCAAGGCAGTGGAACCTGTCTTTGAAACGGCAATTCTTGGTAACTCTGACAATGGATTTGAGCTTCTGGATGTTTCCCAACTTTTGCGTGACAATCCATTCGTTTGCCCTTCCAGCCTCAAAAAATCCGATCAGGGTGGCTTTCAACCGGTGCAATGCCATAACATTCTCAAATAAGAACCACAGTATGATCAGATGGATTGACCTTGGAGTCCCAACTGAATGGAGTAGAATGATAGCTGTAGGTATGAGGATCAGCTCCCACAAAGGAATCTGCACCTCTGGAAAGAAAACTTTCATAGGAAGCAGTACGCTGAAAAAGAAAAAGGTGAAGAACGTCGATATGATCCTCCGTGCGATGAAGAAGTCATATGTCATGTATAACTTTTTCCAGAACGAGACTTTCTTGGCAGCCAGAATTTCCCAGAACATTTTCTTGAACAAGAGTGCAGGTCCACATGACCAGCGATGTTGTTGGGACCGATAGGCTTTCAAAGTACTCGGCAGCTCACTCTTAACCTTAATGCTACCAACATAGACAAATTCCCAGCCCAGCAGTCCTGCTCTCAGTGCCAGATCCATATCTTCTGCCGTAGTTCGGTCCTCCCAACCACCGGATTCATCAATCACTTGCCTTCTCCACACTCCAGCAGTTCCATTGTAGCCAAAGAAGTTGCAGAGCGAGGAGCCGGCCTCTTGCTCAACCTTGAAATGGTAGTCCATTGACATCTCTTGCATTCTCGTCAGCAAGCAGTCGTTAGCATTCACTGCAAGGCAGCGAACTCCCATCGCGTCTGCACGAGCGCGAGGCGTGGGTTGTGGACGAGGAACGGCACCGTCTTGAGGAGGAAGTCCGGCGGCGGCTGGAAGTCGGCGTCGAGCATGGCCACGAACTCGCACCCCTGCACGTAGCCACGCCGCATCCCTTCCCTGAGGTTGCCGGCCTTGTACCCGGCCCTGTCCTTGCGCGTCTCGTACTTGACGTTGATCCCCTTCTTCCCCCACCTCTCGCACTCCTTCCTCACCAGCTCCTTGACGATGGCGTCGGTGGAGTCGTCCAGGACCTGTACTATTAACCGATCTGCCGGCCATGTGAGCCTGCATGCCGCCCCAATTGATAGTTGGTATACCTCCTTCTCGTTGTACATGGGGATCTGGACAAGAACCATGGGGAAGGACGCCCGGCCAGCCTCATCGTCGTCCTCCACGACGACGGGATCGCACCTGTA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.925568
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0184400.2 2 31228698 T G
Osa02LNT0184400.2 2 31229532 C T
Osa02LNT0184400.2 2 31230031 G A
Osa02LNT0184400.2 2 31230666 T C
Osa02LNT0184400.2 2 31230671 A G
Osa02LNT0184400.2 2 31230724 T C
Osa02LNT0184400.2 2 31231350 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
Osa02LNT0184400.2 osa-miR6254 Cleavage 4.5 17.847 1 21
Osa02LNT0184400.2 osa-miR440 Translation 5.0 14.925 1 24
Osa02LNT0184400.2 osa-miR5499 Translation 4.5 16.665 1 21
Osa02LNT0184400.2 osa-miR5501 Translation 5.0 16.454 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0184400.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184400.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184400.2 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0184400.2 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0184400.2 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0184400.2 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0184400.2 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0184400.2 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184400.2 2 nan Morphological trait Seed C747 C1445
Osa02LNT0184400.2 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184400.2 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0184400.2 2 qCHR-2 Others Others RM263 RG520
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