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

>Osa09LNT0433000.2

CATATATTTCCTCCATATATGAATTCATATTCCCTCACTATTTATGTTCATACTCAAATCCAGTACTATCCTCTGTTTTCCAGAAAAAAAAAAAAAGAGACAGGATAAGGGACGAACTATCCATCCATGGTTCCATGCCATGTGATCCACCTTCCGCAACGCCTGGTGTCCATCATCACAAATTCGCTGAAGCAAATCAAACACCCGAACTTGTTTGGCAAAAATCAAATATCAAGCAAACATTTGCACTTGCTAGTTGGATAATCCGAGCCACCGTTGATGCTTCAGATTGTATGCATATGGAGCCATGGAGGTTAAGGTTTTCAAGAATCTGAACCAATGCTCGACAAATGTGATTACAAACAGTGATCACTGGAGGAGATGAAAGCACTTGACAGAGTAAAGTCTTGAATTTAAAATCCTCATAATCAGTCTGAACTGAAGGCAGCACTACGAGCAATCACCTCTCCTCAAGCTTTGCAGCAGCTTTAGGTAGCCATGGTAATCTGGGTTTATATACCCATGACGGAAGAGGAAGTCAATAATCACAAGGTTGCAATTTGGCTTGAAAAAATGTGTCCTCCGGATAATATTTGCAGCATGTGGTACAGGGATTAATCTGAAGCTACCAACCTCTCCATCTTCATTATTAGGAACAAAATCTGGAGGAAGTTTAAGGTCATAACAGAAGAGAACATCCCTTTTGTATCTAAACCCTTCAATATCCATGTAAGAGATCGCTCCAACAGAGGTAGCATTGCTTGAAATGGATCTTGGGATTCCTGCTTCCTCTTCACATTCCTTGATAACATTCTCTTCACAGGAGATTCCATATGGCTGCAACAAGATGATCAAGCATTCCTGGAAAGGTCTGCTTCGTATCACTTCTCTTAGCAATCCAAAGAAATTTCTGGCCCTCCTTCTCAACATACCCATTCATATGAACTCCATAAGCCTTTATACCAAAGTAGGGGGCAGCAGCACGTTCCAGAGAGAAGTACACAGGCATGCCATAAGATGATGTTATTGGATAGAGCTGGAATCAGATCTCCTAGACTTCTTATGACACTTCCAACAGCATTTGTTCGTTCATCTGGAGTCCTTAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTTCCATTGCTGCCCGAGGCAATGGTAAAAACATCACGGAAGTCTCTTAGATGTTCAACAAAACCTTGGTGGATATACCCCACAACCTGATCCTCCACCATGAACGCCACGAACTCCCCCTTCTTGTCCATTCCTCGGTTGCAGGTGTCGACCTTCCGGGAGTACCCGGAGAGGTCGGACTCGTCGCCCCGCCGGTCGTCGGCGGCGACCCGGAGGGCGTCCTCCCAGCCGAAGCTCGCCGCGGCAGCCGGTGGCGCAGCGGCGGAGAAGGAGGCGGTGGACGAGAACGGGAGGCGGCGGCGGCGTGCTAGGAGTCGGAGGCGGGAGGGGAAGCTCCGGCGAGCGGCGGCGGCGGCGGCGGACAGGGAGGAGGCGGCCGTAGCGGCCATATCGCCGGCAGTTGGGGAAAAAAATGTCAATATTTTTTTTTGAACGGGAAAAAAATGTCAATAAC

Coding Potentia
Explanation CPC Score
noncoding -1.04744
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0433000.2 9 9382206 C G
Osa09LNT0433000.2 9 9380645 G C
Osa09LNT0433000.2 9 9380826 G A
Osa09LNT0433000.2 9 9381095 A G
Osa09LNT0433000.2 9 9382361 A C
Osa09LNT0433000.2 9 9382844 A C
Osa09LNT0433000.2 9 9383708 G A
Osa09LNT0433000.2 9 9383768 C T
Osa09LNT0433000.2 9 9383587 G C
Osa09LNT0433000.2 9 9382257 T C
Osa09LNT0433000.2 9 9383573 C T
Osa09LNT0433000.2 9 9379696 T C
Osa09LNT0433000.2 9 9380293 T C
Osa09LNT0433000.2 9 9380337 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0433000.2 osa-miR816 Cleavage 4.5 24.12 1 20
Osa09LNT0433000.2 osa-miR1852 Cleavage 4.5 9.137 1 21
Osa09LNT0433000.2 osa-miR2101-5p Translation 4.5 16.14 1 22
Osa09LNT0433000.2 osa-miR2102-5p Cleavage 4.0 21.444 1 20
Osa09LNT0433000.2 osa-miR444a-3p.1 Translation 5.0 21.942 1 21
Osa09LNT0433000.2 osa-miR444d.1 Translation 5.0 21.942 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0433000.2 9 nan Resistance or Tolerance Drought tolerance R1164 R79
Osa09LNT0433000.2 9 apd9 Others Others CDO590 G103
Osa09LNT0433000.2 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0433000.2 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0433000.2 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0433000.2 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