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

>Osa09LNT0433200.2

GTGAAACAGTCCACAAACTAGTCACATGATGTTATTAGCCATCTACAAAATATCAATATGAATACCCTGCAATTCATCAAATTCTACAATGAAAACCACCTACCATTGGAGTACAGGTAAATTGGCCCTAAAATGCATCCTGTCCAGAAGCGAAAATGCCTAGTTTATCCTTGAGCAGTTAATCTAAGGGAGTTTCCATGCCGTCCTGTTTTTCTTCTCTGACGCCATCTTTCCTTAATATCATTGCACTCTTCTGTTAGATGATCTCTACTAGTATCACACTTTCCCTCAACATATTGCTTGTCAATAGCATTATTTGCCAAACCTCGCAGCCGAGCAGTTTCCGCTATCAGATCATTGACCAGCATCTCAGTTGTCCTCGTGGTAATCCCTCTCAGATACCATGAAAACGGAGGCGGGGGTACCATAGCAGGTTCAATAAGCTGATCCAAGGTAATTGAAGATCCAACTCTTCCTGTGCCATTGGTGCAGGAATCATACTTTTCTAATGTGCATGGGTCTAAAGGATGGCATGCTTCCTTGTCAACAAATAGAGGCTCTATTTTCCAGCAACCTTCAAATTTCTTCATAAAACCTGTTCTTCCTTGCTTGAACTTTACAGTGTGATTTGTTCTGTTCTGGTCGACAAAAACATGAACTGACAAGACACCAGACCACCAGAGAAATCTCCATATTGCTGCCTGCTCCACTTCAACTATTTGCCTTTGTCCTTCATCAAGCACGACTTTCCGTGATATTACTTCCTTGATGTTTTTGAAAACTCTTTTGTTCTCTGGATCAATTATAATGTTGTAAACTGCGTCTGGAGGTAATCCTGCCTTAAATTTCAGATTCAGGTTGCAAAGAGAGCCTTGTGGCACAGTCACCTTGATTTCTGGAGGTTCATCAGACCAAATAGGATTGTTCTTCCAAGCTTGGAGCTGCTTGTCCAACCTAACCTCAGGAGCAACAGTAGTACAAGTTCCCTGCATTTGCATCGGCAGCATTTCGGCCTCTGAACCACCACCAAAGCCATTCTTCTTCAAGAAACGCCCAAAATGCACCTGTAGCAAGATCCAACCAAACGAACTCAAACCTTCCCAGCTAATTCGAACTCCTCTAAAAAAAAAAAATCCTCACTTCTGAAGAAAAAAAAACAACCTTGAGAGAGTTCTGAATCTTATCCGGTATCTGCACGAGGCTACCGAATCCCCGCGCAGGCACGGGTTCACGATTACTGCTTCCCATCAAGAAACCGAATCTGGTAGATGATTCCCTCGGTCACAGAGAGAAATGGAAGAATCAGAGCTCGGCTCAGGTGGCGACTGGCTCTGAAATGGAAGGGCCTAAGGAAAAAGAGAGGCTTTTCTTGCTCGGACCAATCATGGAGTTGAACGGAGGAACACGAAACCAC

Coding Potentia
Explanation CPC Score
noncoding -1.13185
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0433200.2 9 9664752 G A
Osa09LNT0433200.2 9 9664792 C T
Osa09LNT0433200.2 9 9665014 C T
Osa09LNT0433200.2 9 9665147 T C
Osa09LNT0433200.2 9 9665238 C T
Osa09LNT0433200.2 9 9663716 A G
Osa09LNT0433200.2 9 9664498 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
Osa09LNT0433200.2 osa-miR1861o Translation 4.5 14.414 1 22
Osa09LNT0433200.2 osa-miR167d-3p Cleavage 4.5 14.358 1 22
Osa09LNT0433200.2 osa-miR417 Translation 3.5 17.719 1 21
Osa09LNT0433200.2 osa-miR390-3p Translation 4.5 21.483 1 20
Osa09LNT0433200.2 osa-miR1425-3p Translation 4.5 24.021 1 21
Osa09LNT0433200.2 osa-miR1861a Translation 4.5 14.414 1 22
Osa09LNT0433200.2 osa-miR1870-3p Cleavage 4.5 13.998 1 24
Osa09LNT0433200.2 osa-miR5509 Cleavage 5.0 12.873 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0433200.2 9 apd9 Others Others CDO590 G103
Osa09LNT0433200.2 9 nan Morphological trait Root C711 G103
Osa09LNT0433200.2 9 nan Resistance or Tolerance Drought tolerance R1164 R79
Osa09LNT0433200.2 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0433200.2 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0433200.2 9 qAC9 Physiological trait Eating quality RM4413 RM5122
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