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

>Osa09LNT0444600.1

CATGAATCTTGCAGGAGCAATAAATCCAACCCTCCAAGCTCAATGCTCAAGCATCAGAGGTTACCAGAAGGTACATCGTCATTGTTACATTTGGTATAGTAGCAACTACATGTTTAGTCATAACAGGGGAAGTAACAATGTACATCTGCAATAGTATGGCCACATCCATGCAATAGTGGATGCTAAATCAAAAGGTTCTGTCAGGTTTTCCAAGGTCCCGTGGTCCGGTTCTGCTGTACAAAGACCAGAATGTGACGCTATGAACCCTTTGAAGGTACAACAGTTGAACGCCACCAAAAGCTAACAGAGAAACTAATAGAAAGAGATCTGACGTAATGCCACCATTTTGGTGGAATGTAAAGCAAGTCACCCTCCTCCAATATACAGTCCAAGAAATCAAGATTTTCTACCCGTGGGAACTCCTTCAGATCAACGTTGTCAAGATCTACCTGACTGGTGTTACTTAGCATAGTTTCTGTGTGTGGGTACAAGTCCTCAGATATGGAAGCAGGATATAGTCTAATATACTTCCTTCCCAATACCTGAGCTAAAATGTTGTGATGTGGATCATGGTGCAATGGTGTCACTGTCCCGTGTGGACCAAACCATGCATTAAGTGACTGAAGCTCCCCTCCACCAGCATAACAGTAGTCAGGAACCATTATATCTTCATGGAGCTCTTTTATCTGCAAATGGCACAAAAAAAAAACTGACAATTGGGCTTATACTTACTAGAGAATCCACAATGATAGCATGGTTACCTGTTCAAACAAGGGATGCTGAGCCAGATATGTCAAGTTTGAAGGACAGCCAGCTGACCACATCCTCTCAAGGAACTGAGAGAAAGTGATTAGCTCCTGCTTCCACTCACTGCACACATAATTTTTTCCAACTTCAACAGGAACAGTTCGATCTCCAGCAATCTTCTTCAGGTATTGGATGTCTTTCCACTTTGTCCTTGCAGGCCAATGATCGATGCTTCCACTGATTATAACAGGGGACTCGCGTAAAAAGTAATCACATATAAATTCCTCCAAAGAAATGCATGATCGCCTCTCAACCTTCTTACAAGATAAAGACTTTGCCGGAAGAATATTAAGTGCATCGGCGACGTCTCGATTCCTCTCGAGCCCTTCCCTCCACCTCCGGGTCTCCTCGTCGACGGCCTCCGCGTCGCCGCCGCCGCCGGGGTCGGCGACGATGCGCGCTATGGCGGCCTCGAGGTCGGCGCGGAGGAGGTTCCCCCCCATGATGAGGCCCATGTCGAGCGCCCTGAGCGCGGCGCGGCGGTCGGCGGCGGCCGCCCCCAGCCGCCGGAGCCGCGCGACGTGGAGGCAGGCGAGCGCGTAGGCGTCCCTCCACGCGGCGCCCACCTCGCTCCACGGCCCCGAGTGGAGCTGCTCCCACGCCATCTCCCGCGCCGCCTCCGCGGCGCGGAGGTCGCCGCACGCCGCCTTCTCCGCCGACGCCACGAACGCGAACCCGCCCTCCTCGGTTATCTCCCGCAGCAGCGCCGCCCTCCGCCCCTCCTCCGCCTCCGTCGCCGGCGCCGGCGGCTCGCCGCCGGCCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.912171
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0444600.1 9 18863457 A C
Osa09LNT0444600.1 9 18863859 A T
Osa09LNT0444600.1 9 18864998 A T
Osa09LNT0444600.1 9 18865070 C A
Osa09LNT0444600.1 9 18865608 T C
Osa09LNT0444600.1 9 18866528 T C
Osa09LNT0444600.1 9 18866908 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
Osa09LNT0444600.1 osa-miR5825 Cleavage 4.5 13.357 1 24
Osa09LNT0444600.1 osa-miR1846e Cleavage 5.0 21.242 1 20
Osa09LNT0444600.1 osa-miR2868 Cleavage 5.0 19.1 1 20
Osa09LNT0444600.1 osa-miR1863b.2 Translation 4.5 20.18 1 23
Osa09LNT0444600.1 osa-miR5080 Cleavage 5.0 14.4 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0444600.1 9 cisc(t) Resistance or Tolerance Cold tolerance nan nan
Osa09LNT0444600.1 9 qGL9 Morphological trait Seed RM257 RM242
Osa09LNT0444600.1 9 mrl9a Resistance or Tolerance Drought tolerance RM201 RM410
Osa09LNT0444600.1 9 qCCAI-9 Physiological trait Source activity RM257 RM201
Osa09LNT0444600.1 9 nan Resistance or Tolerance Other soil stress tolerance R2638 C1263
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