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

>Osa09LNT0444400.2

GATATATAAGGTAGTAAATATTTTACTGCACGAATACGGGTATAATGGACTTTGTTTTTACAATTGATCGTGCCATCATCGTTACAAACACATATACACCCGGTACCCAAAAAAAAAGCACAATCCAGAGGGCATCGCATCGCCTGCCACCGAAGCCTGTCATCAATTGTGGTGTGGTCGTCCTGGGCTGACCCTTTGTGTTGGCTGCCGGCGACGAACGTTGACGAAGGACATGTCGAGGATGCCATTCCAGTGGCACCATCACCACTGGCATAATCTTCTCATGTTCTTTTCTAGTTTCCACCATACCATCAAGATGTGCATCCACCTGCAAGAGTGCACACTGTAGATGCTGATGCCTGCAAAAATTAGAAGTTAATCATTTCAGTAAAATTTAGACCTTAGTCTTAGTCTGAAGATGTCTGTTCTGTCAAAAATATACAGAGAAAAAAGGGTATGTTCAACAGCGAACATATCTAGTCAGAAGTTCAGAAAAAAAGAATTCAATTGATGTGCTCCTTTGAACAACAAAAATTTAGAAAACTGCTATTCGATCGAGCTTTTTGAGTTTTCATCTATCCGAAAATTCAGAATCAGGACATGCAGTACTAATTTCAGAAAAATACGACGAATACTGTACACATGCTGTAAAAATATCACATATCTCAGAGTTTACACATCTCACAGGACATGCAGTACTAATTTCAGAAAACTACGACGAATACTGTACACATGCTGTAAAAATATGACATATCTCAGAGTTTACACATCTCACTGCATATTTTGCAGTCCTGAAAATCGTGACCAAAATTCAAAACTCATGAGCCCCATAATAACCATATAACACTAGCCTATCAGAGATATGCCTGAAAACTCAAGAACACTGTTAGTCTATAATTAGTGCTGAATTCCATGATCCAACAAAAAATAAAAATAAGAACTTCCCTACACTAGAATCATTCATGCTATTCTGTTCAGCAAGAGTTCCAGAGCTGTGCAATTGGAAGAAAGATTTAGGCCAACAAACACACAAACTAAGAACGAATCAGGTACTTTAAGCAAAAAATGATCTGAACATTCCCGCAATTGAAAGAAAAGAAGTGCAAGAACTGCTCAAGTGAAATGAGACCAGACCTTCATCCTAAAGTGTGCAGGAATTAATCATATTCCCCATACAATTCATGCCAGAATCAAAACTCTAAAACTAGGAAAAGCTGAAATTGTTTGTACTGCTAGAACTAGATTAGTGAACCAAATTTGTCACTTGAATTGCTAGTAAAGTACCTGAACTGCTCGTAAAGTAATTAAACAATGGCTCCAATATCTCTAATTAGTACCTGAAGAATCAAAGCACAAACAGCATCGCATAACATTGTTATTCAGCCAAATTAACCGAAAAAAAACCTCCAAGATTTCAGCAATTGGAAAGACAACAAGTCATTACAGCTTATTGAATAGATCCCACAACAGTCTGAGCACTCAAAAAAACTATGTCCAATTACTCAAAAAAACTATGTCCAATTAAAATAGTATGGAGAACAAACCGAATGGAGACCACGGCAAGACGACATCGCAGCACCCTAGACCACGGCAAGAGGGATGTCGGGGACGCGCGGGGCCGCTGGATACGGCGGATCTGGCGGCAAGGCTCCCAAAGGCTACACCCTTCTTCACCCCTGGCGTCCTCAAGTATTCCTCGTCGATGCAGGCTAACCTATGGAGTGCAGGGAGCAGGAGCTCGTGTCGCCCTGTAGCTTGTACATCTGGAACAGAAGAACAAGGGGCATCCACCAGCAAGGAGCTTCTCACATGATACCCATGCCATTGAAGCTTCCAGATCTCACCGAGGAGAACGATACAGCAATGGGGATCCAGCGGAGGGGTTGGCGTCGGGAGGTAGCGCGGGTGCGGTTGGTGGAGGCCTCGTCGGCAGCCTTGGCGGAGGCAGCGCGCTTCTTGCTTTTCTCGCTTGAGGGAGGGAGCCGACGACAACCGCGGAAACGAGAGCGAAACCGTCCTCGCCTCCTCGCCAGACATGGACATGCCCGTTCTTGCCGCCTAACCCATTAGATCCAGCACGCCGCCTCCTCCCTGTAGCACGCCATCGCCGTCGCCGCCGCCTCCGCTTCCTGATGCCACAGCTGCCGAGCCGGCTTCCTGCCTCTGTAGATCCAAAAAAAAAAGGGGGGGAAAT

Coding Potentia
Explanation CPC Score
noncoding -1.31885
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0444400.2 9 18781471 A T
Osa09LNT0444400.2 9 18781646 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0444400.2 osa-miR5797 Cleavage 4.5 10.567 1 21
Osa09LNT0444400.2 osa-miR5337b Cleavage 5.0 17.602 1 21
Osa09LNT0444400.2 osa-miR395f Translation 4.0 13.632 1 21
Osa09LNT0444400.2 osa-miR397a Translation 4.5 9.699 1 21
Osa09LNT0444400.2 osa-miR397b Translation 5.0 9.699 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0444400.2 9 cisc(t) Resistance or Tolerance Cold tolerance nan nan
Osa09LNT0444400.2 9 qGL9 Morphological trait Seed RM257 RM242
Osa09LNT0444400.2 9 mrl9a Resistance or Tolerance Drought tolerance RM201 RM410
Osa09LNT0444400.2 9 qCCAI-9 Physiological trait Source activity RM257 RM201
Osa09LNT0444400.2 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