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

>Osa05LNT0312400.2

CAGTAGTAGCAGGAAGTTTCACATCCTATCTAATTTCAAAATATGGTATAAAATAATATTTGCAGATTTAAACATTTTTTTTGTCCAGAATACATGAATCCCCAGCTGTCCAGAATACATGAATCCCCGGAATATAAATCTGATTGTTCTAATTGGTCCTCTGTGACCCTTATACATGTGACACATCCTTTTTTCTTTCATCCCAAATCCTAGCTAAGATCTGTATCTAAATAACAAGATGCACGGGCATATTACTACGTTGTTGACCAGGGGATCATCCTCCAAGCATATGACTTCAACAGTCCAAGATTTTCATTGTCAGCTGTCTCATTAAATGGGAGGCAGTGAGGTATGACAAACGATTGTACATGCTCATTTTCTGGATATTCCTCCTTTTGTTGCTTGTACACACAGGCCTTCATTTTCCTTGCCTCCTTTTTCTTTGGGCTCATTGATGCGTACCTCTCTCTAGCACGCTTCCTTCTTAATTCTCTCTCTAGCACGCTTCCTTCTTAATTCTCTCTCTAGCACGCTTCCTTCTTAATTCTAATGCGTTGAGATAAGCACCATCTTCTTGCATTTTGTGCACACTTGCAAATTATGTTAACTCTAATAGGTAGAAAATGGAAAATCATAACTTGCATCTTTTACATTTCGCATTTATACTTCGCATATTTTCCTTTTGCGGCACATTGGAGGATGTGCATCTGTCACTGCCATGGTCTATTCGTGAATCCCTTGATGTTGTTAACAATGTTGGTGTGGAGACCCCAATACTGTTACGATTTTTTGGTGAATCCCCGACACTTGCATTAGTAATATCAGCAAAAGCGCCCGAGGGAGGAAATATGATCTTGTTAACGATGTTGGTGTGGAGACCCCAATATTGTTATCCATGTCTTAATGTGTGTAAGCCAGCTGAACAATCCTCACAACATGCTTCACATAAAGAGTAATAAAAGGTTAGCTACATTTGAAGGGTTTTGCCACACTGAGTTCCAAATCAATTTTTGGCCATGTACACATAAAATTTGCTTTTCCATATAAGTATGAGGGCCAGATAATTGAATACCCTCAACAGAAGCAATAATAGACAAGAATATTGTATGGTACCCCTAGGCTAAATCACAACAATCACATATCCGTATGGAATTTAATGGCTTACAAAAAAACGAAGTATCATTGGAGCAGTAAAGAATAAAATAAGATAGCATTGGTATAAAACTTTCAGGTCACTCATCTCCTTACCTCAGCCTACTTGCATTTTGATATGAAAATAGAGTTGCCTCCTAAGGAACGTGGCATGTGACATTGTATTTTAGCTTTCAATGTGATGATTTTGCTGTAATAATGCAGTCATGTTTCTGCAGTTGACATATTCATCTTTCCAAACTTCAATTTTCAATGTCAACCAGACTCTTGTTTTTTATTTATTTCTATTTGTATATGTGTTCTCCTAGATGTCAGCCCTTACAGATTTTGCTTCAACTTTGTCATCCCCACGACTGCTATAATGCATCAGCAAAAGTAGATATATAATATTCTATTTGTTACATCGCAGTTGATTTAACAGTGCAACTCAATGAAATTCTGATTTGAGTGGCTAAGTAACTGAAATAATAATGCTGAGTTGATTAGTTCGCTATTTTCATTTTCCTAGAAACATTGAAGCTTGCTGCCTTTTTAGAACTAATCCGGAACAAGACTTTGCTCGAATAAACCTTTTGTGCCTTTTTAGTAATATGCCCATGCTGAACGCTACGAAGCAATTGCATTCTCTTTAATAACTTTGAAACTTCCATGTCAGCAAAAAAAAAAAAAGCAGTAGGACCTATCAGTAAGACCTATAGAAAAGCACTCGATCAAAGACTATCCCATAATGCTCAAAAGCCCATACTCTTATTATGCTAAATATTTCAGTATAATTTATCGTGTCAAATTTTCTCGTTACATTTTTTTTGCACATTTTTTTGAAAAGATAAAGAATCACTTGCTGAGGATTATATATCTTCCATGGCACAGTATCTACCTCCTGAGGCAGGAACGAAAAGAACAAATTAACTCCACTTAGGCCATACAACAAATCTTTAACAGTGCTAAAAAATTTAGACTTCAAAGGTCACCCATTACCGATTCAAAACCTGTTCGCCCGTGGATCGATAGCGGCGCGGTGGAGAGGGAAGGGAGGGCTCCGGCGTCCAGGGACGGCG

Coding Potentia
Explanation CPC Score
noncoding -1.246
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0312400.2 5 22035185 T A
Osa05LNT0312400.2 5 22036836 G A
Osa05LNT0312400.2 5 22038044 T C
Osa05LNT0312400.2 5 22037626 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
Osa05LNT0312400.2 osa-miR5804 Translation 3.0 11.371 1 21
Osa05LNT0312400.2 osa-miR166k-5p Translation 3.5 8.206 1 21
Osa05LNT0312400.2 osa-miR395v Cleavage 4.5 11.889 1 21
Osa05LNT0312400.2 osa-miR2118a Cleavage 4.5 20.418 1 22
Osa05LNT0312400.2 osa-miR2871a-3p Translation 4.5 14.797 1 21
Osa05LNT0312400.2 osa-miR2871b Translation 4.5 14.797 1 21
Osa05LNT0312400.2 osa-miR2931 Translation 4.0 15.004 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0312400.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0312400.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0312400.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0312400.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0312400.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0312400.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0312400.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
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