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

>Osa05LNT0315600.1

CTCGTTGACAATAAATTTAGCACATCAAAACTATAAATATGAAATATGCTTAACACTTTTTGGATAAAGCGAATATCATTTACTAATCATTACAGAAATGTTCCGGCATCTTAAACACTCCCATCGTGTAGATGGGTAGGGCTTGAGCTACAGGTCATTCGATTTCAAACGTAATTCGTAAGATTGAAAAAAACATCGACTGACAAATAATGATAAATTAATCACACTTGAAAAAAAAATGGGGTTTTTTTAACTCATCAGTAGCTAGTATATATATATGTGAGCGATGAAATCATATGTATAATATAACTCCACCATTACAATGGTTTTTAGAGGGCATATCGAAATTACATCCAGCTGACGACGACGGCGCTCAGCTTCTTCATAGGACGTACGTTTCAGTTTCCACTCCTCTTTTGTTCTTCTTTTCGCGGGGACATGCAATAAGCACGAGCCCAAATTAAGTTGATTATTTCGCCAGATTAAGCAAAAGATCACAAAAAATGTCAAGAACAAGAGAAGAATGTCATCGGGTTCAGTACATATATGCATCGATCGATGAATTAGGCCGGGAGGTAGGACGGCGGCAGCGGCAGGCCGACGACCTTGCCGCAGCGGAGGGCGTTCTCCGGCATGTTGTACTCGTCCCGGAGCGACCTCGCCGGCGAGACGACGCTGATGTAGAGCTGCTCGCCGAGGTAGTGCCTCTCCCAGATGTTGGACCTCACGTTCCACATCCCGGCGTTGTCGAACGTCAGCATGATCGCCGTCCACGACCTCGGGTACACCTGGACCGAGTGCCGGCTCACCCCGTCCAGCAGGTTGTACGTCTTCCTCTCCTCCGCCGACCACTTCCCCGGCCCCATCCCGACGGCGAAGAAGGCGTAGCCGTCGAGGTGGACGGAGTCCATGCTCTTCTCGGGGTTCTCGAAGATGATCTCGATGAAGGTGCGGAACTCGGCGGTGATGACGTTGGGGACGACGTGGAGGGGGCCATTGACGGCGGGCGGCACGTCGGTCATCTGGTTGTACCTGAAGACGCCGTCGGTGACGTTGAAGTACTCGGCGAGCTTGAGCGGCGTCTCGGCGTCGACGTGGGAGACGCCATTGAAGCCGTACTTGAGCTTGCCGTCGATGTGGCCCCGGGAGACCATGAGCCTGATGGTGCGCGTGATGTTGATCTGGCCGTAGTGGTAGGACCCCTGCGGGTTGGGGCGGGCGGCGCTCGCCGTCAGGTTCCACCGGAACGACCTCCACTGGTTGATCGACCACGCCCATCCCGCCGGCGGCTCCGGCACGGCCGGCGACGGCGGCGTGCTCGAGCCGGCGTAGCGGATGACGGCTGACACCGACTTGGCCTCGTGGATGAACCGCGTGGACGCCACCGCGTAGTAGTCGCCGGGCTTGTGGTCCTTGGTGTACCAGTCGCCGATGAGCACCATGTGGTCGTCGGCCGGCGGGTCGAACGGGACCGGGATGAGCAGGCGGCTGACGACGCTGATCCCGCCGTAGCCGCCGGCGGCGCGGTGCATCCCCAGCGACGGGAAGTAGAAGAAGCTGCCGATCTGGTCCTTGGGCTGCCACTTGTACGTGTAGTTGGTGCCCGGCGCGATGGGGCACTGCGTCCCGGCGAGGCCGTCCTGCCACGAGTTCTTGCGGTGCTGCATCCCGTTCCAGGTGAAGAGCAGCGGCTCGTCCAGCTGGTTGAACACGTTCACCACGATGTTGTTGTTGGACGAGCAGTTGATCCGCGGGCCCGGGAACTCGCCGTTGATCAGGATCACCTTCTGCGGCGCGTCCAGGAGGGTCTTGGTGCCGTACGTCACCTTCCACTCGAAGAACACGTACGGGTCCTCGCCGCGCGCCACGCCGGCCAGCGCCGCCGCCACCAGCAGCACGCCGGCGGCGGCGGCCGCCACTCGCGTCGTCGTCGTCAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.733136
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0315600.1 5 23883094 A G
Osa05LNT0315600.1 5 23883419 G A
Osa05LNT0315600.1 5 23884022 T C
Osa05LNT0315600.1 5 23884034 A G
Osa05LNT0315600.1 5 23884278 A G
Osa05LNT0315600.1 5 23884370 G A
Osa05LNT0315600.1 5 23884476 G C
Osa05LNT0315600.1 5 23884563 G A
Osa05LNT0315600.1 5 23884081 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
Osa05LNT0315600.1 osa-miR6252 Cleavage 4.0 8.526 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0315600.1 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0315600.1 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0315600.1 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0315600.1 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0315600.1 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0315600.1 5 APAGE1 Physiological trait Eating quality nan nan
Osa05LNT0315600.1 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0315600.1 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0315600.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0315600.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0315600.1 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0315600.1 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