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

>Osa05LNT0314100.2

CGAGTACTTTCCATGTACAGTAATCGATTTGCGGGCTTTCGTGGGCCCAGGCGACCAGATCGGCCGGCGGCGAGGGGGACCGCATCGCCGTGCTTCTCCGTCGCCGCCGCACCACTTCGCCGAAGCTGGAGGCGTTGGCCCCCGCGCGGTGGCGCCGGGGGAGGGCGACGGCGGCGGAACGCCGGCGAGAAGCGCGCCGCTGAGCCGTCGATCGAGGCGCCCCCGCGCAGCAGTAAGTACTACGCCCTGTGCGTTGCGGGAGGCGGGAGAACATGGCTGCGGCCGTGGAAGGCACCGGGCGTCGACGTCTGCTGCGCCAACCCCGGCGGCCGCATCCTTCTCCGGCGGGCCGGCGCACCGCGCGCCGCAGGCAGCCGGTTGGTGGGGAAAAGGTATACCGTATACCTGCTGCATGAAATCTCCTTTCCTCTAAGAGCCGAAAAATTCACTAAATTACACTACAGTTCTGAAATCTGTAGCAGCATTTGTACGGTAATGACATCGATGGCACTGACAAACAACATTTCAGATTTTCATCAGCTTATATCAGATTGCATAGTCTCTGAGGCGCACCAATGCTGACATTACAATCTACAAATCACTTTCTGATTTTTGATTTGCACGTTTGGCTGTCGTATGGTGACGGCATCAGGAGAAAGAGCACAATACCTACACTACACTTCACTTATACAACACTAAGTCACTAATCCTAGTACTTATACTGTGAAGTTCGTTTGACCGTCCCAACAAATATTGGAAAGACATCCACTCTTAAATATATATTTTTGTCCAGCAGAACATTCTTCCTAGAATAAATTATCTGAGACTAGCCACTTGGCAGTGGGGGATCCTGAATTGGGTGTCATGAACAAGCCTTGCATGATTTACCATTTGGTCACAGGGACCCCTTTTATGTTCTGATCATGCACATTATTATATTTGAATTTTAGGTGAATATTCCATGCATCTTTTACGTATGGTCTCTCCACTTCCGTTGAATACCGCAACACTTTCTGACCTTATTCTCAAATAAAACTTCATTCAGCCCTGTTTAAGCTTTAATTGGACCAATTGAAATGAAGAATTTCCAATTTCCGACAGAGATCTGTCGAGTGCACAAAGATTGTGTATCCTTATCGTGTCCACAATCAAGAACTAATAATTGTAATTGGTGAAGGGTTAGTAGGCCAGCTCCTAATTTTCTTATCAGAGTCAACATTAGCATCCACAGGCACTTTTGTTCATGCCATGTGTTCTTCCCTCACAATCTCCTTATGATTGATTTGTCCACGGGAGAATTGCCATCACTTCGGTTCTTGCTTCATTTCTTCTCTGGGTAATGGAATAAGGTGTGAGTGAAACACCTCACATGATGCCTTTCTTCTCCCTCCACTTGAGAAAGCAAATTGTTCCTGTAATTTGAAATCGGCCGGCTTGCTGAGTTGCTGACTGTGCTGGTAATTACCGGCAACATGCTTTGCTCCTAGCATTATTGATTATCTTGTTTTATTTTTTTTTTCCACATCACATAAATGAAACAGTGTTGGGAGTTAAATTTACTAGCACAGGAGCCAACTAATCTTGTACCAGGCACATTCATCAGAATTATATATATGCAGGCTTAGGCTACACAAAAGCTTGTACTAAACAGTACTACTAGTTAGACTTGTCATCATAGTGAAGTTAACAAAGTTATCACTTATCAGTGCATCGTACTTGGCATTAGCGGCCGACAGAGAATCCGCCAGCCACACTCCCCACCTCTAGGGGAGGGGAGTGACAGTCAAGTATCCCTTCATTCTCCCTCTACAATGCAGCTCATGCATAGCCTTTTGATGGAAAAGCAGAAATTCCAGAGAGGCAGCAAGAGCATACCATTTTGATTAGCTCACCACTGGCTCTCCTGGTTGCCCTAAAGTAAGAAGTAGTGTAGTACACTTTTGTAGTTTTGTTGCTAATCTATTCGGCTAATTCCTACTATATTGATTTTGGAATCTTGTGTTCTTTGGATTTACTTACCTTTGTATTCCTGCAAGGGTCAAGTGCTCAGGGGCGGATCTACAGTATAAGCGTCAGTGTCAAGCGACACCGATGACTTTCGGCAAAACCTATAACAAAACTGCTTATCCATATACTATAACACTATGTTCTAAGTATAATTAGCATACTATGACACCGACAGACACGTTATGACACCAACAAACTGATTTTCTGGATCCGCCACTGCAAGTGCTGACAGAGTTATTGCAGACTCGCAGTCCGTCTTCAGTTGCAAACAGTTTGGAGGGTAGTTCTTGGTCGTCCATTACTTCACTGAAGATTCCGAAATCCAACAAAATTCAGGCCGTTCTTCAGAAAGAAGCAAGCACTGCAGAGCTGAACTCTGCTTCATTGGATGGTCAAAAAGGAAGGCTGCTGAAGATTGGCTGCATTTGGGCTCTTAGGAATCGATATGTGCCTGCAGAAAGATCGGTCAAGATTATTCCTCACGGTTAATGCTGCACTGGCTGTTCATTTGGTTAAATTTTGCTTGATAGCAGTAGGATGTTTAGAGCTGCCAGCTTCAGGCTTCCGTAGTGCCGTGTTCAAGAAATCAGTGTGTTGATTCTATGACTGAAATAGTTTGCAAGACATGGATAGTATATAGAGAAAATGTCGCTGCTTTTGCCAATCGCATCATCAAGGCAGCAAAGCTATTCCACTATCTTGATTCTATGACAGTTGAAAGAGATATAAGCATCTACGTAACTTAAACCGTGTTATTCCAGACAGTGTAAGCACCAAGATCTCCGATGGCCAAACCGGCCGTGTGACCGTATTCGTACCAAATAAAAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.994534
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0314100.2 5 22870751 C T
Osa05LNT0314100.2 5 22871087 T C
Osa05LNT0314100.2 5 22871958 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
Osa05LNT0314100.2 osa-miR2873c Translation 4.0 19.878 1 21
Osa05LNT0314100.2 osa-miR171i-5p Translation 4.5 17.52 1 21
Osa05LNT0314100.2 osa-miR2101-3p Cleavage 4.0 17.473 1 22
Osa05LNT0314100.2 osa-miR2878-5p Translation 5.0 13.756 1 24
Osa05LNT0314100.2 osa-miR2923 Cleavage 5.0 11.539 1 22
Osa05LNT0314100.2 osa-miR5502 Cleavage 3.5 13.517 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0314100.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0314100.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0314100.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0314100.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0314100.2 5 APAGE1 Physiological trait Eating quality nan nan
Osa05LNT0314100.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0314100.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0314100.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0314100.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0314100.2 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