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

>Osa08LNT0415100.2

CGAGCTGAACAATACCAGGCATGCTAAGGATGGGAATTTCTAATTGCCGGACAGTTTACAGACAGCGACTGACGCAGAGGCACATTTGCGACAGGGAGCTCACTGAGTTACAATATGAATAGCTGCATAGACGAGTTACAACCCAAAATTTGAAGAGAAGATACCCAGACCCGAGTATTGCAGGCAACATTTGCAATTGCTCTAATTGCTTGTACATCGGATAAAGATAGATTATTTCGGGAAATACATTGGTTGGCCAGCCGGTGGAGCATGGTGTGGAGCAGCTGGGGGTACACCATACTGTGGCATCTGATGTGAGGCCTGGAACGATACTGGCAGTGCTCCGGAACTGGATCCAATTCCTGGATAGTGTGGAACTGATCCTGGCATCATTGGTTGGGTTGGGTATGCAGACGATGCCGATCCAAAAGCACCTGCCTGCATGTTTGGATTCCAAGCTGGCACTTGTCCAACAGGAGTCGCTGCCGCAGTGCTGCCATAAAAGGAAGCACTGGGTGCGGTGTTTTGCCATGCCACTCCTGGAGTGCTAGGACCTGGGGCTTGCGCTGCAGCTTGCATTTGTGCACTAGGATCTGATGAAACAGTGTAGTCTCTGCTTCTCTCATCATGTGCCTTTACATTGAGATCAGTATGACGAGAGTATGACAGATGAAGCTTACAGTAACCTCCATCATATATGCAGTGCCCTTCCAAAGCTTGTTTAGCAACTGCTGCCGTTGTGATGTCTGGATATTGAATTAAGGCCTGCATTCCACCATTCTTCTCAAACATTGCAATCTTTTGAACAGTACCAAAAGCAGAGAACACAGTATGTAGAACATCCACCGTCACAGCATACTGCATGTTCTCTATTGAAGCCAAAAGCACATTGCTCTCAGGCTCCTTTATCTTCCCATCAGGGCCTAAAGTGGGCTGTGCGATTCCCTCGATTGCTGTTGGATTCACAGGAAGATATGGATTCGTGTAATCCCTGCTACGATGTGATTGAAACTTGATATTCAAATCCTTGTGCGCAGAAAAGGTTATGCGCAGGTGACAGGTGGGGACATGTTCAGGAAGTAAATATCTCGGGATGCTTCTTCCATCCAACGAATTTTTTGCTTCTAGTGCAGTTGGAGCATCAGTATATTGGATAAGTGCCTGGAAACCAGCAGCCTTCTCAAAGGTTGCTATCTTGTGGACAAACCCAAATGCGGAAAATACCTAAAACATTCACAAACCATTGCGACAAAAGATGAGGATACAAGTCCACTTTCGAGTTTCGACTAATCAGTCGAAGAGCACATGCAAGATTATGCAGAAAGAGAAGGACATGGAGCATAGAACTGAATTGTACTGAAGTAATGAACTTGGATGCTATTATTATATTAGTGAACATGCTATGCTGACAAGTCATATGATGCAGGATGACAAATTGAAGAAGTAATAAACCTGGTAGAAGAAAGAGGAGATTTTGAATTTCCCTTGACATGGAGGTGCCATTTAAGTATCTTAACTGCCATACAATGTATGTGAAATAGGCAGTCTGCAGTGCTTTTAAAGACTACGTGAATCATTAAGTTTTTCGCCAGGAATCAGTATGCATGTCCTAAAGTCCATGGATTAACATTGTCTAGCAAGCATAACAAATCAATAATAGTGTGCATTTAGTAATTAGTTTACATCAAGCCGGTTTTATTTTGATAAAGATATGTCCCGATAAAAAAAAGATCACTGTATCATAGCAACAGAGGCCCAAGTCAATTTTGAAATATAGGCAATATAAGTTTATTCCAACCAAGCTGTTAGCTAAGTGAAGTGCATCACATGTAAAACATGCATACTTACCAAATGAATGACATCTATGCTAATATCATTAGGCTGGACACCTTCAAAAGTGACAAGAAGAACATTGCCAGAGGAATCACCAGTTCCTTTATTGTTGGTAATTTCTTGTCTGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTGAGCAGGTTCTGAAGAAGAAGCATAATATGAAACCATTGAAATTGCCTGGTTTTGATCTGCGAACTCGACGAAGGCCTGGTTGCGGTTGGCGCCGACGTTGCACATGGTGTTGACGACCCTGCCGAAGGGCTTGCAGAGCTCGACGAGCTCCTCCTCGGTGCACTCCCACGGCATGTTCCGGAGGTGGAGCACCTTGGACGGCGTCTGCGTGTACCGGAACTGCGTCGCCGACCCCGACGGCATCCTCGCTGCTGCAGGCGGCGGCGGCGGCGGCTGGCCCTCCCGCCCCCCGGCTCGCTCCGTGCGCGCGCCTCGCCGGCGGGTCTCCCGCGCGCAATAGGGCTAGGGTTTGGGTGAAGTCGAGGCTGGGAGCTAGAGAGAGAGAGAAAGCGCGGCTGGAGATGAGAGATTGAGAGAGAGAGAGAGAGAGATT

Coding Potentia
Explanation CPC Score
noncoding -1.00683
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0415100.2 8 21174959 G A
Osa08LNT0415100.2 8 21175214 A G
Osa08LNT0415100.2 8 21175277 T C
Osa08LNT0415100.2 8 21175473 A T
Osa08LNT0415100.2 8 21175685 T C
Osa08LNT0415100.2 8 21177346 G A
Osa08LNT0415100.2 8 21177549 T C
Osa08LNT0415100.2 8 21177915 A 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
Osa08LNT0415100.2 osa-miR5823 Cleavage 4.5 20.262 1 24
Osa08LNT0415100.2 osa-miR6256 Cleavage 4.0 18.217 1 22
Osa08LNT0415100.2 osa-miR7695-3p Cleavage 4.5 23.446 1 21
Osa08LNT0415100.2 osa-miR156b-3p Cleavage 5.0 17.789 1 21
Osa08LNT0415100.2 osa-miR156b-3p Cleavage 4.5 8.928 1 21
Osa08LNT0415100.2 osa-miR528-5p Cleavage 3.5 16.031 1 21
Osa08LNT0415100.2 osa-miR1424 Translation 3.0 10.028 1 21
Osa08LNT0415100.2 osa-miR1429-3p Cleavage 4.5 19.538 1 21
Osa08LNT0415100.2 osa-miR2876-3p Translation 4.5 9.627 1 21
Osa08LNT0415100.2 osa-miR3979-5p Translation 5.0 8.928 1 20
Osa08LNT0415100.2 osa-miR3981-3p Translation 5.0 13.776 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0415100.2 8 nan Resistance or Tolerance Drought tolerance RG978 RZ66
Osa08LNT0415100.2 8 Aroma Physiological trait Eating quality RG28 RG1
Osa08LNT0415100.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0415100.2 8 nan Physiological trait Source activity R727 R202
Osa08LNT0415100.2 8 qCTS8-2a Resistance or Tolerance Cold tolerance RM223 RM284
Osa08LNT0415100.2 8 qCTS8-2b Resistance or Tolerance Cold tolerance RM223 RM284
Osa08LNT0415100.2 8 qPN-8 Morphological trait Seed RM223 RM80
Osa08LNT0415100.2 8 aro8-1 Physiological trait Eating quality RM223 RM80
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